CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PD0004 A.White, X.Ding, J.C.Vanderspek, J.R.Murphy, D.Ringe Structure of the Metal-Ion-Activated Diphtheria Toxin Repressor/Tox Operator Complex Nature, 394, 502-506, 1998. PD0007 E.Fraenkel, C.O.Pabo Comparison of X-Ray and NMR Structures for the Antennapedia Homeodomain-DNA Complex Nat.Struct.Biol., 5, 692-697, 1998. PD0008 Q.Zhao, S.Khorasanizadeh, Y.Miyoshi, M.A.Lazar, F.Rastinejad Structural Elements of an Orphan Nuclear Receptor-DNA Complex Mol. Cell, 1, 849-861, 1998. PD0016 E.Fraenkel, M.A.Rould, K.A.Chambers, C.O.Pabo Engrailed Homeodomain-DNA Complex at 2.2 A Resolution: A Detailed View of the Interface and Comparison with Other Engrailed Structures J.Mol.Biol., 284, 351-361, 1998. PD0020 Y.Mo, B.Vaessen, K.Johnston, R.Marmorstein Structures of Sap-1 Bound to DNA Sequences from the E74 and c-Fos Promoters: Insights Into DNA sequence discrimination by Ets proteins Mol. Cell, 2, 201-212, 1998. PD0022 R.A.Albright, M.C.Mossing, B.W.Matthews Crystal Structure of an Engineered Cro Monomer Bound Nonspecifically to DNA: Possible Implications for Nonspecific Binding by the Wild-Type Protein Protein Sci., 7, 1485-1494, 1998. PD0024 A.Bochkarev, E.Bochkareva, A.M.Edwards, L.Frappier 2.2 A Structure of a Permanganate Sensitive DNA Site Bound by the Epstein-Barr Virus Origin-Binding Protein, EBNA 1 J.Mol.Biol., 284, 1273-1278, 1998. ---------------------------------------------------------------------- Page 1 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PD0025 J.F.Schildbach, A.W.Karzai, B.E.Raumann, R.T.Sauer Origins of DNA-Binding Specificity: Role of Protein Contacts with the DNA Backbone Proc.Nat.Acad.Sci.USA, 96, 811-817, 1999. PD0027 Y.Mo, B.Vaessen, K.Johnston, R.Marmorstein Structures of Sap-1 Bound to DNA Targets from the E74 and C- Fos Promoters: Insights Into DNA Sequence Discrimination by Ets Proteins Molecular Cell, 2, 201-212, 1998. PD0028 S.Becker, B.Groner, C.W.Muller Three-Dimensional Structure of the Stat3Beta Homodimer Bound to DNA Nature, 394, 145-151, 1998. PD0035 J.F.Schildbach, A.W.Karzai, B.E.Raumann, R.T.Sauer Role of Protein Contacts with the DNA Backbone Proc.Nat.Acad.Sci.USA, 96, 811-817, 1999. PD0042 J.M.Passner, H.-D.Ryoo, L.Shen, R.S.Mann, A.K.Aggarwal Structure of a DNA-bound Ultrabithorax-Extradenticle Homeodomain Complex Nature, 397, 714-719, 1999. PD0045 N.Zheng, E.Fraenkel, C.O.Pabo, N.P.Pavletich Structural Basis of DNA Recognition by the Heterodimeric Cell Cycle Transcription Factor E2F-DP Genes Dev., 13, 666-674, 1999. PD0046 G.Meinke, P.B.Sigler DNA-Binding Mechanism of the Monomeric Orphan Nuclear Receptor NGFI-B Nat.Struct.Biol., 6, 471-477, 1999. ---------------------------------------------------------------------- Page 2 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PD0050 H.E.Xu, M.A.Rould, W.Xu, J.A.Epstein, R.L.Maas, C.O.Pabo Crystal Structure of the Human PAX-6 Paired Domain-DNA Complex Reveals Specific Roles for the Linker Region and the Carboxy-Terminal Subdomain in DNA Binding Genes Dev., 13, 1263-1275, 1999. PD0051 U.-M.Ohndorf, M.A.Rould, Q.He, C.O.Pabo, S.J.Lippard Molecular Basis for Recognition of Cisplatin-Modified DNA by High-Mobility- Group Proteins Nature, 399, 708-712, 1999. PD0056 A.Glasfeld, A.N.Koehler, M.A.Schumacher, R.G.Brennan The Role of Lysine 55 in Determining the Specificity of the Purine Repressor for its Operators Through Minor Groove Interactions J.Mol.Biol., 291, 347-361, 1999. PD0057 A.Glasfeld, A.N.Koehler, M.A.Schumacher, R.G.Brennan The Role of Lysine 55 in Determining the Specificity of the Purine Repressor for its Operators Through Minor Groove Interactions J.Mol.Biol., 291, 347-361, 1999. PD0058 A.Glasfeld, A.N.Koehler, M.A.Schumacher, R.G.Brennan The Role of Lysine 55 in Determining the Specificity of the Purine Repressor for its Operators Through Minor Groove Interactions J.Mol.Biol., 291, 347-361, 1999. PD0059 A.Glasfeld, A.N.Koehler, M.A.Schumacher, R.G.Brennan The Role of Lysine 55 in Determining the Specificity of the Purine Repressor for its Operators Through Minor Groove Interactions J.Mol.Biol., 291, 347-361, 1999. PD0060 A.Glasfeld, A.N.Koehler, M.A.Schumacher, R.G.Brennan The Role of Lysine 55 in Determining the Specificity of the Purine Repressor for its Operators Through Minor Groove Interactions J.Mol.Biol., 291, 347-361, 1999. ---------------------------------------------------------------------- Page 3 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PD0061 A.Glasfeld, A.N.Koehler, M.A.Schumacher, R.G.Brennan The Role of Lysine 55 in Determining the Specificity of the Purine Repressor for its Operators Through Minor Groove Interactions J.Mol.Biol., 291, 347-361, 1999. PD0069 E.Pohl, R.K.Holmes, W.G.Hol Crystal structure of a cobalt-activated diphtheria toxin repressor-DNA complex reveals a metal-binding SH3-like domain J.Mol.Biol., 292, 653-667, 1999. PD0070 O.Littlefield, Y.Korkhin, P.B.Sigler The structural basis for the oriented assembly of a TBP/TFB/promoter complex Proc.Nat.Acad.Sci.USA, 96, 13668-13673, 1999. PD0071 Q.Zhao, S.A.Chasse, S.Devarakonda, M.L.Sierk, B.Ahvazi, F.Rastinejad Structural basis of RXR-DNA interactions J.Mol.Biol., 296, 509-520, 2000. PD0073 O.Littlefield, H.C.M.Nelson A New Use for the Wing of the Winged Helix-Turn-Helix Motif in the Hsf-DNA Cocrystal Nat.Struct.Biol., 6, 464-470, 1999. PD0075 D.E.Piper, A.H.Batchelor, C.