CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0002 K.E.Flick, M.S.Jurica, R.J.Monnat Junior, B.L.Stoddard DNA Binding and Cleavage by the Nuclear Intron-Encoded Homing Endonuclease I- Ppoi Nature, 394, 96-101, 1998. PD0003 F.Guo, D.N.Gopaul, G.D.Van Duyne Structure of Cre Recombinase Complexed with DNA in a Site- Specific Recombination Synapse Nature, 389, 40-46, 1997. PD0005 J.Ding, K.Das, H.Yu, S.G.Sarafianos, A.D.Clark Junior, A.Jacobo-Molina, C.Tantillo, S.H.Hughes, E.Arnold Structure and Functional Implications of the Polymerase Active Site Region in a Complex of HIV-1 RT with a Double- Stranded DNA and an Antibody Fab Fragment at 2.8 Angstroms Resolution J.Mol.Biol., 284, 1095-1111, 1998. PD0006 J.R.Horton, H.G.Nastri, P.D.Riggs, X.Cheng Asp34 of PvuII Endonuclease is Directly Involved in DNA Minor Groove Recognition and Indirectly Involved in Catalysis J.Mol.Biol., 284, 1491-1504, 1998. PD0009 A.Y.Lau, O.D.Schaerer, L.Samson, G.L.Verdine, T.Ellenberger Crystal Structure of a Human Alkylbase-DNA Repair Enzyme Complexed to DNA: Mechanisms for Nucleotide Flipping and Base Excision Cell (Cambridge,Mass.), 95, 249-258, 1998. PD0010 N.C.Horton, J.J.Perona Recognition of Flanking DNA Sequences by EcoRV Endonuclease Involves Alternative Patterns of Water-Mediated Contacts J.Biol.Chem., 273, 21721-21729, 1998. PD0011 J.R.Horton, J.Bonventre, X.Cheng How is Modification of the DNA Substrate Recognized by the PvuII Restriction Endonuclease? J.Biol.Chem., 379, 451-458, 1998. ----------------------------------------------------------------------- Page 1 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0013 N.C.Horton, J.J.Perona Role of Protein-Induced Bending in the Specificity of DNA Recognition: Crystal Structure of EcoRV Endonuclease Complexed with D(Aaagat) + D(Atctt) J.Mol.Biol., 277, 779-783, 1998. PD0014 C.A.Brautigam, S.Sun, J.A.Piccirilli, T.A.Steitz Structures of Normal Single-Stranded DNA and Deoxyribo-3'-S- Phosphorothiolates Bound to the 3'-5' Exonucleolytic Active Site of DNA Polymerase I from Escherichia Coli Biochemistry, 38, 696-704, 1999. PD0015 C.A.Brautigam, S.Sun, J.A.Piccirilli, T.A.Steitz Structures of Normal Single-Stranded DNA and Deoxyribo-3'-S- Phosphorothiolates Bound to the 3'-5' Exonucleolytic Active Site of DNA Polymerase I from Escherichia Coli Biochemistry, 38, 696-704, 1999. PD0017 M.O'Gara, J.R.Horton, R.J.Roberts, X.Cheng Structures of HhaI methyltransferase complexed with substrates containing mismatches at the target base Nat.Struct.Biol., 5, 872-877, 1998. PD0018 M.O'Gara, J.R.Horton, R.J.Roberts, X.Cheng Structures of HhaI methyltransferase complexed with substrates containing mismatches at the target base Nat.Struct.Biol., 5, 872-877, 1998. PD0019 M.O'Gara, J.R.Horton, R.J.Roberts, X.Cheng Structures of HhaI methyltransferase complexed with substrates containing mismatches at the target base Nat.Struct.Biol., 5, 872-877, 1998. PD0023 H.Huang, R.Chopra, G.L.Verdine, S.C.Harrison Structure of a Covalently Trapped Catalytic Complex of HIV- 1 Reverse Transcriptase: Implications for Drug Resistance Science, 282, 1669-1675, 1998. ----------------------------------------------------------------------- Page 2 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0026 M.S.Jurica, R.J.Monnat Jr., B.L.Stoddard DNA Recognition and Cleavage by the LAGLIDADG Homing Endonuclease I-CreI Mol. Cell, 2, 468-476, 1998. PD0029 H.Viadiu, A.K.Aggarwal The Role of Metals in Catalysis by the Restriction Endonuclease BamHI Nat.Struct.Biol., 5, 910-906, 1998. PD0030 Y.Li, S.Korolev, G.Waksman Crystal Structures of Open and Closed Forms of Binary and Ternary Complexes of the Large Fragment of Thermus Aquaticus DNA Polymerase I: Structural Basis for Nucleotide Incorporation Embo J., 17, 7514-7525, 1998. PD0031 H.Viadiu, A.K.Aggarwal The Role of Metals in Catalysis by the Restriction Endonuclease BamHI Nat.Struct.Biol., 5, 910-916, 1998. PD0032 Y.Li, S.Korolev, G.Waksman Crystal Structures of Open and Closed Forms of Binary and Ternary Complexes of the Large Fragment of Thermus Aquaticus DNA Polymerase I: Structural Basis for Nucleotide Incorporation Embo J., 17, 7514-7525, 1998. PD0033 Y.Li, S.Korolev, G.Waksman Crystal Structures of Open and Closed Forms of Binary and Ternary Complexes of the Large Fragment of Thermus Aquaticus DNA Polymerase I: Structural Basis for Nucleotide Incorporation Embo J., 17, 7514-7525, 1998. PD0034 G.Sheikhnejad, A.Brank, J.K.Christman, A.Goddard, E.Alvarez, H.Ford Junior, V.E.Marquez, C.J.Marasco, J.R.Sufrin, M.O'Gara, X.Cheng Mechanism of Inhibition of DNA-(Cytosine C5) Methyltransferases by Oligodeoxyribonucleotides Containing 5,6-Dihydro-5-Azacytosine J.Mol.Biol., 285, 2021-2034, 1999. ----------------------------------------------------------------------- Page 3 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0037 M.P.Thomas, R.L.Brady, S.E.Halford, R.B.Sessions, G.S.Baldwin Structural analysis of a mutational hot-spot in the EcoRV restriction endonuclease: a catalytic role for a main chain carbonyl group Nucleic Acids Res., 27, 3438-3445, 1999. PD0038 M.P.Thomas, R.L.Brady, S.E.Halford, R.B.Sessions, G.S.Baldwin Structural analysis of a mutational hot-spot in the EcoRV restriction endonuclease: a catalytic role for a main chain carbonyl group Nucleic Acids Res., 27, 3438-3445, 1999. PD0039 M.P.Thomas, R.L.Brady, S.E.Halford, R.B.Sessions, G.S.Baldwin Structural analysis of a mutational hot-spot in the EcoRV restriction endonuclease: a catalytic role for a main chain carbonyl group Nucleic Acids Res., 27, 3438-3445, 1999. PD0040 M.P.Thomas, R.L.Brady, S.E.Halford, R.B.Sessions, G.S.Baldwin Structural analysis of a mutational hot-spot in the EcoRV restriction endonuclease: a catalytic role for a main chain carbonyl group Nucleic Acids Res., 27, 3438-3445, 1999. PD0041 G.Slupphaug, C.D.Mol, B.Kavli, A.S.Arvai, H.E.Krokan, J.A.Tainer A Nucleotide-Flipping Mechanism from the Structure of Human Uracil-DNA Glycosylase Bound to DNA Nature, 384, 87-92, 1996. PD0043 S.S.Velankar, P.Soultanas, M.S.Dillingham, H.S.Subramanya, D.B.Wigley Crystal structures of complexes of PcrA DNA helicase with a DNA substrate indicate an inchworm mechanism. Cell, 97, 75-98, 1999. PD0044 S.S.Velankar, P.Soultanas, M.S.Dillingham, H.S.Subramanya, D.B.Wigley Crystal structures of complexes of PcrA DNA helicase with a DNA substrate indicate an inchworm mechanism Cell (Cambridge,Mass.), 97, 75-98, 1999. ----------------------------------------------------------------------- Page 4 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0047 F.Guo, D.N.Gopaul, G.D.Van Duyne Asymmetric DNA-Bending in the Cre-Loxp Site-Specific Recombination Synapse Proc.Nat.Acad.Sci.USA, 96, 7143-7148, 1999. PD0048 F.Guo, D.N.Gopaul, G.D.Van Duyne Asymmetric DNA-Bending in the Cre-loxP Site-Specific Recombination Synapse Proc.Nat.Acad.Sci.USA, 96, 7143-7148, 1999. PD0049 M.Horvath, J.Choi, Y.Kim, P.A.Wilkosz, K.Chandrasekhar, J.M.Rosenberg The Integration of Recognition and Cleavage: X-Ray Structures of Pre-Transition State and Post-Reactive DNA- Eco Ri Endonuclease Complexes To be Published, n.a., n.a.-n.a., n.a.. PD0052 S.S.Parikh, C.D.Mol, G.Slupphaug, S.Bharati, H.E.Krokan, J.A.Tainer Base excision repair initiation revealed by crystal structures and binding kinetics of human uracil-DNA glycosylase with DNA. EMBO J., 17, 5214-5226, 1998. PD0053 S.S.Parikh, C.D.Mol, G.Slupphaug, S.Bharati, H.E.Krokan, J.A.Tainer Base Excision Repair Initiation Revealed by Crystal Structures and Binding Kinetics of Human Uracil-DNA Glycosylase with DNA Embo J., 17, 5214-5226, 1998. PD0054 M.Horvath, J.M.Rosenberg Iap (Inner-Adenine to Purine): A Cognate EcoRI-DNA Base Analog Complex To be Published, n.a., n.a.-n.a., n.a.. PD0055 M.M.Horvath, J.Choi, Y.Kim, P.Wilkosz, J.M.Rosenberg The Integration of Recognition and Cleavage: X-Ray Structures of Pre- Transition State and Post-Reactive DNA- Eco RI Endonuclease Complexes To be Published, n.a., n.a.-n.a., n.a.. ----------------------------------------------------------------------- Page 5 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0062 J.Choi, Y.Kim, P.Greene, P.Hager, J. M.Rosenberg X-Ray Structure of the DNA-Eco RI Endonuclease Complexes with the ED144 and RK145 Mutations To be Published, n.a., n.a.-n.a., n.a.. PD0063 J.Choi, Y.Kim, P.Greene, P.Hager, J.M.Rosenberg X-Ray Structure of the DNA-Eco RI Endonuclease Complexes with the ED144 and RK145 Mutations To be Published, n.a., n.a.