-P.Chang, M.L.Cleary, C.Wolberger Structure of a Hoxb1-Pbx1 Heterodimer Bound to DNA: Role of the Hexapeptide and a Fourth Homeodomain Helix in Complex Formation Cell (Cambridge,Mass.), 96, 587-597, 1999. PD0076 Y.Fujii, T.Shimizu, M.Kusumoto, Y.Kyogoku, T.Taniguchi, T.Hakoshima Crystal Structure of an IRF-DNA Complex Reveals Novel DNA Recognition and Cooperative Binding to a Tandem Repeat of Core Sequence Embo J., 18, 5028-5041, 1999. ---------------------------------------------------------------------- Page 4 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PD0078 H.J.Kwon, M.H.J.Bennik, B.Demple, T.Ellenberger Crystal Structure of the Escherichia coli Rob Transcription factor in complex with DNA Nat.Struct.Biol., 7, 424-430, 2000. PD0088 Y.G.Gao, S.Y.Su, H.Robinson, S.Padmanabhan, L.Lim, B.S.Mccrary, S.P.Edmondson, J.W.Shriver, A.H.Wang The Crystal Structure of the Hyperthermophile Chromosomal Protein Sso7D Bound to DNA Nat.Struct.Biol., 5, 782-786, 1998. PD0089 D.A.King, L.Zhang, L.Guarente, R.Marmorstein Structure of a HAP1-DNA complex reveals dramatically asymmetric DNA binding by a homodimeric protein Nat.Struct.Biol., 6, 64-71, 1999. PD0090 D.A.King, L.Zhang, L.Guarente, R.Marmorstein Structure of HAP1-18-DNA implicates direct allosteric effect of protein-DNA interactions on transcriptional activation Nat.Struct.Biol., 6, 22-27, 1999. PD0091 F.X.Gomis-Rueth, M.Sola, P.Acebo, A.Parraga, A.Guasch, R.Eritja, A.Gonzalez, M.Espinosa, G.del Solar, M.Coll The Structure of Plasmid-Encoded Transcriptional Repressor CopG Unliganded and Bound to its Operator Embo J., 17, 7404-7415, 1999. PD0092 D.I.Chasman, K.Cepek, P.A.Sharp, C.O.Pabo Crystal structure of an OCA-B peptide bound to an oct-1 POU domain/octamer DNA complex: Specific recognition of a protein-DNA interface Genes Dev., 13, 2650-2657, 1999. PD0102 M.A.Schumacher, K.Y.Choi, H.Zalkin, R.G.Brennan Crystal Structure of a CREB bZIP-Cre Complex Reveals the Basis for CREB Faimly Selective Dimerization and DNA Binding To be Published, n.a., n.a.-n.a., 2000. ---------------------------------------------------------------------- Page 5 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PD0107 H.Komori, F.Matsunaga, Y.Higuchi, M.Ishiai, C.Wada, K.Miki Crystal Structure of a procaryotic replication initiator protein bound to DNA at 2.6 Angstrom resolution Embo J., 18, 4597-4607, 1999. PD0109 E.E.Zheleznova, R.G.Brennan The Roles of Exocyclic Groups in the Central Base-Pair Step in Modulating the Affinity of PurR for its Operator To be Published, n.a., n.a.-n.a., n.a.. PD0110 F.V.Murphy IV, R.M.Sweet, M.E.A.Churchill The structure of a chromosomal high mobility group protein- DNA complex reveals sequence-neutral mechanisms important for non-sequence-specific DNA recognition Embo J., 18, 6610-6618, 1999. PD0111 K.S.Gajiwala, H.Chen, F.Cornille, B.P.Roques, W.Reith, B.Mach, S.K.Burley Structure of the winged helix-protein hRFX1 reveals a new mode of DNA binding Nature, 403, 916-921, 2000. PD0112 F.T.F.Tsai, P.B.Sigler Structural basis of preinitiation complex assembly on human Pol II promoters Embo J., 19, 25-36, 2000. PD0114 R.A.Grant, M.A.Rould, J.D.Klemm, C.O.Pabo Exploring the role of glutamine 50 in the homeodomain-DNA interface: crystal structure of engrailed (Gln50 -->Ala) complex at 2.0 A Biochemistry, 39, 8187-8192, 2000. PD0115 F.Rastinejad, T.Wagner, Q.Zhao, S.Khorasanizadeh Structure of the RXR-RAR DNA-Binding Complex on the Retinoic Acid Response Element DR1 Embo J., 19, 1045-1054, 2000. ---------------------------------------------------------------------- Page 6 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PD0116 Y.Mo, B.Vaessen, K.Johnston, R.Marmorstein Structure of the Elk-1-DNA complex reveals how DNA-distal residues affect ETS domain recognition of DNA Nat.Struct.Biol., 7, 292-297, 2000. PD0118 C.E.Bell, M.Lewis A closer view of the conformation of the Lac repressor bound to operator Nat.Struct.Biol., 7, 209-214, 2000. PD0121 E.Santelli, T.J.Richmond Crystal Structure of MEF2A Core Bound to DNA at 1.5 A Resolution J.Mol.Biol., 297, 437-449, 2000. PD0122 