-n.a., n.a.. PD0064 C.A.Brautigam, K.Aschheim, T.A.Steitz Structural elucidation of the binding and inhibitory properties of lanthanide (III) ions at the 3'-5' exonucleolytic active site of the Klenow fragment Chem.Biol., 6, 901-908, 1999. PD0065 Y.Li, V.Mitaxov, G.Waksman Structure-based design of novel Taq DNA polymerase with improved properties of dideoxynucleotide incorporation Proc.Nat.Acad.Sci.USA, 96, 9491-9496, 1999. PD0066 Y.Li, V.Mitaxov, G.Waksman Structure-based design of novel Taq DNA polymerase with improved properties of dideoxynucleotide incorporation Proc.Nat.Acad.Sci.USA, 96, 9491-9496, 1999. PD0067 Y.Li, V.Mitaxov, G.Waksman Structure-based design of novel Taq DNA polymerase with improved properties of dideoxynucleotide incorporation Proc.Nat.Acad.Sci.USA, 96, 9491-9496, 1999. PD0068 D.J.Hosfield, Y.Guan, B.J.Haas, R.P.Cunningham, J.A.Tainer Structure of the DNA Repair Enzyme Endonuclease IV and its DNA Complex: Double- Nucleotide Flipping at Abasic Sites and Three-Metal-Ion Catalysis Cell (Cambridge,Mass.), 98, 397-408, 1999. ----------------------------------------------------------------------- Page 6 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0072 M.Teplova, S.T.Wallace, V.Tereshko, G.Minasov, A.M.Symons, P.D.Cook, M.Manoharan, M.Egli Structural origins of the exonuclease resistance of a zwitterionic RNA. Proc.Natl.Acad.Sci.USA, 96, 14240-14245, 1999. PD0079 Y.Shamoo, T.A.Steitz Crystal Structure of a Replication Fork DNA Polymerase Editing Complex at 2.7 A Resolution Cell (Cambridge,Mass.), 99, 155-166, 1999. PD0080 M.Teplova, S.T.Wallace, V.Tereshko, G.Minasov, A.M.Simons, P.D.Cook, M.Manoharan, M.Egli Structural origins of the exonuclease resistance of a zwitterionic RNA Proc.Nat.Acad.Sci.USA, 96, 14240-14245, 1999. PD0085 M.J.van der Woerd, J.J.Pelletier, S.-y.Xu, A.M.Friedman Restriction enzyme BsoBI-DNA Complex: A tunnel for recognition of degenerate DNA sequences and potential histidine catalysis Structure, 9, 133-144, 2001. PD0086 G.M.T.Cheetham, D.Jeruzalmi, T.A.Steitz Structural Basis for Initiation of Transcription from an RNA Polymerase- Promoter Complex Nature, 399, 80-83, 1999. PD0093 C.D.Mol, T.Izumi, S.Mitra, J.A.Tainer DNA-bound structures and mutants reveal abasic DNA binding by APE1 DNA repair and coordination Nature, 403, 451-456, 2000. PD0094 C.D.Mol, T.Izumi, S.Mitra, J.A.Tainer DNA-bound structures and mutants reveal abasic DNA binding by APE1 and DNA repair coordination Nature, 403, 451-456, 2000. ----------------------------------------------------------------------- Page 7 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0095 C.D.Mol, T.Izumi, S.Mitra, J.A.Tainer DNA-bound structures and mutants reveal abasic DNA binding by APE1 and DNA repair coordination Nature, 403, 451-456, 2000. PD0096 E.A.Galburt, B.Chevalier, W.Tang, M.S.Jurica, K.E.Flick, R.J.Monnat Jr., B.L.Stoddard A novel endonuclease mechanism directly visualized for I- PpoI. Nat.Struct.Biol., 6, 1096-1099, 1999. PD0097 E.A.Galburt, B.Chevalier, W.Tang, M.S.Jurica, K.E.Flick, R.J.Monnat Jr., B.L.Stoddard A novel endonuclease mechanism directly visualized for I- PpoI. Nat.Struct.Biol., 6, 1096-1099, 1999. PD0098 D.Hargreaves, D.W.Rice, S.E.Sedelnikova, P.J.Artymiuk, R.G.Lloyd, J.B.Rafferty Crystal Structure of E.Coli Ruva with Bound DNA Holliday Junction at 6 A Resolution Nat.Struct.Biol., 5, 441-446, 1998. PD0099 T.Hollis, Y.Ichikawa, T.Ellenberger DNA bending and a flip-out mechanism for base excision by the Helix-hairpin-Helix DNA glycosylase, Escherichia coli AlkA Embo J., 19, 758-766, 2000. PD0100 S.E.Tsutakawa, H.Jingami, K.Morikawa Recognition of a TG Mismatch: The Crystal Structure of Very Short Patch Repair Endonuclease in Complex with a DNA Duplex Cell (Cambridge,Mass.), 99, 615-623, 1999. PD0101 C.M.Lukacs, R.Kucera, I.Schildkraut, A.K.Aggarwal Understanding the Immutability of Restriction Enzymes: Crystal Structure of BglII and its DNA Substrate at 1.5 A Resolution Nat.Struct.Biol., 7, 134-140, 2000. ----------------------------------------------------------------------- Page 8 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0103 D.N.Gopaul, F.Guo, G.D.Van Duyne Structure of the Holliday junction intermediate in Cre-loxP site-specific recombination Embo J., 17, 4175-4187, 1998. PD0104 D.N.Gopaul, F.Guo, G.D.Van Duyne Structure of the Holliday junction intermediate in Cre-loxP site-specific recombination Embo J., 17, 4175-4187, 1998. PD0105 C.A.Brautigam, S.Sun, J.A.Piccirilli, T.A.Steitz Structures of normal single-stranded DNA and deoxyribo-3'-S- phosphorothiolates bound to the 3'-5' exonucleolytic active site of DNA polymerase I from Escherichia coli Biochemistry, 38, 696-704, 1999. PD0106 C.A.Brautigam, S.Sun, J.A.Piccirilli, T.A.Steitz Structures of normal single-stranded DNA and deoxyribo-3'-S- phosphorothiolates bound to the 3'-5' exonucleolytic active site of DNA polymerase I from Escherichia coli Biochemistry, 38, 696-704, 1999. PD0108 M.Newman, K.Lunnen, G.Wilson, J.Greci, I.Schildkraut, S.E.V.Phillips Crystal structure of restriction endonuclease BglI bound to its interrupted DNA recognition sequence Embo J., 17, 5466-5476, 1998. PD0113 K.C.Woods, S.S.Martin, V.C.Chu, E.P.Baldwin Quasi-equivalence in site-specific recombinase structure and function: crystal structure and activity of trimeric Cre recombinase bound to a three-way Lox DNA junction J.Mol.Biol., 313, 49-69, 2001. PD0117 S.D.Bruner, D.P.Norman, G.L.Verdine Structural basis for recognition and repair of the endogenous mutagen 8-oxoguanine in DNA Nature, 403, 859-866, 2000. ----------------------------------------------------------------------- Page 9 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0125 M.R.Redinbo, J.J.Champoux, W.G.Hol Novel Insights into Catalytic Mechanism from a Crystal Structure of Human Topoisomerase I in Complex with DNA Biochemistry, 39, 6832-6840, 2000. PD0126 S.Najmudin, M.Cote, D.Sun, S.Yohannan, S.P.Montano, J.Gu, M.M.Georgiadis Crystal structures of an N-terminal fragment from moloney murine leukemia virus reverse transcriptase complexed with nucleic acid: functional implications for template-primer binding to the fingers domain J.Mol.Biol., 296, 613-622, 2000. PD0127 S.S.Parikh, G.Walcher, G.D.Jones, G.Slupphaug, H.E.Krokan, G.M.Blackburn, J.A.Tainer Uracil-DNA Glycosylase-DNA Substrate and Product Structures: Conformational Strain Promotes Catalytic Efficiency by Coupled Stereoelectronic Effects Proc.Nat.Acad.Sci.USA, 97, 5083-5088, 2000. PD0128 S.S.Parikh, G.Slupphaug, H.E.Krokan, G.M.Blackburn, J.A.Tainer Uracil-DNA Glycosylase-DNA Substrate and Product Structures: Conformational Strain Promotes Catalytic Efficiency by Coupled Stereoelectronic Effects Proc.Nat.Acad.Sci.USA, 97, 5083-5088, 2000. PD0129 N.C.Horton, B.A.Connolly, J.J.Perona Inhibition of EcoRV Endonuclease by Deoxyribo-3'-S- phosphorothiolates: A High-resolution X-ray crystallographic Study To be Published, n.a., n.a.-n.a., 2000. PD0130 N.C.Horton, B.A.Connolly, J.J.Perona Inhibition of EcoRV Endonuclease by Deoxyribo-3'-S- phosphorothiolates: A High-resolution Xray-crystallographic Study To be Published, n.a., n.a.-n.a., 2000. PD0131 N.C.Horton, B.A.Connolly, J.J.Perona Inhibition of EcoRV Endonuclease by Deoxyribo-3'-S- phosphorothiolates: A High-resolution X-ray crystallographic Study To be Published, n.a., n.a.-n.a., 2000. ----------------------------------------------------------------------- Page 10 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0132 N.C.Horton, J.J.Perona Crystallographic Snapshots Along a Protein-Induced DNA- Bending Pathway Proc.Nat.Acad.Sci.USA, 97, 5729-5734, 2000. PD0133 N.C.Horton, J.J.Perona Crystallographic Snapshots Along a Protein-Induced DNA- Bending Pathway Proc.Nat.Acad.Sci.USA, 97, 5729-5734, 2000. PD0134 S.Najmudin, M.L.Cote, D.Sun, S.Yohannan, S.P.Montano, J.Gu, M.M.Georgiadis Crystal structures of an N-terminal fragment from Moloney murine leukemia virus reverse transcriptase complexed with nucleic acid: Functional implications for template-primer binding to the fingers domain J.Mol.Biol., 296, 613-632, 2000. PD0135 S.Najmudin, M.L.Cote, D.Sun, S.Yohannan, S.P.Montano, J.Gu, M.M.Georgiadis Crystal structures of an N-terminal fragment from Moloney murine leukemia virus reverse transcriptase complexed with nucleic acid: functional implications for template-primer binding to the fingers domain J.Mol.Biol., 296, 613-632, 2000. PD0139 H.Viadiu, A.K.Aggarwal Structure of BamHI bound to non-specific DNA: A model for DNA sliding Mol. Cell, 5, 889-895, 2000. PD0140 E.A.Galburt, M.S.Chadsey, M.S.Jurica, B.S.Chevalier, D.Erho, W.Tang, R.J.Monnat JR, B.L.Stoddard Conformational changes and cleavage by the homing endonuclease I-PpoI: a critical role for a leucine residue in the active site J.Mol.Biol., 300, 877-887, 2000. PD0141 A.Y.Lau, M.D.Wyatt, B.J.Glassner, L.D.Samson, T.Ellenberger Molecular basis for discriminating between normal and damaged bases by the human alkyladenine glycosylase, AAG Proc.Nat.Acad.Sci.USA, 97, 13573-13578, 2000. ----------------------------------------------------------------------- Page 11 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0147 J.R.Horton, X.Cheng PvuII Endonuclease Contains Two Calcium Ions in Active Sites J.Mol.Biol., 300, 1051-1058, 2000. PD0149 J.R.Horton, X.Cheng PvuII endonuclease contains two calcium ions in active sites J.Mol.Biol., 300, 1051-1058, 2000. PD0150 Y.S.Liu, G.Gotte, M.Libonati, D.S.Eisenberg A domain-swapped RNase A dimer with implications for amyloid formation Nat.Struct.Biol., 8, 211-214, 2001. PD0151 M.Deibert, S.Grazulis, A.Janulaitis, V.Siksnys, R.Huber Crystal structure of Mun I restriction endonuclease in complex with cognate DNA at 1.7 A resolution Embo J., 18, 5805-5816, 1999. PD0152 M.L.Cote, S.J.Yohannan, M.M.Georgiadis Use of an N-terminal fragment from Moloney murine leukemia virus reverse transcriptase to facilitate crystallization and analysis of a pseudo-16-mer DNA molecule containing G-A mispairs Acta Crystallogr., Sect.D, 56, 1120-1131, 2000. PD0153 C.M.Lukacs, R.Kucera, I.Schildkraut, A.K.Aggarwal Understanding the immutability of restriction enzymes: crystal structure of BglII and its DNA substrate at 1.5 A resolution. Nat.Struct.Biol., 7, 134-140, 2000. PD0166 K.C.Woods, S.S.Martin, V.Chu, E.P.Baldwin Quasiequivalence in site-specific recombinase structure and function: crystal structure and activity of trimeric Cre recombinase bound to a Lox three-way DNA junction J.Mol.Biol., 313, 49-69, 2001. ----------------------------------------------------------------------- Page 12 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0168 A.Y.Lau, M.D.Wyatt, B.J.Glassner, L.D.Samson, T.Ellenberger Molecular basis for discriminating between normal and damaged bases by the human alkyladenine glycosylase, AAG Proc.Nat.Acad.Sci.USA, 97, 13573-13578, 2000. PD0172 A.Y.Lau, M.D.Wyatt, B.J.Glassner, L.D.Samson, T.Ellenberger Molecular basis for discriminating between normal and damaged bases by the human alkyladenine glycosylase, AAG Proc.Nat.Acad.Sci.USA, 97, 13573-13578, 2000. PD0177 M.Deibert, S.Grazulis, G.Sasnauskas, V.Siksnys, R.Huber Structure of the tetrameric restriction endonuclease NgoMIV in complex with cleaved DNA Nat.Struct.Biol., 9, 792-799, 2000. PD0178 Y.Chen, U.Narendra, L.E.Iype, M.M.Cox, P.A.Rice Crystal Structure of a Flp Recombinase-Holliday Junction Complex: Assembly of an Active Oligomer by Helix Swapping Mol. Cell, 6, 885-892, 2000. PD0179 D.P.G.Norman, S.D.Bruner, G.L.Verdine Coupling of Substrate Recognition and Catalysis by a Human Base-Excision DNA Repair Protein J.Am.Chem.Soc., 123, 359-360, 2001. PD0188 K.Goedecke, M.Pignot, R.S.Goody, A.J.Scheidig, E.Weinhold Structure of the N6-adenine DNA methyltransferase M.TaqI in complex with DNA and a cofactor analog. Nat.Struct.Biol., 8, 121-125, 2001. PD0189 B.Chevalier, R.J.Monnat, B.L.Stoddard The LAGLIDADG Homing Endonuclease I-CREI Shares Three Metals Between Two Active Sites Nat.Struct.Biol., 8, 312-316, 2001. ----------------------------------------------------------------------- Page 13 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0190 B.Chevalier, R.J.Monnat, B.L.Stoddard The LAGLIDADG Homing Endonuclease I-CREI Shares Three Metals Between Two Active Sites Nat.Struct.Biol., 8, 312-316, 2001. PD0194 G.Vilkaitis, A.Dong, E.Weinhold, X.Cheng, S.Klimasauskas Functional roles of the conserved threonine 250 in the target recognition domain of HhaI DNA methyltransferase J.Biol.Chem., 275, 38722-38730, 2000. PD0195 J.C.Fromme, S.D.Bruner, W.Yang, M.Karplus, G.L.Verdine Product-Assisted Catalysis in base-excision DNA Repair Nat.Struct.Biol., 10, 204-211, 2003. PD0196 J.W.Arndt, W.Gong, X.Zhong, A.K.Showalter, J.Liu, C.A.Dunlop, Z.Lin, C.Paxson, M.-D.Tsai, M.K.Chan Insight into the Catalytic Mechanism of DNA Polymerase beta: Structures of Intermediate Complexes Biochemistry, 40, 5368-5375, 2001. PD0197 J.W.Arndt, W.Gong, X.Zhong, A.K.Showalter, J.Liu, C.A.Dunlap, Z.Lin, C.Paxson, M.-D.Tsai, M.K.Chan Insight into the Catalytic Mechanism of DNA Polymerase Beta: Structures of Intermediate Complexes. Biochemistry, 40, 5368-5375, 2001. PD0200 P.Van Roey, C.A.Waddling, K.M.Fox, M.Belfort, V.Derbyshire Intertwined Structure of the DNA-Binding Domain of Intron Endonuclease I-TevI with its Substrate Embo J., 20, 3631-3637, 2001. PD0202 M.L.Cote, M.M.Georgiadis Structure of a Pseudo-16-mer DNA with Stacked Guanines and Two G-A Mispairs Complexed with the N-Terminal Fragment of Moloney Murine Leukemia Virus Reverse Transcriptase Acta Crystallogr., Sect.D, 57, 1238-1250, 2001. ----------------------------------------------------------------------- Page 14 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0203 A.Changela, R.J.DiGate, A.Mondragon Crystal Structure of a Complex of a Type IA DNA Topoisomerase with a Single-Stranded DNA Molecule Nature, 411, 1077-1081, 2001. PD0207 Q.Huai, J.D.Colandene, M.D.Topal, H.Ke Structure of NaeI-DNA Complex Reveals Dual-Mode DNA Recognition and Complete Dimer Rearrangement Nat.Struct.Biol., 8, 665-669, 2001. PD0212 M.C.Franklin, J.Wang, T.A.Steitz Structure of the Replicating Complex of a Pol Alpha Family DNA Polymerase Cell (Cambridge,Mass.), 105, 657-667, 2001. PD0213 T.K.Chiu, C.Sohn, R.E.Dickerson, R.C.Johnson Testing Water-Mediated DNA Recognition by the Hin Recombinase Embo J., 21, 801-814, 2002. PD0216 S.J.Butcher, J.M.Grimes, E.V.Makeyev, D.H.Bamford, D.I.Stuart A Mechanism for Initiating RNA-Dependent RNA Polymerization Nature, 410, 235-240, 2001. PD0217 S.J.Butcher, J.M.Grimes, E.V.Makeyev, D.H.Bamford, D.I.Stuart A Mechanism for Initiating RNA-Dependent RNA Polymerization Nature, 410, 235-240, 2001. PD0220 J.R.Walker, R.A.Corpina, J.Goldberg Structure of the Ku Heterodimer Bound to DNA and its Implications for Double-Strand Break Repair Nature, 412, 607-614, 2001. ----------------------------------------------------------------------- Page 15 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0228 T.K.Chiu, C.Sohn, R.E.Dickerson, R.C.Johnson Testing Water-Mediated DNA Recognition by the Hin Recombinase Embo J., 21, 801-814, 2002. PD0229 T.K.Chiu, C.Sohn, R.E.Dickerson, R.C.Johnson Testing Water-Mediated DNA Recognition by the Hin Recombinase Embo J., 21, 801-814, 2002. PD0234 T.K.Chiu, C.Sohn, R.E.Dickerson, R.C.Johnson Testing Water-Mediated DNA Recognition by the Hin Recombinase Embo J., 21, 801-814, 2002. PD0235 T.K.Chiu, C.Sohn, R.E.Dickerson, R.C.Johnson Testing Water-Mediated DNA Recognition by the Hin Recombinase Embo J., 21, 801-814, 2002. PD0236 T.K.Chiu, C.Sohn, R.E.Dickerson, R.C.Johnson Testing Water-Mediated DNA Recognition by the Hin Recombinase Embo J., 21, 801-814, 2002. PD0237 T.K.Chiu, C.Sohn, R.E.Dickerson, R.C.Johnson Testing Water-Mediated DNA Recognition by the Hin Recombinase Embo J., 21, 801-814, 2002. PD0242 S.Baudet, J.Janin Crystal Structure of a Barnase-D(Gpc) Complex at 1.9 Angstroms Resolution J.Mol.Biol., 219, 123-132, 1991. ----------------------------------------------------------------------- Page 16 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0251 H.Ling, F.Boudsocq, R.Woodgate, W.Yang Crystal Structure of a Y-family DNA Polymerase in Action: a Mechanism for Error-Prone and Lesion-Bypass Replication Cell (Cambridge,Mass.), 107, 91-102, 2001. PD0252 H.Ling, F.Boudsocq, R.Woodgate, W.Yang Crystal Structure of a Y-family DNA Polymerase in Action: a Mechanism for Error-Prone and Lesion-Bypass Replication Cell (Cambridge,Mass.), 107, 91-102, 2001. PD0253 D.O.Zharkov, G.Golan, R.Gilboa, A.S.Fernandes, S.E.Gerchman, J.H.Kycia, R.A.Rieger, A.P.Grollman, G.Shoham Structural analysis of an Escherichia coli endonuclease VIII covalent reaction intermediate Embo J., 21, 789-800, 2002. PD0254 D.O.Zharkov, G.Golan, R.Gilboa, A.S.Fernandes, S.E.Gerchman, J.H.Kycia, R.A.Rieger, A.P.Grollman, G.Shoham Structural analysis of an Escherichia coli endonuclease VIII covalent reaction intermediate Embo J., 21, 789-800, 2002. PD0255 B.L.Staker, K.Hjerrild, M.D.Feese, C.A.Behnke, A.B.Burgin Jr., L.J.Stewart The mechanism of topoisomerase I poisoning by a camptothecin analog PROC.NAT.ACAD.SCI.USA, 99, 15387-15392, 2002. PD0256 B.L.Staker, K.Hjerrild, M.D.Feese, C.A.Behnke, A.B.Burgin Jr., L.J.Stewart The mechanism of topoisomerase I poisoning by a camptothecin analog PROC.NAT.ACAD.SCI.USA, 99, 15387-15392, 2002. PD0264 R.Gilboa, D.O.Zharkov, G.Golan, A.S.Fernandes, S.E.Gerchman, E.Matz, J.H.Kycia, A.P.Grollman, G.Shoham Structure of formamidopyrimidine-DNA glycosylase covalently complexed to DNA J.Biol.Chem., 277, 19811-19816, 2002. ----------------------------------------------------------------------- Page 17 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0267 