P.Orth, D.Schnappinger, W.Hillen, W.Saenger, W.Hinrichs Structural Basis of Gene Regulation by the Tetracycline Inducible Tet Repressor-Operator System Nat.Struct.Biol., 7, 215-219, 2000. PD0142 G.Obmolova, C.Ban, P.Hsieh, W.Yang Crystal structures of mismatch repair protein MutS and its complex with a substrate DNA Nature, 407, 703-710, 2000. PD0144 S.Raghunathan, A.G.Kozlov, T.M.Lohman, G.Waksman Structure of the DNA binding domain of E. coli SSB bound to ssDNA Nat.Struct.Biol., 7, 648-652, 2000. PD0145 E.E.Zheleznova-Heldwein, R.G.Brennan Crystal structure of the transcription activator BmrR bound to DNA and a drug Nature, 409, 378-382, 2001. ---------------------------------------------------------------------- Page 7 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PD0146 E.E.Zheleznova-Heldwein, R.G.Brennan Crystal structure of the transcription activator BmrR bound to DNA and a drug Nature, 409, 378-382, 2001. PD0148 A.Lukens, D.King, R.Marmorstein Structure of HAP1-PC7 bound to DNA: implications for DNA recognition and allosteric effects of DNA- binding on transcriptional activation Nucleic Acids Res., 28, 3853-3863, 2000. PD0154 G.A.Patikoglou, J.L.Kim, L.Sun, S.-H.Yang, T.Kodadek, S.K.Burley TATA Element Recognition by the TATA Box-Binding Protein Has Been Conserved Throughout Evolution Genes Dev., 13, 3217-3230, 1999. PD0155 G.A.Patikoglou, J.L.Kim, L.Sun, S.-H.Yang, T.Kodadek, S.K.Burley TATA Element Recognition by the TATA Box-Binding Protein Has Been Conserved Throughout Evolution Genes Dev., 13, 3217-3230, 1999. PD0156 G.A.Patikoglou, J.L.Kim, L.Sun, S.-H.Yang, T.Kodadek, S.K.Burley TATA Element Recognition by the TATA Box-Binding Protein Has Been Conserved Throughout Evolution Genes Dev., 13, 3217-3230, 1999. PD0157 G.A.Patikoglou, J.L.Kim, L.Sun, S.-H.Yang, T.Kodadek, S.K.Burley TATA Element Recognition by the TATA Box-Binding Protein Has Been Conserved Throughout Evolution Genes Dev., 13, 3217-3230, 1999. PD0158 G.A.Patikoglou, J.L.Kim, L.Sun, S.-H.Yang, T.Kodadek, S.K.Burley TATA Element Recognition by the TATA Box-Binding Protein Has Been Conserved Throughout Evolution Genes Dev., 13, 3217-3230, 1999. ---------------------------------------------------------------------- Page 8 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PD0159 G.A.Patikoglou, J.L.Kim, L.Sun, S.-H.Yang, T.Kodadek, S.K.Burley TATA Element Recognition by the TATA Box-Binding Protein Has Been Conserved Throughout Evolution Genes Dev., 13, 3217-3230, 1999. PD0160 G.A.Patikoglou, J.L.Kim, L.Sun, S.-H.Yang, T.Kodadek, S.K.Burley TATA Element Recognition by the TATA Box-Binding Protein Has Been Conserved Throughout Evolution Genes Dev., 13, 3217-3230, 1999. PD0161 G.A.Patikoglou, J.L.Kim, L.Sun, S.-H.Yang, T.Kodadek, S.K.Burley TATA Element Recognition by the TATA Box-Binding Protein Has Been Conserved Throughout Evolution Genes Dev., 13, 3217-3230, 1999. PD0162 G.A.Patikoglou, J.L.Kim, L.Sun, S.-H.Yang, T.Kodadek, S.K.Burley TATA Element Recognition by the TATA Box-Binding Protein Has Been Conserved Throughout Evolution Genes Dev., 13, 3217-3230, 1999. PD0163 G.A.Patikoglou, J.L.Kim, L.Sun, S.-H.Yang, T.Kodadek, S.K.Burley TATA Element Recognition by the TATA Box-Binding Protein Has Been Conserved Throughout Evolution Genes Dev., 13, 3217-3230, 1999. PD0164 G.A.Patikoglou, J.L.Kim, L.Sun, S.-H.Yang, T.Kodadek, S.K.Burley TATA Element Recognition by the TATA Box-Binding Protein Has Been Conserved Throughout Evolution Genes Dev., 13, 3217-3230, 1999. PD0165 B.S.Wang, R.A.Grant, C.O.Pabo Selected peptide extension contacts hydrophobic patch on neighboring zinc finger and mediates dimerization on DNA Nat.Struct.Biol., 8, 589-593, 2001. ---------------------------------------------------------------------- Page 9 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PD0167 J.A.Wilce, J.P.Vivian, A.F.Hastings, G.Otting, R.H.A.Folmer, I.G.Duggin, R.G.Wake, M.C.J.Wilce Structure of the RTP-DNA complex and the mechanism of polar replication fork arrest Nat.Struct.Biol., 8, 206-210, 2001. PD0170 S.Chen, A.White, J.Love, J.R.Murphy, D.Ringe Methyl Groups of Thymine Bases Are Important for Nucleic Acid Recognition by DtxR Biochemistry, 39, 10397-10407, 2000. PD0173 C.W.Garvie, S.E.V.Phillips Methionine Repressor Mutant (Q44K) Plus Corepressor (S- Adenosyl Methionine) Complexed to a Consensus Operator Sequence To be Published, n.a., n.a.-n.a., n.a.. PD0180 Y.Fujii, T.Shimizu, T.Toda, M.Yanagida, T.Hakoshima Structural basis for the DNA recognition diversity of bZIP transcription factors revealed by the crystal structure of Pap1/DNA complex Nat.Struct.Biol., 7, 889-893, 2000. PD0181 M.S.Junop, G.Obmolova, K.Rausch, P.Hsieh, W.Yang Composite Active Site of an ABC ATPase: MutS uses ATP to Verify Mismatch Recognition and Authorize DNA Repair Mol. Cell, 7, 1-12, 2001. PD0182 O.Littlefield, H.C.M.Nelson Crystal packing interaction that blocks crystallization of a site-specific DNA binding protein-DNA complex Proteins: Struct., Funct., Genet., 45, 219-228, 2001. PD0183 O.Littlefield, H.C.M.Nelson Crystal packing interaction that blocks crystallization of a site-specific DNA binding protein-DNA complex Proteins: Struct., Funct., Genet., 45, 219-228, 2001. ---------------------------------------------------------------------- Page 10 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PD0184 O.Littlefield, H.C.M.Nelson Crystal Packing Interaction that Blocks Crystallization of a Site-Specific DNA Binding Protein-DNA Complex Proteins: Struct., Funct., Genet., 45, 219-228, 2001. PD0185 M.A.Schumacher, B.Hurlburt, R.G.Brennan Crystal Structures of SarA, A Pleiotropic Regulator of Virulence Genes in S. aureus Nature, 409, 215-219, 2001. PD0186 S.A.Wolfe, R.A.Grant, M.Elrod-Erickson, C.O.Pabo Beyond the "Recognition Code": Structures of two Cys2His2 Zinc Finger/TATA Box Complexes Structure, 9, 717-723, 2001. PD0187 S.A.Wolfe, R.A.Grant, M.Elrod-Erickson, C.O.Pabo Beyond the "Recognition Code": Structures of Two Cys2His2 Zinc Finger/TATA Box Complexes Structure, 9, 717-723, 2001. PD0191 M.L.Sierk, Q.Zhao, F.Rastinejad DNA Deformability as a Recognition Feature in the RevErb Response Element Biochemistry, 40, 12833-12843, 2001. PD0193 M.L.Sierk, Q.Zhao, F.Rastinejad DNA Deformability as a Recognition Feature in the RevErb Response Element Biochemistry, 40, 12833-12843, 2001. PD0198 T.H.Tahirov, T.Inoue-Bungo, H.Morii, A.Fujikawa, M.Sasaki, K.Kimura, M.Shiina, K.Sato, T.Kumasaka, M.Yamamoto, S.Ishii, K.Ogata Structural Analyses of DNA Recognition by the AML1/Runx-1 Runt Domain and its Allosteric Control by Cbfbeta Cell (Cambridge,Mass.), 104, 755-767, 2001. ---------------------------------------------------------------------- Page 11 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PD0199 Y.Xu, R.J.Heath, Z.Li, C.O.Rock, S.W.White The FadR-DNA complex: Transcriptional Control of Fatty Acid Metabolism in Echerichia coli J.Biol.Chem., 276, 17373-17379, 2001. PD0201 M.H.Lamers, A.Perrakis, J.H.Enzlin, H.H.Winterwerp, N.De Wind, T.K.Sixma The Crystal Structure of DNA Mismatch Repair Protein Muts Binding to a G X T Mismatch Nature, 407, 711-717, 2000. PD0204 T.H.Tahirov, T.Inoue-Bungo, H.Morii, A.Fujikawa, M.Sasaki, K.Kimura, M.Shiina, K.Sato, T.Kumasaka, M.Yamamoto, S.Ishii, K.Ogata Structural Analyses of DNA Recognition by the Aml1/Runx-1 Runt Domain and its Allosteric Control by Cbfbeta Cell (Cambridge,Mass.), 104, 755-767, 2001. PD0205 T.H.Tahirov, T.Inoue-Bungo, H.Morii, A.Fujikawa, M.Sasaki, K.Kimura, M.Shiina, K.Sato, T.Kumasaka, M.Yamamoto, S.Ishii, K.Ogata Structural Analyses of DNA Recognition by the Aml1/Runx-1 Runt Domain and its Allosteric Control by Cbfbeta Cell (Cambridge,Mass.), 104, 755-767, 2001. PD0208 Y-.I.Chi, J.D.Frantz, B-.C.Oh, L.Hansen, S.Dhe-Paganon, S.E.Shoelson Diabetes mutations delineate an atypical POU domains in HNF1-Alpha Mol. Cell, 10, 1129-1137, 2002. PD0210 J.Bravo, Z.Li, N.A.Speck, A.J.Warren The Leukemia-Associated Aml1 (Runx1)-Cbfbeta Complex Functions as a DNA-Induced Molecular Clamp Nat.Struct.Biol., 8, 371-378, 2001. PD0211 S.Hovde, C.Abate-Shen, J.H.Geiger Crystal Structure of the Msx-1 Homeodomain/DNA Complex Biochemistry, 40, 12013-12021, 2001. ---------------------------------------------------------------------- Page 12 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PD0214 J.C.Stroud, C.Lopez-Rodriguez, A.Rao, L.Chen Structure of a TonEBP-DNA Complex Reveals DNA Encircled by a Transcription Factor Nat.Struct.Biol., 9, 90-94, 2002. PD0219 A.E.Maris, M.R.Sawaya, M.Kaczor-Grzeskowiak, M.R.Jarvis, S.M.D.Bearson, M.L.Kopka, I.Schroder, R.P.Gunsalus, R.E.Dickerson Dimerization Allows DNA Target Site Recognition by the NarL Response Regulator Nat.Struct.Biol., 9, 771-778, 2002. PD0221 K.Kamada, F.Shu, H.Chen, S.Malik, G.Stelzer, R.G.Roeder, M.Meisterernst, S.K.Burley Crystal structure of Negative Cofactor 2 recognizing the TBP-DNA transcription complex Cell (Cambridge,Mass.), 106, 71-81, 2001. PD0222 D.B.Huang, Y.Q.Chen, M.Ruetsche, C.B.Phelps, G.Ghosh X-ray Crystal Structure of Proto-Oncogene Product c-Rel Bound to the CD28 Response Element of IL-2 Structure, 9, 669-678, 2001. PD0223 J.L.Huffman, F.Lu, H.Zalkin, R.G.Brennan Role of Residue 147 in the Gene Regulatory Function of the Escherichia coli Purine Repressor Biochemistry, 41, 511-520, 2002. PD0224 J.L.Huffman, F.Lu, H.Zalkin, R.G.Brennan Role of Residue 147 in the Gene Regulatory Function of the Escherichia coli Purine Repressor Biochemistry, 41, 511-520, 2002. PD0225 A.Remenyi, A.Tomilin, E.Pohl, H.Scholer, M.Wilmanns Structural Basis for DNA Sequence Dependent Dimerization of the POU Transcription Factor Family To be Published, n.a., n.a.