M.R.Singleton, S.Scaife, D.B.Wigley Structural Analysis of DNA Replication Fork Reversal by Recg Cell (Cambridge,Mass.), 107, 79-89, 2001. PD0271 S.S.Martin, E.Pulido, V.C.Chu, T.S.Lechner, E.P.Baldwin The Order of Strand Exchanges in Cre-LoxP Recombination and its Basis Suggested by the Crystal Structure of a Cre-LoxP Holliday Junction Complex J.Mol.Biol., 319, 107-127, 2002. PD0272 N.C.Horton, L.F.Dorner, J.J.Perona Sequence Selectivity and Degeneracy of a Restriction Endonuclease Mediated by DNA Intercalation Nat.Struct.Biol., 9, 42-47, 2002. PD0275 M.Delarue, J.B.Boule, J.Lescar, N.Expert-Bezancon, N.Jourdan, N.Sukumar, F.Rougeon, C.Papanicolaou Crystal structures of a template-independent DNA polymerase: murine terminal deoxynucleotidyltransferase Embo J., 21, 427-439, 2002. PD0277 L.Serre, K.Pereira de Jesus, S.Boiteux, C.Zelwer, B.Castaing Crystal structure of the Lactococcus lactis formamidopyrimidine-DNA glycosylase bound to an abasic site analogue-containing DNA Embo J., 21, 2854-2865, 2002. PD0292 J.C.Fromme, G.L.Verdine Structural insights into lesion recognition and repair by the bacterial 8-oxoguanine DNA glycosylase MutM Nat.Struct.Biol., 9, 544-552, 2002. PD0293 J.C.Fromme, G.L.Verdine Structural insights into lesion recognition and repair by the bacterial 8-oxoguanine DNA glycosylase MutM Nat.Struct.Biol., 9, 544-552, 2002. ----------------------------------------------------------------------- Page 18 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0295 J.C.Fromme, G.L.Verdine Structural insights into lesion recognition and repair by the bacterial 8-oxoguanine DNA glycosylase MutM Nat.Struct.Biol., 9, 544-552, 2002. PD0296 J.C.Fromme, G.L.Verdine Structural insights into lesion recognition and repair by the bacterial 8-oxoguanine DNA glycosylase MutM Nat.Struct.Biol., 9, 544-552, 2002. PD0300 S.J.Johnson, J.S.Taylor, L.S.Beese Processive DNA synthesis observed in a polymerase crystal suggests a mechanism for the prevention of frameshift mutations Proc.Nat.Acad.Sci.USA, 100, 3895-3900, 2003. PD0301 S.J.Johnson, J.S.Taylor, L.S.Beese Processive DNA synthesis observed in a polymerase crystal suggests a mechanism for the prevention of frameshift mutations Proc.Nat.Acad.Sci.USA, 100, 3895-3900, 2003. PD0302 S.J.Johnson, J.S.Taylor, L.S.Beese Processive DNA synthesis observed in a polymerase crystal suggests a mechanism for the prevention of frameshift mutations Proc.Nat.Acad.Sci.USA, 100, 3895-3900, 2003. PD0303 S.J.Johnson, J.S.Taylor, L.S.Beese Processive DNA synthesis observed in a polymerase crystal suggests a mechanism for the prevention of frameshift mutations Proc.Nat.Acad.Sci.USA, 100, 3895-3900, 2003. PD0304 S.J.Johnson, J.S.Taylor, L.S.Beese Processive DNA synthesis observed in a polymerase crystal suggests a mechanism for the prevention of frameshift mutations Proc.Nat.Acad.Sci.USA, 100, 3895-3900, 2003. ----------------------------------------------------------------------- Page 19 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0305 K.S.Murakami, S.Masuda, E.A.Campbell, O.Muzzin, S.A.Darst Structural Basis of Transcription Initiation: An RNA Polymerase Holoenzyme-DNA Complex Science, 296, 1285-1290, 2002. PD0306 B.Benoff, H.Yang, C.L.Lawson, G.Parkinson, J.Lui, E.Blatter, Y.W.Ebright, H.M.Berman, R.H.Ebright Structural basis of transcription activation: The Structure of CAP-alphaCTD-DNA Complex Science, 297, 1562-1566, 2002. PD0313 D.T.Lesher, Y.Pommier, L.Stewart, M.R.Redinbo 8-Oxoguanine Rearranges the Active Site of Human Topoisomerase I Proc.Nat.Acad.Sci.USA, 99, 12102-12107, 2002. PD0316 S.G.Sarafianos, K.Das, A.D.Clark Jr., J.Ding, P.L.Boyer, S.H.Hughes, E.Arnold Lamivudine (3TC) Resistance in HIV-1 Reverse Transcriptase Involves Steric Hindrance with Beta-Branched Amino acids Proc.Nat.Acad.Sci.USA, 96, 10027-10032, 1999. PD0317 S.J.Johnson, J.S.Taylor, L.S.Beese Processive DNA synthesis observed in a polymerase crystal suggests a mechanism for the prevention of frameshift mutations Proc.Nat.Acad.Sci.USA, 100, 3895-3900, 2003. PD0319 C.M.Moure, F.S.Gimble, F.A.Quiocho Crystal structure of the intein homing endonuclease PI-SceI bound to its recognition sequence Nat.Struct.Biol., 9, 764-770, 2002. PD0320 C.M.Moure, F.S.Gimble, F.A.Quiocho Crystal structure of the intein homing endonuclease PI-SceI bound to its recognition sequence Nat.Struct.Biol., 9, 764-770, 2002. ----------------------------------------------------------------------- Page 20 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0321 J.C.Fromme, S.D.Bruner, W.Yang, M.Karplus, G.L.Verdine Product-Assisted Catalysis in Base Excision DNA Repair Nat.Struct.Biol., 10, 204-211, 2003. PD0322 J.C.Fromme, S.D.Bruner, W.Yang, M.Karplus, G.L.Verdine Product-Assisted Catalysis in Base Excision DNA Repair Nat.Struct.Biol., 10, 204-211, 2003. PD0323 J.C.Fromme, S.D.Bruner, W.Yang, M.Karplus, G.L.Verdine Product-Assisted Catalysis in Base Excision DNA Repair Nat.Struct.Biol., 10, 204-211, 2003. PD0327 L.Zhou, X.Cheng, B.A.Connolly, M.J.Dickman, P.J.Hurd, D.P.Hornby ZEBULARINE: A NOVEL DNA METHYLATION INHIBITOR THAT FORMS A COVALENT COMPLEX WITH DNA METHYLTRANSFERASES J.MOL.BIOL., 321, 591-599, 2002. PD0331 S.J.Chung, G.L.Verdine 8-Aminoguanine-Assisted DNA Ligation in D268E Hogg1 To be Published, n.a., n.a.-n.a., n.a.. PD0332 S.J.Chung, G.L.Verdine 8-Aminoguanine-Assisted DNA Ligation in hogg1 D268E Mutant To be Published, n.a., n.a.-n.a., n.a.. PD0333 L.Lariviere, S.Morera A Base-flipping Mechanism for the T4 Phage beta- Glucosyltransferase and Identification of a Transition- state Analog J.Mol.Biol., 324, 483-490, 2002. ----------------------------------------------------------------------- Page 21 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0334 L.Lariviere, S.Morera A Base-flipping mechanism for the T4 phage beta- glucosyltransferase and identification of a transition state analog J.Mol.Biol., 324, 483-489, 2002. PD0335 B.Chevalier, M.Turmel, C.Lemieux, R.J.Monnat, B.L.Stoddard Flexible DNA Target Site Recognition by Divergent Homing Endonuclease Isoschizomers I-CreI and I-MsoI J.Mol.Biol., 329, 253-269, 2003. PD0336 A.B.Conway, Y.Chen, P.A.Rice Structural Plasticity of the Flp-Holliday Junction Complex J.Mol.Biol., 326, 425-434, 2003. PD0337 S.S.Martin, V.C.Chu, E.P.Baldwin Modulation of the active complex assembly and turnover rate by protein-DNA interactions in Cre-LoxP recombination Biochemistry, 42, 6814-6826, 2003. PD0340 M.Steiniger-White, A.Bhasin, S.Lovell, I.Rayment, W.S.Reznikoff Evidence for "unseen" Transposase--DNA contacts J.Mol.Biol., 322, 971-982, 2002. PD0342 B.S.Chevalier, T.Kortemme, M.S.Chadsey, D.Baker, R.J.Monnat Jr., B.L.Stoddard Design, Activity and Structure of a Highly Specific Artificial Endonuclease Mol. Cell, 10, 895-905, 2002. PD0343 J.M.Krahn, W.A.Beard, H.Miller, A.P.Grollman, S.H.Wilson Structure of DNA Polymerase beta with the Mutagenic DNA Lesion 8-oxodeoxyguanine Reveals Structural Insights into its Coding Potential Structure, 11, 121-127, 2003. ----------------------------------------------------------------------- Page 22 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0344 J.M.Krahn, W.A.Beard, H.Miller, A.P.Grollman, S.H.Wilson Structure of DNA Polymerase beta with the Mutagenic DNA Lesion 8-oxodeoxyguanine Reveals Structural Insights into its Coding Potential Structure, 11, 121-127, 2003. PD0345 Y.W.Yin, T.A.Steitz Structural Basis for the Transition from Initiation to Elongation Transcription in T7 RNA Polymerase Science, 298, 1387-1395, 2002. PD0346 T.E.Barrett, R.Savva, T.Barlow, T.Brown, J.Jiricny, L.H.Pearl Structure of a DNA Base Excision Product Resembling a Cisplatin Inter-Strand Adduct Nat.Struct.Biol., 5, 697-701, 1998. PD0347 D.R.Davies, I.Y.Goryshin, W.S.Reznikoff, I.Rayment Three-dimensional structure of the Tn5 synaptic complex transposition intermediate. Science, 289, 77-85, 2000. PD0349 S.Lovell, I.Y.Goryshin, W.R.Reznikoff, I.Rayment Two-Metal Active Site Binding of a Tn5 Transposase Synaptic Complex Nat.Struct.Biol., 9, 278-281, 2002. PD0350 H.M.Holden, J.B.Thoden, M.Steiniger-White, W.S.Reznikoff, S.Lovell, I.Rayment Hairpin Resolution in Single Crystals of a Tn5 Transposase Synaptic Complex To be Published, n.a., n.a.-n.a., n.a.. PD0353 T.E.Barrett, R.Savva, G.Panayotou, T.Brown, T.Barlow, J.Jiricny, L.H.Pearl Crystal structure of a G:T/U mismatch specific DNA glycosylase: Mismatch recognition by complementary strand interactions Cell (Cambridge,Mass.), 92, 117-129, 1998. ----------------------------------------------------------------------- Page 23 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0354 T.E.Barrett, O.Scharer, R.Savva, T.Brown, J.Jiricny, G.L.Verdine, L.H.Pearl Crystal Structure of a thwarted mismatch glycosylase DNA repair complex Embo J., 18, 6599-6609, 1999. PD0358 H.Ling, F.Boudsocq, R.Woodgate, W.Yang A Y-family polymerase complexed with abasic lesions: catching DNA with a loaded nucleoside triphosphate To be Published, n.a., n.a.