-n.a., n.a.. ---------------------------------------------------------------------- Page 13 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PD0226 J.L.Huffman, F.Lu, H.Zalkin, R.G.Brennan Role of Residue 147 in the Gene Regulatory Function of the Escherichia coli Purine Repressor Biochemistry, 41, 511-520, 2002. PD0227 S.-S.Kim, J.K.Tam, A.F.Wang, R.S.Hegde The structural basis of DNA target discrimination by papillomavirus E2 proteins J.Biol.Chem., 275, 31245-31254, 2000. PD0230 J.C.Miller, C.O.Pabo Rearrangement of Side Chains in a Zif268 Mutant Highlights the Complexities of Zinc Finger-DNA Recognition J.Mol.Biol., 313, 309-315, 2001. PD0231 J.C.Miller, C.O.Pabo Rearrangement of Side Chains in a Zif268 Mutant Highlights the Complexities of Zinc Finger-DNA Recognition J.Mol.Biol., 313, 309-315, 2001. PD0232 D.M.Van Aalten, C.C.Dirusso, J.Knudsen The Structural Basis of Acyl Coenzyme A-Dependent Regulation of the Transcription Factor Fadr Embo J., 20, 2041-2050, 2001. PD0233 M.Hassler, T.J.Richmond The B-Box Dominates Sap-1/Srf Interactions in the Structure of the Ternary Complex Embo J., 20, 3018-3028, 2001. PD0241 Y.Kim, L.M.Podust Crystal Structure of the Jun bZIP homodimer complexed with CRE To be Published, n.a., n.a.-n.a., n.a.. ---------------------------------------------------------------------- Page 14 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PD0243 Y.Shi, Y.F.Wang, L.Jayaraman, H.Yang, J.Massague, N.P.Pavletich Crystal Structure of a Smad Mh1 Domain Bound to DNA: Insights on DNA Binding in Tgf-Beta Signaling Cell(Cambridge,Mass.), 94, 585-594, 1998. PD0245 C.W.Garvie, S.E.V.Phillips Direct and Indirect Readout in Mutant Met Repressor- Operator Complexes STRUCTURE FOLD DES., 8, 905-914, 2000. PD0246 C.W.Garvie, S.E.V.Phillips Direct and Indirect Readout in Mutant Met Repressor- Operator Complexes STRUCTURE FOLD DES., 8, 905-914, 2000. PD0247 C.W.Garvie, S.E.V.Phillips Direct and Indirect Readout in Mutant Met Repressor- Operator Complexes STRUCTURE FOLD DES., 8, 905-914, 2000. PD0248 C.W.Garvie, S.E.V.Phillips Direct and Indirect Readout in Mutant Met Repressor- Operator Complexes STRUCTURE FOLD DES., 8, 905-914, 2000. PD0249 M.A.Schumacher, M.C.Miller, S.Grkovic, M.H.Brown, R.A.Skurray, R.G.Brennan Structural basis for cooperative DNA binding by two dimers of the multidrug-binding protein QacR Embo J., 21, 1210-1218, 2002. PD0250 C.E.Bell, M.Lewis Crystallographic Analysis of lac Repressor Bound to Natural Operator O1 J.Mol.Biol., 312, 921-926, 2001. ---------------------------------------------------------------------- Page 15 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PD0257 J.Aishima, R.K.Gitti, J.E.Noah, H.H.Gan, T.Schlick, C.Wolberger A Hoogsteen base pair embedded in undistorted B-DNA NUCLEIC ACIDS RES., 30, 5244-5252, 2002. PD0258 Y.Mo, W.Ho, K.Johnston, R.Marmorstein Crystal Structure of a Ternary SAP-1/SRF/c-fos SRE DNA Complex J.Mol.Biol., 314, 495-506, 2002. PD0259 C.W.Garvie, J.Hagman, C.Wolberger Structural Studies of Ets-1/Pax5 Complex Formation on DNA Mol. Cell, 8, 1267-1276, 2001. PD0260 C.W.Garvie, J.Hagman, C.Wolberger Structural Studies of Ets-1/Pax5 Complex Formation on DNA Mol. Cell, 8, 1267-1276, 2001. PD0261 C.W.Garvie, J.Hagman, C.Wolberger Structural Studies of Ets-1/Pax5 Complex Formation on DNA Mol. Cell, 8, 1267-1276, 2001. PD0268 P.L.Shaffer, D.T.Gewirth Structural Basis of VDR-DNA Interactions on Direct Repeat Response Elements Embo J., 21, 2242-2252, 2002. PD0269 P.L.Shaffer, D.T.Gewirth Structural Basis of VDR-DNA Interactions on Direct Repeat Response Elements Embo J., 21, 2242-2252, 2002. ---------------------------------------------------------------------- Page 16 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PD0270 P.L.Shaffer, D.T.Gewirth Structural Basis of VDR-DNA Interactions on Direct Repeat Response Elements Embo J., 21, 2242-2252, 2002. PD0274 A.Remenyi, A.Tomilin, E.Pohl, K.Lins, A.Philippsen, R.Reinbold, H.R.Scholer, M.Wilmanns Differential Dimer Activities of the Transcription Factor Oct-1 by DNA-Induced Interface Swapping Molecular Cell, 8, 569-580, 2001. PD0282 E.J.Enemark, A.Stenlund, L.Joshua-Tor Crystal Structures of Two Intermediates in the Assembly of the Papillomavirus Replication Initiation Complex Embo J., 21, 1487-1496, 2002. PD0283 E.J.Enemark, A.Stenlund, L.Joshua-Tor Crystal Structures of Two Intermediates in the Assembly of the Papillomavirus Replication Initiation Complex Embo J., 21, 1487-1496, 2002. PD0284 E.A.Campbell, O.Muzzin, M.Chlenov, J.L.Sun, C.A.Olson, O.Weinman, M.L.Trester-Zedlitz, S.A.Darst Structure of the bacterial RNA polymerase promoter specificity sigma subunit. Mol.Cell, 9, 527-539, 2002. PD0288 T.H.Tahirov, K.Sato, E.Ichikawa-Iwata, M.Sasaki, T.Inoue- Bungo, M.Shiina, K.Kimura, S.Takata, A.Fujikawa, H.Morii, T.Kumasaka, M.Yamamoto, S.Ishii, K.Ogata Mechanism of C-Myb-C/Ebpbeta Cooperation from Separated Sites on a Promoter Cell (Cambridge,Mass.), 108, 57-70, 2002. PD0289 T.H.Tahirov, K.Sato, E.Ichikawa-Iwata, M.Sasaki, T.Inoue- Bungo, M.Shiina, K.Kimura, S.Takata, A.Fujikawa, H.Morii, T.Kumasaka, M.Yamamoto, S.Ishii, K.Ogata Mechanism of C-Myb-C/Ebpbeta Cooperation from Separated Sites on a Promoter Cell (Cambridge,Mass.), 108, 57-70, 2002. ---------------------------------------------------------------------- Page 17 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PD0290 T.H.Tahirov, K.Sato, E.Ichikawa-Iwata, M.Sasaki, T.Inoue- Bungo, M.Shiina, K.Kimura, S.Takata, A.Fujikawa, H.Morii, T.Kumasaka, M.Yamamoto, S.Ishii, K.Ogata Mechanism of C-Myb-C/Ebpbeta Cooperation from Separated Sites on a Promoter Cell (Cambridge,Mass.), 108, 57-70, 2002. PD0297 N.Fujikawa, H.Kurumizaka, O.Nureki, Y.Tanaka, M.Yamazoe, S.Hiraga, S.Yokoyama Structural and biochemical analyses of hemimethylated DNA binding by the SeqA protein. Nucleic Acids Res., 32, 82-92, 2004. PD0298 R.Zhang, T.Pappas, J.L.Brace, P.C.Miller, T.Oulmassov, J.M.Molyneaux, J.C.Anderson, J.K.Bashkin, S.C.Winans, A.Joachimiak Structure of a Bacterial Quorum-Sensing Transcription Factor Complexed with Pheromone and DNA Nature, 417, 971-974, 2002. PD0299 G.Parkinson, C.Wilson, A.Gunasekera, Y.W.Ebright, R.H.Ebright, H.M.Berman Structure of the CAP-DNA Complex at 2.5 Angstroms Resolution: A Complete Picture of the Protein-DNA Interface J.Mol.Biol., 260, 395-408, 1996. 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. PD0307 B.Berkowitz, D.B.Huang, F.E.Chen-Park, P.B.Sigler, G.Ghosh The X-ray crystal structure of the NF-kB p50/p65 heterodimer bound to the Interferon beta-kB site J.Biol.Chem., 277, 24694-24700, 2002. ---------------------------------------------------------------------- Page 18 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PD0308 A.Ke, J.R.Mathias, A.K.Vershon, C.Wolberger Structural and Thermodynamic Characterization of the DNA Binding Properties of a Triple Alanine Mutant of MATalpha2 Structure, 10, 961-971, 2002. PD0309 B.Benjamin, D.B.Huang, F.E.Chen-Park, P.B.Sigler, G.Ghosh The X-ray crystal structure of the NF-kB p50/p65 heterodimer bound to the interferon beta-kB site J.Biol.Chem., 277, 24694-24700, 2002. PD0310 F.E.Chen-Park, D.B.Huang, B.Noro, D.Thanos, G.Ghosh The kB DNA sequence from the HIV Long Terminal Repeat functions as an allosteric regulator of HIV transcription J.Biol.Chem., 277, 24701-24708, 2002. PD0311 M.Coll, J.G.Seidman, C.W.Muller Structure of the DNA-Bound T-Box Domain of Human Tbx3, a Transcription Factor Responsible for Ulnar-Mammary Syndrome Structure (London), 10, 3343-3356, 2002. PD0312 S.A.Wolfe, R.A.Grant, C.O.Pabo 1.5 Resolution Structure of a DNA Bound Zif268-GCN4 Chimera To be Published, n.a., n.a.-n.a., n.a.. PD0314 H.Zhao, T.Msadek, J.Zapf, Madhusudan, J.A.Hoch, K.I.Varughese DNA Complexed Structure of the Key Transcription Factor Initiating Development in Sporulating Bacteria Structure, 10, 1041-1050, 2002. PD0315 A.Guarne, Q.Zhao, R.Guirlando, W.Yang Insights into negative modulation of E. coli replication initiation from the structure of SeqA-hemimethylated DNA complex NAT.STRUCT.BIOL., 9, 839-843, 2002. ---------------------------------------------------------------------- Page 19 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PD0338 C.W.Garvie, M.A.Pufall, B.J.Graves, C.Wolberger STRUCTURAL ANALYSIS OF THE AUTOINHIBITION OF ETS-1 AND ITS ROLE IN PROTEIN PARTNERSHIPS J.Biol.Chem., 277, 45529-45536, 2002. PD0339 H.Yang, P.D.Jeffrey, J.Miller, E.Kinnucan, Y.Sun, N.H.Thoma, N.Zheng, P.L.Chen, W.H.Lee, N.P.Pavletich BRCA2 function in DNA binding and recombination from a BRCA2-DSS1-ssDNA structure Science, 297, 1837-1848, 2002. PD0341 J.S.Lamoureux, D.Stuart, R.Tsang, C.Wu, J.N.Glover Structure of the sporulation-specific transcription factor Ndt80 bound to DNA Embo J., 21, 5721-5732, 2002. PD0363 A.Han, F.Pan, J.C.Stroud, H.D.Youn, J.O.Liu, L.Chen Sequence-specific recruitment of transcriptional co- repressor Cabin1 by myocyte enhancer factor-2 Nature, 422, 730-734, 2003. PD0368 Z.S.Juo, G.A.Kassavetis, J.Wang, E.P.Geiduschek, P.B.Sigler Crystal structure of a transcription factor IIIB core interface ternary complex Nature, 422, 534-539, 2003. PD0369 M.Bleichenbacher, S.Tan, T.J.Richmond Novel interactions between the components of human and yeast TFIIA/TBP/DNA complexes. J.Mol.Biol., 332, 783-793, 2003. PD0371 N.Fujikawa, H.Kurumizaka, O.Nureki, T.Terada, M.Shirouzu, T.Katayama, S.Yokoyama