-n.a., n.a.. PD0359 M.L.Cote', M.Pflomm, M.M.Georgiadis Staying Straight with A-tracts: A DNA Analog of the HIV-1 Polypurine Tract J.Mol.Biol., 330, 57-74, 2003. PD0360 B.Chevalier, M.Turmel, C.Lemieux, R.J.Monnat, B.L.Stoddard Flexible DNA Target Site Recognition by Divergent Homing Endonuclease Isoschizomers I-CreI and I-MsoI J.Mol.Biol., 329, 253-269, 2003. PD0361 B.Chevalier, M.Turmel, C.Lemieux, R.J.Monnat, B.L.Stoddard Flexible DNA Target Site Recognition by Divergent Homing Endonuclease Isoschizomers I-CreI and I-MsoI J.Mol.Biol., 329, 253-269, 2003. PD0362 H.Ling, F.Boudsocq, R.Woodgate, W.Yang A Y-family polymerase complexed with abasic lesions: catching DNA with a loaded nucleoside triphosphate To be Published, n.a., n.a.-n.a., n.a.. PD0364 S.G.Sarafianos, A.D.Clark Jr., K.Das, S.Tuske, J.J.Birktoft, I.Ilankumaran, A.R.Ramesha, J.M.Sayer, D.M.Jerina, P.L.Boyer, S.H.Hughes, E.Arnold Structures of HIV-1 Reverse Transcriptase with Pre- and Post-translocation AZTMP-terminated DNA Embo J., 21, 6614-6624, 2002. ----------------------------------------------------------------------- Page 24 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0365 S.G.Sarafianos, A.D.Clark Jr., K.Das, S.Tuske, J.J.Birktoft, P.Ilankumaran, A.R.Ramesha, J.M.Sayer, D.M.Jerina, P.L.Boyer, S.H.Hughes, E.Arnold Structure of HIV-1 Reverse Transcriptase with Pre- Translocation and Post-Translocation AZTMP-Terminated DNA Embo J., 21, 6614-6624, 2002. PD0370 J.E.Chrencik, A.B.Burgin, Y.Pommier, L.Stewart, M.R.Redinbo Structural Impact of the Leukemia Drug 1-beta-D- Arabinofuranosylcytosine (Ara-C) on the Covalent Human Topoisomerase I-DNA Complex J.Biol.Chem., 278, 12461-12466, 2003. PD0372 S.J.Johnson, L.S.Beese Structures of mismatch replication errors observed in a DNA polymerase. Cell (Cambridge,Mass.), 116, 803-816, 2004. PD0373 S.J.Johnson, L.S.Beese Structures of mismatch replication errors observed in a DNA polymerase. Cell (Cambridge,Mass.), 116, 803-816, 2004. PD0374 S.J.Johnson, L.S.Beese Structures of mismatch replication errors observed in a DNA polymerase. Cell (Cambridge,Mass.), 116, 803-816, 2004. PD0375 S.J.Johnson, L.S.Beese Structures of mismatch replication errors observed in a DNA polymerase. Cell (Cambridge,Mass.), 116, 803-816, 2004. PD0376 S.J.Johnson, L.S.Beese Structures of mismatch replication errors observed in a DNA polymerase. Cell (Cambridge,Mass.), 116, 803-816, 2004. ----------------------------------------------------------------------- Page 25 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0377 S.J.Johnson, L.S.Beese Structures of mismatch replication errors observed in a DNA polymerase. Cell (Cambridge,Mass.), 116, 803-816, 2004. PD0378 S.J.Johnson, L.S.Beese Structures of mismatch replication errors observed in a DNA polymerase. Cell (Cambridge,Mass.), 116, 803-816, 2004. PD0379 S.J.Johnson, L.S.Beese Structures of mismatch replication errors observed in a DNA polymerase. Cell (Cambridge,Mass.), 116, 803-816, 2004. PD0380 S.J.Johnson, L.S.Beese Structures of mismatch replication errors observed in a DNA polymerase. Cell (Cambridge,Mass.), 116, 803-816, 2004. PD0381 S.J.Johnson, L.S.Beese Structures of mismatch replication errors observed in a DNA polymerase. Cell (Cambridge,Mass.), 116, 803-816, 2004. PD0382 S.J.Johnson, L.S.Beese Structures of mismatch replication errors observed in a DNA polymerase. Cell (Cambridge,Mass.), 116, 803-816, 2004. PD0383 S.J.Johnson, L.S.Beese Structures of mismatch replication errors observed in a DNA polymerase. Cell (Cambridge,Mass.), 116, 803-816, 2004. ----------------------------------------------------------------------- Page 26 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0384 S.J.Johnson, L.S.Beese Structures of mismatch replication errors observed in a DNA polymerase. Cell (Cambridge,Mass.), 116, 803-816, 2004. PD0385 S.J.Johnson, L.S.Beese Structures of mismatch replication errors observed in a DNA polymerase. Cell (Cambridge,Mass.), 116, 803-816, 2004. PD0391 D.R.Davies, H.Interthal, J.J.Champoux, W.G.J.Hol Crystal structure of a transition state mimic for Tdp1 assembled from vanadate, DNA, and a topoisomerase I-derived peptide Chem.Biol., 10, 139-147, 2003. PD0392 E.Ennifar, J.E.W.Meyer, F.Buchholz, A.F.Stewart, D.Suck Crystal structure of a wild-type Cre recombinase-loxP synapse reveals a novel spacer conformation suggesting an alternative mechanism for DNA cleavage activation Nucleic Acids Res., 31, 5449-5460, 2003. PD0394 A.Guasch, M.Lucas, G.Moncalian, M.Cabezas, R.Perez-Luque, F.X.Gomis-Ruth, F.de la Cruz, M.Coll Recognition and processing of the origin of transfer DNA by conjugative relaxase TrwC. Nat.Struct.Biol., 10, 1002-1010, 2003. PD0396 J.C.Fromme, G.L.Verdine Structure of a Trapped Endonuclease III-DNA Covalent Intermediate Embo J., 22, 3461-3471, 2003. PD0397 J.C.Fromme, G.L.Verdine Structure of a Trapped Endonuclease III-DNA Covalent Intermediate Embo J., 22, 3461-3471, 2003. ----------------------------------------------------------------------- Page 27 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0402 A.Guasch, M.Lucas, G.Moncalian, M.Cabezas, R.Perez-Luque, F.X.Gomis-Ruth, F.de la Cruz, M.Coll Recognition and processing of the origin of transfer DNA by conjugative relaxase TrwC. Nat.Struct.Biol., 10, 1002-1010, 2003. PD0403 C.-L.Li, L.-I.Hor, Z.-F.Chang, L.-C.Tsai, W.-Z.Yang, H.S.Yuan DNA binding and cleavage by the periplasmic nuclease Vvn: a novel structure with a known active site. Embo J., 22, 4014-4025, 2003. PD0404 E.Ennifar, J.E.W.Meyer, F.Buchholz, A.F.Stewart, D.Suck Crystal structure of a wild-type Cre recombinase-loxP synapse reveals a novel spacer conformation suggesting an alternative mechanism for DNA cleavage activation Nucleic Acids Res., 31, 5449-5460, 2003. PD0427 J.C.Fromme, G.L.Verdine Structure of a Trapped Endonuclease III-DNA Covalent Intermediate Embo J., 22, 3461-3471, 2003. PD0428 H.Aihara, H.J.Kwon, S.E.Nunes-Duby, A.Landy, T.Ellenberger A Conformational Switch Controls the DNA Cleavage Activity of Lambda Integrase Mol. Cell, 12, 187-198, 2003. PD0433 J.M.Bolduc, P.C.Spiegel, P.Chatterjee, K.L.Brady, M.E.Downing, M.G.Caprara, R.B.Waring, B.L.Stoddard Structural and biochemical analyses of DNA and RNA binding by a bifunctional homing endonuclease and group I intron splicing factor. Genes Dev., 17, 2875-2888, 2003. PD0454 K.C.Hsia, K.F.Chak, P.H.Liang, Y.S.Cheng, W.Y.Ku, H.S.Yuan DNA binding and degradation by the HNH protein ColE7. STRUCTURE, 12, 205-214, 2004. ----------------------------------------------------------------------- Page 28 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0460 Z.Yang, J.R.Horton, L.Zhou, X.J.Zhang, A.Dong, X.Zhang, S.L.Schlagman, V.Kossykh, S.Hattman, X.Cheng Structure of the bacteriophage T4 DNA adenine methyltransferase Nat.Struct.Biol., 10, 849-855, 2003. PD0461 M.A.Bianchet, L.A.Seiple, Y.L.Jiang, Y.Ichikawa, L.M.Amzel, J.T.Stivers Electrostatic guidance of glycosyl cation migration along the reaction coordinate of uracil DNA glycosylase. Biochemistry, 42, 12455-12460, 2003. PD0462 E.Ennifar, J.E.W.Meyer, F.Buchholz, A.F.Stewart, D.Suck Crystal structure of a wild-type Cre recombinase-loxP synapse reveals a novel spacer conformation suggesting an alternative mechanism for DNA cleavage activation Nucleic Acids Res., 31, 5449-5460, 2003. PD0463 E.Ennifar, J.E.W.Meyer, F.Buchholz, A.F.Stewart, D.Suck Crystal structure of a wild-type Cre recombinase-loxP synapse reveals a novel spacer conformation suggesting an alternative mechanism for DNA cleavage activation Nucleic Acids Res., 31, 5449-5460, 2003. PD0467 A.Guasch, M.Lucas, G.Moncalian, M.Cabezas, R.Prez-Luque, F.X.Gomis-Rth, F.de la Cruz, M.Coll RECOGNITION AND PROCESSING OF THE ORIGIN OF TRANSFER DNA BY CONJUGATIVE RELAXASE TRWC Nat.Struct.Biol., 10, 1002-1010, 2003. PD0473 J.C.Fromme, G.L.Verdine DNA Lesion Recognition by the Bacterial Repair Enzyme MutM. J.Biol.Chem., 278, 51543-51548, 2003. PD0474 J.C.Fromme, G.L.Verdine DNA Lesion Recognition by the Bacterial Repair Enzyme MutM. J.Biol.Chem., 278, 51543-51548, 2003. ----------------------------------------------------------------------- Page 29 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0477 H.Interthal, P.M.Quigley, W.G.Hol, J.J.Champoux The role of lysine 532 in the catalytic mechanism of human topoisomerase I. J.Biol.Chem., 279, 2984-2992, 2004. PD0485 D.R.Davies, H.Interthal, J.J.Champoux, W.G.Hol Explorations of peptide and oligonucleotide binding sites of tyrosyl-DNA phosphodiesterase