Structural basis of replication origin recognition by the DnaA protein NUCLEIC ACIDS RES., 31, 2077-2086, 2003. ---------------------------------------------------------------------- Page 20 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PD0386 S.K.Nair, S.K.Burley X-ray structures of Myc-Max and Mad-Max recognizing DNA: Molecular bases of regulation by proto-oncogenic transcription factors Cell (Cambridge,Mass.), 112, 193-205, 2003. PD0387 S.K.Nair, S.K.Burley X-ray structures of Myc-Max and Mad-Max recognizing DNA: Molecular bases of regulation by proto-oncogenic transcription factors Cell (Cambridge,Mass.), 112, 193-205, 2003. PD0388 E.Alani, J.Y.Lee, M.J.Schofield, A.W.Kijas, P.Hsieh, W.Yang Crystal structure and biochemical analysis of the MutS-ADP- Beryllium Fluoride complex suggests a conserved mechanism for ATP interactions in mismatch repair J.Biol.Chem., 278, 16088-16094, 2003. PD0393 M.Bleichenbacher, S.Tan, T.J.Richmond Novel interactions between the components of human and yeast TFIIA/TBP/DNA complexes. J.Mol.Biol., 332, 783-793, 2003. PD0395 M.Miller, J.D.Shuman, T.Sebastian, Z.Dauter, P.F.Johnson Structural Basis for DNA Recognition by the Basic Region Leucine Zipper Transcription Factor CCAAT/enhancer Binding Protein Alpha J.Biol.Chem., 278, 15178-15184, 2003. PD0398 S.Chen, J.Vojtechovsky, G.N.Parkinson, R.H.Ebright, H.M.Berman Indirect Readout of DNA Sequence at the Primary-kink Site in the CAP-DNA Complex: DNA Binding Specificity Based on Energetics of DNA Kinking J.Mol.Biol., 314, 63-74, 2001. PD0399 S.Chen, J.Vojtechovsky, G.N.Parkinson, R.H.Ebright, H.M.Berman Indirect Readout of DNA Sequence at the Primary-kink Site in the CAP-DNA Complex: DNA Binding Specificity Based on Energetics of DNA Kinking J.Mol.Biol., 314, 63-74, 2001. ---------------------------------------------------------------------- Page 21 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PD0400 S.Chen, A.Gunasekera, X.Zhang, T.A.Kunkel, R.H.Ebright, H.M.Berman Indirect Readout of DNA Sequence at the Primary-kink Site in the CAP-DNA Complex: Alteration of DNA Binding Specificity Through Alteration of DNA Kinking J.Mol.Biol., 314, 75-82, 2001. PD0401 S.Chen, J.Vojtechovsky, G.N.Parkinson, R.H.Ebright, H.M.Berman Indirect Readout of DNA Sequence at the Primary-kink Site in the CAP-DNA Complex: DNA Binding Specificity Based on Energetics of DNA Kinking J.Mol.Biol., 314, 63-74, 2001. PD0405 T.W.Lynch, E.K.Read, A.N.Mattis, J.F.Gardner, P.A.Rice Integration Host Factor: putting a twist on protein-DNA recognition J.Mol.Biol., 330, 493-502, 2003. PD0406 T.W.Lynch, E.K.Read, A.N.Mattis, J.F.Gardner, P.A.Rice Integration Host Factor: putting a twist on protein-DNA recognition J.Mol.Biol., 330, 493-502, 2003. PD0407 T.W.Lynch, E.K.Read, A.N.Mattis, J.F.Gardner, P.A.Rice Integration Host Factor: putting a twist on protein-DNA recognition J.Mol.Biol., 330, 493-502, 2003. PD0408 J.C.Stroud, L.Chen Structure of NFAT Bound to DNA as a Monomer J.Mol.Biol., 334, 1009-1022, 2003. PD0409 J.Chai, J.-W.Wu, N.Yan, J.Massague, N.P.Pavletich, Y.Shi Features of a Smad3 MH1-DNA complex. Roles of water and zinc in DNA binding. J.Biol.Chem., 278, 20327-20331, 2003. ---------------------------------------------------------------------- Page 22 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PD0424 E.Peisach, C.O.Pabo Constraints for Zinc Finger Linker Design as Inferred from X-ray Crystal Structure of Tandem Zif268-DNA Complexes J.Mol.Biol., 330, 1-7, 2003. PD0429 M.J.Giffin, J.C.Stroud, D.L.Bates, K.D.von Koenig, J.Hardin, L.Chen Structure of NFAT1 bound as a dimer to the HIV-1 LTR kB element Nat.Struct.Biol., 10, 880-806, 2003. PD0452 M.A.Schumacher, A.O.T.Lau, P.J.Johnson Structural Basis of Core Promoter Recognition in a Primitive Eukaryote Cell (Cambridge,Mass.), 115, 413-424, 2003. PD0453 M.A.Schumacher, A.O.T.Lau, P.J.Johnson Structural Basis of Core Promoter Recognition in a Primitive Eukaryote Cell (Cambridge,Mass.), 115, 413-424, 2003. PD0455 N.A.LARONDE-LEBLANC, C.Wolberger STRUCTURE OF HOXA9 AND PBX1 BOUND TO DNA: HOX HEXAPEPTIDE AND DNA RECOGNITION ANTERIOR TO POSTERIOR Genes Dev., 17, 2060-2072, 2003. PD0456 E.Skordalakes, J.M.Berger Structure of the Rho transcription terminator: mechanism of mRNA recognition and helicase loading Cell (Cambridge,Mass.), 114, 135-146, 2003. PD0464 L.Jin, P.Sliz, L.Chen, F.Macian, A.Rao, P.G.Hogan, S.C.Harrison An asymmetric NFAT1 dimer on a pseudo-palindromic KB-like DNA site Nat.Struct.Biol., 10, 807-811, 2003. ---------------------------------------------------------------------- Page 23 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PD0470 S.Devarakonda, J.M.Harp, Y.Kim, A.Ozyhar, F.Rastinejad Structure of the heterodimeric Ecdysone Receptor DNA- binding