using vanadate complexes. J.Med.Chem., 47, 829-837, 2004. PD0486 D.R.Davies, H.Interthal, J.J.Champoux, W.G.Hol Explorations of peptide and oligonucleotide binding sites of tyrosyl-DNA phosphodiesterase using vanadate complexes. J.Med.Chem., 47, 829-837, 2004. PD0487 D.R.Davies, H.Interthal, J.J.Champoux, W.G.Hol Explorations of peptide and oligonucleotide binding sites of tyrosyl-DNA phosphodiesterase using vanadate complexes. J.Med.Chem., 47, 829-837, 2004. PD0488 D.R.Davies, H.Interthal, J.J.Champoux, W.G.Hol Explorations of peptide and oligonucleotide binding sites of tyrosyl-DNA phosphodiesterase using vanadate complexes. J.Med.Chem., 47, 829-837, 2004. PD0489 D.R.Davies, H.Interthal, J.J.Champoux, W.G.Hol Explorations of peptide and oligonucleotide binding sites of tyrosyl-DNA phosphodiesterase using vanadate complexes. J.Med.Chem., 47, 829-837, 2004. PD0490 D.R.Davies, H.Interthal, J.J.Champoux, W.G.Hol Explorations of peptide and oligonucleotide binding sites of tyrosyl-DNA phosphodiesterase using vanadate complexes. J.Med.Chem., 47, 829-837, 2004. ----------------------------------------------------------------------- Page 30 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0491 D.R.Davies, H.Interthal, J.J.Champoux, W.G.Hol Explorations of peptide and oligonucleotide binding sites of tyrosyl-DNA phosphodiesterase using vanadate complexes. J.Med.Chem., 47, 829-837, 2004. PD0493 J.H.Eastberg, J.Pelletier, B.L.Stoddard Recognition of DNA substrates by T4 bacteriophage polynucleotide kinase. Nucleic Acids Res., 32, 653-660, 2004. PD0499 J.H.Eastberg, J.Pelletier, B.L.Stoddard Recognition of DNA substrates by T4 bacteriophage polynucleotide kinase. Nucleic Acids Res., 32, 653-660, 2004. PD0500 J.H.Eastberg, J.Pelletier, B.L.Stoddard Recognition of DNA substrates by T4 bacteriophage polynucleotide kinase. Nucleic Acids Res., 32, 653-660, 2004. PD0501 B.R.Chapados, D.J.Hosfield, S.Han, J.Qiu, B.Yelent, B.Shen, J.A.Tainer Structural Basis for FEN-1 Substrate Specificity and PCNA- Mediated Activation in DNA Replication and Repair Cell (Cambridge,Mass.), 116, 39-50, 2004. PD0502 B.R.Chapados, D.J.Hosfield, S.Han, J.Qiu, B.Yelent, B.Shen, J.A.Tainer Structural Basis for FEN-1 Substrate Specificity and PCNA- Mediated Activation in DNA Replication and Repair Cell (Cambridge,Mass.), 116, 39-50, 2004. PD0503 M.Garcia-Diaz, K.Bebenek, J.M.Krahn, L.Blanco, T.A.Kunkel, L.C.Pedersen A structural solution for the DNA Polymerase lambda- dependent repair of DNA gaps with minimal homology Mol. Cell, 13, 561-572, 2004. ----------------------------------------------------------------------- Page 31 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PD0504 H.Ling, F.Boudsocq, B.Plosky, R.Woodgate, W.Yang Replication of a Cis-Syn Thymine Dimer at Atomic Resolution Nature, 424, 1083-1087, 2003. PD0505 H.Ling, F.Boudsocq, B.Plosky, R.Woodgate, W.Yang Replication of a Cis-Syn Thymine Dimer at Atomic Resolution Nature, 424, 1083-1087, 2003. PDE001 Y.Kim, J.C.Grable, R.Love, P.J.Greene, J.M.Rosenberg Refinement of EcoRI Endonuclease Crystal Structure: A Revised Protein Chain Tracing Science, 249, 1307-1309, 1990. PDE002 F.K.Winkler, D.W.Banner, C.Oefner, D.Tsernoglou, R.S.Brown, S.P.Heathman, R.K.Bryan, P.D.Martin, K.Petratos, K.S.Wilson The Crystal Structure of EcoRV Endonuclease and of its Complexes with Cognate and Non-Cognate DNA Segments Embo J., 12, 1781-1795, 1993. PDE003 F.K.Winkler, D.W.Banner, C.Oefner, D.Tsernoglou, R.S.Brown, S.P.Heathman, R.K.Bryan, P.D.Martin, K.Petratos, K.S.Wilson The Crystal Structure of EcoRV Endonuclease and of its Complexes with Cognate and Non-Cognate DNA Segments Embo J., 12, 1781-1795, 1993. PDE004 L.S.Beese, V.Derbyshire, T.A.Steitz Structure of DNA Polymerase I Klenow Fragment Bound to Duplex DNA Science, 260, 352-355, 1993. PDE005 S.A.Weston, A.Lahm, D.Suck The X-ray structure of the DNAse I-D(GGTATACC)2 complex at 2.3 Angstroms resolution J.Mol.Biol., 226, 1237-1256, 1992. ----------------------------------------------------------------------- Page 32 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PDE006 A.Lahm, D.Suck DNase I-Induced DNA Conformation. 2 Angstroms Structure of a DNase I-Octamer Complex J.Mol.Biol., 221, 645-667, 1991. PDE009 J.-A.Feng, R.C.Johnson, R.E.Dickerson Hin Recombinase Bound to DNA: The Origin of Specificity in Major and Minor Groove Interactions Science, 263, 348-355, 1994. PDE010 A.M.Buckle, A.R.Fersht Subsite Binding in an RNase: Structure of a Barnase- Tetranucleotide Complex at 1.76 Angstroms Resolution Biochemistry, 33, 1644-1653, 1994. PDE0100 H.Pelletier, M.R.Sawaya, W.Wolfle, S.H.Wilson, J.Kraut A structural basis for metal ion mutagenicity and nucleotide selectivity in human DNA polymerase beta Biochemistry, 35, 12762-12777, 1996. PDE0101 H.Pelletier, M.R.Sawaya, W.Wolfle, S.H.Wilson, J.Kraut A structural basis for metal ion mutagenicity and nucleotide selectivity in human DNA polymerase beta Biochemistry, 35, 12762-12777, 1996. PDE0102 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE0103 H.Pelletier, M.R.Sawaya, W.Wolfle, S.H.Wilson, J.Kraut A structural basis for metal ion mutagenicity and nucleotide selectivity in human DNA polymerase beta Biochemistry, 35, 12762-12777, 1996. ----------------------------------------------------------------------- Page 33 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PDE0104 H.Pelletier, M.R.Sawaya, W.Wolfle, S.H.Wilson, J.Kraut A structural basis for metal ion mutagenicity and nucleotide selectivity in human DNA polymerase beta Biochemistry, 35, 12762-12777, 1996. PDE0105 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE0106 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE0107 H.Pelletier, M.R.Sawaya, W.Wolfle, S.H.Wilson, J.Kraut A structural basis for metal ion mutagenicity and nucleotide selectivity in human DNA polymerase beta Biochemistry, 35, 12762-12777, 1996. PDE0108 H.Pelletier, M.R.Sawaya, W.Wolfle, S.H.Wilson, J.Kraut A structural basis for metal ion mutagenicity and nucleotide selectivity in human DNA polymerase beta Biochemistry, 35, 12762-12777, 1996. PDE0109 H.Pelletier, M.R.Sawaya, W.Wolfle, S.H.Wilson, J.Kraut A structural basis for metal ion mutagenicity and nucleotide selectivity in human DNA polymerase beta Biochemistry, 35, 12762-12777, 1996. PDE011 H.Pelletier, M.R.Sawaya, A.Kumar, S.H.Wilson, J.Kraut Structures of Ternary Complexes of Rat DNA Polymerase Beta, a DNA Template-Primer, and ddCTP Science, 264, 1891-1903, 1994. ----------------------------------------------------------------------- Page 34 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PDE0110 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE0111 H.Pelletier, M.R.Sawaya, W.Wolfle, S.H.Wilson, J.Kraut A structural basis for metal ion mutagenicity and nucleotide selectivity in human DNA polymerase beta Biochemistry, 35, 12762-12777, 1996. PDE0112 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE0113 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE0114 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE0115 W.Yang, T.A.Steitz Crystal Structure of the Site-Specific Recombinase Gamma- Delta Resolvase Complexed with a 34 BP Cleavage Site Cell(Cambridge,Mass.), 82, 193-207, 1995. PDE0116 D.L.Birdsall, A.McPherson Crystal Structure Disposition of Thymidylic Acid Tetramer in Complex with Ribonuclease A J.Biol.Chem., 267, 22230-22236, 1992. ----------------------------------------------------------------------- Page 35 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PDE0117 J.C.Fontecilla-Camps, R.De Llorens, M.H.Le Du, C.M.Cuchillo Crystal Structure of the Ribonuclease A d(ApTpApApG) Complex: Direct Evidence for Extended Substrate Recognition J.Biol.Chem., 269, 21526-21531, 1994. PDE012 H.Pelletier, M.R.Sawaya, A.Kumar, S.H.Wilson, J.Kraut Structures of Ternary Complexes of Rat DNA Polymerase Beta, a DNA Template-Primer, and ddCTP Science, 264, 1891-1903, 1994. PDE0121 M.O'Gara, S.Klimasauskas, R.J.Roberts, X.Cheng Enzymatic C5-Cytosine Methylation of DNA: Mechanistic Implications of New Crystal Structures for HhaI Methyltransferase-DNA-AdoHcy Complexes J.Mol.Biol., 261, 634-645, 1996. PDE0124 M.R.Sawaya, R.Prasad, S.H.Wilson, J.Kraut, H.Pelletier Crystal Structures of Human DNA Polymerase Beta Complexed with Gapped and Nicked DNA: Evidence for an Induced Fit Mechanism Biochemistry, 36, 11205-11215, 1997. PDE0125 M.R.Sawaya, R.Prasad, S.H.Wilson, J.Kraut, H.Pelletier Crystal Structures of Human DNA Polymerase Beta Complexed with Gapped and Nicked DNA: Evidence for an Induced Fit Mechanism Biochemistry, 36, 11205-11215, 1997. PDE0126 M.R.Sawaya, R.Prasad, S.H.Wilson, J.Kraut, H.Pelletier Crystal Structures of Human DNA Polymerase Beta Complexed with Gapped and Nicked DNA: Evidence for an Induced Fit Mechanism Biochemistry, 36, 11205-11215, 1997. PDE0127 D.A.Wah, J.A.Hirsch, L.F.Dorner, I.Schildkraut, A.K.Aggarwal Structure of the Multimodular Endonuclease Foki Bound to DNA Nature, 388, 97-100, 1997. ----------------------------------------------------------------------- Page 36 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PDE0128 G.Van Pouderoyen, R.F.Ketting, A.Perrakis, R.H.A.Plasterk, T.K.Sixma Crystal Structure of the Specific DNA-Binding Domain of Tc3 Transposase of C. Elegans in Complex with Transposon DNA Embo J., 16, 6044-6054, 1997. PDE0129 S.Korolev, J.Hsieh, G.H.Gauss, T.M.Lohman, G.Waksman Major Domain Swiveling Revealed by the Crystal Structures of Complexes of E. Coli Rep Helicase Bound to Single- Stranded DNA and Adp Cell (Cambridge,Mass.), 90, 635-647, 1997. PDE013 K.Padmanabhan, K.P.Padmanabhan, J.D.Ferrara, J.E.Sadler, A.Tulinsky The Structure of Alpha-Thrombin Inhibited by a 15-mer Single-Stranded DNA Aptamer J.Biol.Chem., 268, 17651-17654, 1993. PDE0131 J.R.Kiefer, C.Mao, J.C.Braman, L.S.Beese Visualizing DNA Replication in a Catalytically Active Bacillus DNA Polymerase Crystal Nature, 391, 304-307, 1998. PDE0132 J.R.Kiefer, C.Mao, J.C.Braman, L.S.Beese Visualizing DNA Replication in a Catalytically Active Bacillus DNA Polymerase Crystal Nature, 391, 304-307, 1998. PDE0133 J.R.Kiefer, C.Mao, J.C.Braman, L.S.Beese Visualizing DNA Replication in a Catalytically Active Bacillus DNA Polymerase Crystal Nature, 391, 304-307, 1998. PDE0134 J.L.Kim, K.A.Morgenstern, J.P.Griffith, M.D.Dwyer, J.A.Thomson, M.A.Murcko, C.Lin, P.R.Caron Hepatitis C Virus Ns3 RNA Helicase Domain with a Bound Oligonucleotide: The Crystal Structure Provides Insights Into the Mode of Unwinding Structure (London), 15, 89-100, 1998. ----------------------------------------------------------------------- Page 37 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PDE0135 S.Doublie, S.Tabor, A.M.Long, C.C.Richardson, T.Ellenberger Crystal Structure of a Bacteriophage T7 DNA Replication Complex at 2.2 A Resolution Nature, 391, 251-258, 1998. PDE0136 C.A.Brautigam, T.A.Steitz Structural Principles for the Inhibition of the 3'-5' Exonuclease of Escherichia coli DNA Polymerase I by Phosphorothioates J.Mol.Biol., 277, 363-377, 1998. PDE0137 C.A.Brautigam, T.A.Steitz Structural Principles for the Inhibition of the 3'-5' Exonuclease of Escherichia coli DNA Polymerase I by Phosphorothioates J.Mol.Biol., 277, 363-377, 1998. PDE0138 C.A.Brautigam, T.A.Steitz Structural Principles for the Inhibition of the 3'-5' Exonuclease of Escherichia coli DNA Polymerase I by Phosphorothioates J.Mol.Biol., 277, 363-377, 1998. PDE0139 N.C.Horton, K.J.Newberry, J.J.Perona Metal ion-mediated substance-assisted catalysis in type II restriction endonucleases Proc.Nat.Acad.Sci.USA, 95, 13489-13494, 1998. PDE014 D.Kostrewa, F.K.Winkler Mg2+ Binding to the Active Site of EcoRV Endonuclease: A Crystallographic Study of Complexes with Substrate and Product DNA at 2 Angstroms Resolution Biochemistry, 34, 683-696, 1995. PDE0140 T.E.Barrett, R.Savva, G.Panayotou, T.Barlow, T.Brown, J.Jiricny, L.H.Pearl Crystal Structure of a G:T/U Mismatch-Specific DNA Glycosylase: Mismatch Recognition by Complementary-Strand Interactions Cell (Cambridge,Mass.), 92, 117-129, 1998. ----------------------------------------------------------------------- Page 38 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PDE0141 L.Stewart, M.R.Redinbo, X.Qiu, W.G.Hol, J.J.Champoux A Model for the Mechanism of Human Topoisomerase I Science, 279, 1534-1541, 1998. PDE0142 M.R.Redinbo, L.Stewart, P.Kuhn, J.J.Champoux, W.G.Hol Crystal Structures of Human Topoisomerase I in Covalent and Noncovalent Complexes with DNA Science, 279, 1504-1513, 1998. PDE0143 M.R.Redinbo, L.Stewart, P.Kuhn, J.J.Champoux, W.G.Hol Crystal Structures of Human Topoisomerase I in Covalent and Noncovalent Complexes with DNA Science, 279, 1504-1513, 1998. PDE0144 K.E.Flick, M.S.Jurica, R.J.Monnat Jr., B.L.Stoddard DNA Binding and Cleavage by the Nuclear Intron-Encoded Homing Endonuclease I- PpoI Nature, 394, 96-101, 1998. PDE0145 A.M.Martin, M.D.Sam, N.O.Reich, J.J.Perona Structural and Energetic Origins of Indirect Readout in Site-Specific DNA Cleavage by a Restriction Endonuclease Nat.Struct.Biol., 6, 269-277, 1999. PDE0146 A.M.Martin, M.D.Sam, N.O.Reich, J.J.Perona Structural and Energetic Origins of Indirect Readout in Site-Specific DNA Cleavage by a Restriction Endonuclease Nat.Struct.Biol., 6, 269-276, 1999. PDE015 D.Kostrewa, F.K.Winkler Mg2+ Binding to the Active Site of EcoRV Endonuclease: A Crystallographic Study of Complexes with Substrate and Product DNA at 2 Angstroms Resolution Biochemistry, 34, 683-696, 1995. ----------------------------------------------------------------------- Page 39 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PDE016 D.Kostrewa, F.K.Winkler Mg2+ Binding to the Active Site of EcoRV Endonuclease: A Crystallographic Study of Complexes with Substrate and Product DNA at 2 Angstroms Resolution Biochemistry, 34, 683-696, 1995. PDE017 X.Cheng, K.Balendiran, I.Schildkraut, J.E.Anderson Structure of PvuII Endonuclease with Cognate DNA Embo J., 13, 3927-3935, 1994. PDE020 M.Newman, T.Strzelecka, L.F.Dorner, I.Schildkraut, A.K.Aggarwal Structure of BamHI Endonuclease Bound to DNA: Partial Folding and Unfolding on DNA Binding Science, 269, 656-663, 1995. PDE022 D.G.Vassylyev, T.Kashiwagi, Y.Mikami, M.Ariyoshi, S.Iwai, E.Ohtsuka, K.Morikawa Atomic Model of a Pyrimidine Dimer Specific Excision Repair Enzyme Complexed with a DNA Substrate: Structural Basis for Damaged DNA Recognition Cell(Cambridge,Mass.), 83, 773-782, 1995. PDE023 T.-P.Ko, R.Williams, A.McPherson The Crystal Structure of a Ribonuclease B + d(pA)4 Complex Acta Crystallogr.,Sect.D, 52, 160-164, 1996. PDE024 S.H.Eom, J.Wang, T.A.Steitz Structure of Taq DNA Polymerase with DNA at the Polymerase Active Site Nature, 382, 278-281, 1996. PDE026 R.Savva, K.Mcauley-Hecht, T.Brown, L.Pearl The Structural Basis of Specific Base-Excision Repair by Uracil-DNA Glycosylase Nature, 373, 487-493, 1995. ----------------------------------------------------------------------- Page 40 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PDE027 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE028 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE029 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE030 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE031 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE032 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE033 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. ----------------------------------------------------------------------- Page 41 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PDE034 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE035 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE036 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE037 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE038 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE039 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE040 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. ----------------------------------------------------------------------- Page 42 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PDE041 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE042 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE043 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE044 H.Pelletier, M.R.Sawaya Characterization of the metal ion binding helix-hairpin- helix motifs in human DNA polymerase beta by X-ray structural analysis Biochemistry, 35, 12778-12787, 1996. PDE045 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE046 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE047 H.Pelletier, M.R.Sawaya, W.Wolfle, S.H.Wilson, J.Kraut Crystal Structures of Human DNA Polymerase Beta Complexed with DNA: Implications for Catalytic Mechanism, Processivity, and Fidelity Biochemistry, 35, 12742-12761, 1996. ----------------------------------------------------------------------- Page 43 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PDE048 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE049 H.Pelletier, M.R.Sawaya, W.Wolfle, S.H.Wilson, J.Kraut A structural basis for metal ion mutagenicity and nucleotide selectivity in human DNA polymerase beta Biochemistry, 35, 12762-12777, 1996. PDE050 H.Pelletier, M.R.Sawaya, W.Wolfle, S.H.Wilson, J.Kraut A structural basis for metal ion mutagenicity and nucleotide selectivity in human DNA polymerase beta Biochemistry, 35, 12762-12777, 1996. PDE051 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE052 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE053 H.Pelletier, M.R.Sawaya, W.Wolfle, S.H.Wilson, J.Kraut A structural basis for metal ion mutagenicity and nucleotide selectivity in human DNA polymerase beta Biochemistry, 35, 12762-12777, 1996. PDE054 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. ----------------------------------------------------------------------- Page 44 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PDE055 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE056 H.Pelletier, M.R.Sawaya, W.Wolfle, S.H.Wilson, J.Kraut A structural basis for metal ion mutagenicity and nucleotide selectivity in human DNA polymerase beta Biochemistry, 35, 12762-12777, 1996. PDE057 H.Pelletier, M.R.Sawaya, W.Wolfle, S.H.Wilson, J.Kraut A structural basis for metal ion mutagenicity and nucleotide selectivity in human DNA polymerase beta Biochemistry, 35, 12762-12777, 1996. PDE058 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE059 H.Pelletier, M.R.Sawaya, W.Wolfle, S.H.Wilson, J.Kraut A structural basis for metal ion mutagenicity and nucleotide selectivity in human DNA polymerase beta Biochemistry, 35, 12762-12777, 1996. PDE060 H.Pelletier, M.R.Sawaya, W.Wolfle, S.H.Wilson, J.Kraut A structural basis for metal ion mutagenicity and nucleotide selectivity in human DNA polymerase beta Biochemistry, 35, 12762-12777, 1996. PDE061 H.Pelletier, M.R.Sawaya, W.Wolfle, S.H.Wilson, J.Kraut A structural basis for metal ion mutagenicity and nucleotide selectivity in human DNA polymerase beta Biochemistry, 35, 12762-12777, 1996. ----------------------------------------------------------------------- Page 45 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PDE062 H.Pelletier, M.R.Sawaya, W.Wolfle, S.H.Wilson, J.Kraut A structural basis for metal ion mutagenicity and nucleotide selectivity in human DNA polymerase beta Biochemistry, 35, 12762-12777, 1996. PDE063 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE064 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE065 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE066 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE067 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE068 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. ----------------------------------------------------------------------- Page 46 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PDE069 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE070 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE071 H.Pelletier, M.R.Sawaya, W.Wolfle, S.H.Wilson, J.Kraut A structural basis for metal ion mutagenicity and nucleotide selectivity in human DNA polymerase beta Biochemistry, 35, 12762-12777, 1996. PDE072 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE073 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE074 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE075 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. ----------------------------------------------------------------------- Page 47 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PDE076 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE077 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE078 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE079 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE080 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE081 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE082 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. ----------------------------------------------------------------------- Page 48 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PDE083 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE084 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE085 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE086 H.Pelletier, M.R.Sawaya, W.Wolfle, S.H.Wilson, J.Kraut A structural basis for metal ion mutagenicity and nucleotide selectivity in human DNA polymerase beta Biochemistry, 35, 12762-12777, 1996. PDE087 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE088 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE089 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. ----------------------------------------------------------------------- Page 49 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PDE090 J.Wang, P.Yu, T.C.Lin, W.H.Konigsberg, T.A.Steitz Crystal Structures of an NH2-Terminal Fragment of T4 DNA Polymerase and its Complexes with Single-Stranded DNA and with Divalent Metal Ions Biochemistry, 35, 8110-8119, 1996. PDE091 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE092 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE093 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE094 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE095 H.Pelletier, M.R.Sawaya, W.Wolfle, S.H.Wilson, J.Kraut A structural basis for metal ion mutagenicity and nucleotide selectivity in human DNA polymerase beta Biochemistry, 35, 12762-12777, 1996. PDE096 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. ----------------------------------------------------------------------- Page 50 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PDE097 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE098 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE099 H.Pelletier, M.R.Sawaya Characterization of the DNA-Binding HHH Motifs in Human DNA Polymerase Beta by Amino Acid Sequence Analysis To be Published, n.a., n.a.-n.a., 1996. PDE139 J.J Perona, A.M.Martin Conformational Transitions and Structural Deformability of EcoRV Endonuclease Revealed by Crystallographic Analysis J.Mol.Biol., 273, 207-225, 1997. PDE139 J.J Perona, A.M.Martin Conformational Transitions and Structural Deformability of EcoRV Endonuclease Revealed by Crystallographic Analysis J.Mol.Biol., 273, 207-225, 1997. PDE140 K.E.Flick, M.S.Jurica, R.J.Monnat Junior, B.L.Stoddard DNA Binding and Cleavage by the Nuclear Intron-Encoded Homing Endonuclease I- Ppoi Nature, 394, 96-101, 1998. PDE141 S.Kumar, J.R.Horton, G.D.Jones, R.T.Walker, R.J.Roberts, X.Cheng DNA Containing 4'-Thio-2'-Deoxycytidine Inhibits Methylation by HhaI Methyltransferase Nucleic Acids Res., 25, 2773-2783, 1997. ----------------------------------------------------------------------- Page 51 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PDEB08 S.Klimasauskas, S.Kumar, R.J.Roberts, X.Cheng HhaI Methyltransferase Flips its Target Base Out of the DNA Helix Cell (Cambridge,Mass.), 76, 357-369, 1994. PDEB122 M.O'Gara, S.Klimasauskas, R.J.Roberts, X.Cheng Enzymatic C5-Cytosine Methylation of DNA: Mechanistic Implications of New Crystal Structures for HhaI Methyltransferase-DNA-AdoHcy Complexes J.Mol.Biol., 261, 634-645, 1996. PDEB123 M.O'Gara, R.J.Roberts, X.Cheng A Structural Basis for the Preferential Binding of Hemimethylated DNA by HhaI DNA Methyltransferase J.Mol.Biol., 263, 597-606, 1996. PDEB19 K.M.Reinisch, L.Chen, G.L.Verdine, W.N.Lipscomb The Crystal Structure of HaeIII Methylase Covalently Complexed to DNA: An Extrahelical Cytosine and Rearranged Base Pairing Cell(Cambridge,Mass.), 82, 143-153, 1995. PH0001 T.Schwartz, M.A.Rould, K.Lowenhaupt, A.Herbert, A.Rich Crystal Structure of the Zalpha Domain of the Human Editing Enzyme Adar1 Bound to Left-Handed Z-DNA Science, 284, 1841-1845, 1999. PH0002 G.M.T.Cheetham, T.A.Steitz Structure of a transcribing T7 RNA polymerase initiation complex Science, 286, 2305-2309, 1999. PH0003 S.G.Sarafianos, K.Das, C.Tantillo, A.D.Clark Jr., J.Ding, J.Whitcomb, P.L.Boyer, S.H.Hughes, E.Arnold Crystal structure of HIV-1 Reverse Transcriptase in complex with a polypurine tract RNA:DNA EMBO J., 20, 1449-1461, 2001. ----------------------------------------------------------------------- Page 52 created by the NDB Project on Wed May 26 14:27:04 2004 CITATIONS FOR PROTEIN/DNA (ENZYMES) ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- PH0004 A.L.Gnatt, P.Cramer, J.Fu, D.A.Bushnell, R.D.Kornberg Structural Basis of Transcription: an RNA Polymerase II Elongation Complex at 3.3 A Resolution Science, 292, 1876-1882, 2001. PH0008 D.Temiakov, V.Patlan, M.Anikin, W.T.McAllister, S.Yokoyama, D.G.Vassylyev Structural basis for substrate selection by T7 RNA polymerase Cell (Cambridge,Mass.), 116, 381-391, 2004. PH0011 K.D.Westover, D.A.Bushnell, R.D.Kornberg Structural Basis of Transcription: Separation of RNA from DNA by RNA Polymerase II Science, 303, 1014-1016, 2004. PR0016 M.Teplova, S.T.Wallace, V.Tereshko, G.Minasov, A.M.Simons, P.D.Cook, M.Manoharan, M.Egli Structural origins of the exonuclease resistance of a zwitterionic RNA Proc.Nat.Acad.Sci.USA, 96, 14240-14245, 1999. ----------------------------------------------------------------------- Page 53 created by the NDB Project on Wed May 26 14:27:04 2004