complex Embo J., 22, 5827-5840, 2003. PD0471 S.Devarakonda, J.M.Harp, Y.Kim, A.Ozyhar, F.Rastinejad Structure of the Heterodimeric Ecdysone Receptor DNA- binding Complex Embo J., 22, 5827-5840, 2003. PD0475 B.F.Luisi, W.X.Xu, Z.Otwinowski, L.P.Freedman, K.R.Yamamoto, P.B.Sigler Crystallographic Analysis of the Interaction of The Glucocorticoid Receptor with DNA Nature, 352, 497-505, 1991. PD0476 B.F.Luisi, W.X.Xu, Z.Otwinowski, L.P.Freedman, K.R.Yamamoto, P.B.Sigler Crystallographic Analysis of the Interaction of the Glucocorticoid Receptor with DNA Nature, 352, 497-505, 1991. PD0480 D.Khare, G.Ziegelin, E.Lanka, U.Heinemann Sequence-specific DNA binding determined by contacts outside the HelixturnHelix motif of the ParB homologue KorB To be published, n.a., n.a.-n.a., n.a.. PD0492 D.Jain, B.E.Nickels, L.Sun, A.Hochschild, S.A.Darst Structure of a ternary transcription activation complex. Mol. Cell, 13, 45-53, 2004. PD0495 J.C.Fromme, A.Banerjee, S.J.Huang, G.L.Verdine Structural basis for removal of adenine mispaired with 8- oxoguanine by MutY adenine DNA glycosylase Nature, 427, 652-656, 2004. ---------------------------------------------------------------------- Page 24 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PD0496 J.C.Fromme, A.Banerjee, S.J.Huang, G.L.Verdine Structural basis for removal of adenine mispaired with 8- oxoguanine by MutY adenine DNA glycosylase Nature, 427, 652-656, 2004. PD0497 J.C.Fromme, A.Banerjee, S.J.Huang, G.L.Verdine Structural basis for removal of adenine mispaired with 8- oxoguanine by MutY adenine DNA glycosylase Nature, 427, 652-656, 2004. PD0506 A.B.Hickman, D.R.Ronning, Z.N.Perez, R.M.Kotin, F.Dyda The Nuclease Domain of Adeno-Associated Virus Rep Coordinates Replication Initiation Using Two Distinct DNA Recognition Interfaces Mol.Cell, 13, 403-414, 2004. PDE025 D.S.Wilson, B.Guenther, C.Desplan, J.Kuriyan High Resolution Crystal Structure of a Paired (Pax) Class Cooperative Homeodomain Dimer on DNA Cell(Cambridge,Mass.), 82, 709-719, 1995. PDO001 A.Bochkarev, R.A.Pfuetzner, A.M.Edwards, L.Frappier Structure of the Single-Stranded-DNA-Binding Domain of Replication Protein a Bound to DNA Nature, 385, 176-181, 1997. PDR001 A.Mondragon, S.C.Harrison The Phage 434 Cro/OR1 Complex at 2.5 Angstroms Resolution J.Mol.Biol., 219, 321-334, 1991. PDR002 C.Wollberger, Y.Dong, M.Ptashne, S.C.Harrison Structure of a Phage 434 Cro/DNA Complex Nature, 335, 789-795, 1988. ---------------------------------------------------------------------- Page 25 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PDR003 R.G.Brennan, S.L.Roderick, Y.Takeda, B.W.Matthews Protein-DNA Conformational Changes in the Crystal Structure of a Lambda Cro-Operator Complex Proc.Nat.Acad.Sci.USA, 87, 8165-8169, 1990. PDR004 A.K.Aggarwal, D.W.Rodgers, M.Drottar, M.Ptashne, S.C.Harrison Recognition of a DNA Operator by the Repressor of Phage 434. A View at High Resolution Science, 242, 899-907, 1988. PDR005 J.E.Anderson, M.Ptashne, S.C.Harrison Structure of the Repressor-Operator Complex of Bacteriophage 434 Nature, 326, 846-852, 1987. PDR006 S.C.Schultz, G.C.Shields, T.A.Steitz Crystal Structure of a CAP-DNA Complex: The DNA is Bent by 90 Degrees Science, 253, 1001-1007, 1991. PDR008 W.S.Somers, S.E.V.Phillips Crystal Structure of the met Repressor-Operator Complex at 2.8 Angstroms Resolution: DNA Recognition by Beta-Strands Nature, 359, 387-393, 1992. PDR009 Z.Otwinowski, R.W.Schevitz, R.-G.Zhang, C.L.Lawson, A.J.Joachimiak, R.Marmorstein, B.F.Luisi, P.B.Sigler Crystal Structure of Trp Repressor Operator Complex at Atomic Resolution Nature, 335, 321-329, 1988. PDR010 L.J.Beamer, C.O.Pabo Refined 1.8 Angstrom Crystal Structure of the Lambda Repressor-Operator Complex J.Mol.Biol., 227, 177-196, 1992. ---------------------------------------------------------------------- Page 26 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PDR011 L.J.W.Shimon, S.C.Harrison The Phage 434 OR2/R1-69 Complex at 2.5 Angstroms Resolution J.Mol.Biol., 232, 826-838, 1993. PDR012 B.E.Raumann, M.A.Rould, C.O.Pabo, R.T.Sauer DNA Recognition by Beta-Sheets in the Arc Repressor- Operator Crystal Structure Nature, 367, 754-757, 1994. PDR013 C.L.Lawson, J.Carey Tandem Binding in Crystals of a Trp Repressor/Operator Half- Site Complex Nature, 366, 178-182, 1993. PDR015 D.W.Rodgers, S.C.Harrison The Complex between Phage 434 Repression DNA-Binding Domain and Operator Site OR3: Structural Differences between Consensus and Non-Consensus Half-Sites Structure (London), 1, 227-240, 1993. PDR016 W.A.Lim, A.Hodel, R.T.Sauer, F.M.Richards The Crystal Structure of a Mutant Protein with Altered But Improved Hydrophobic Core Packing Proc.Nat.Acad.Sci.USA, 91, 423-427, 1994. PDR018 W.Xu, M.A.Rould, S.Jun, C.Desplan, C.O.Pabo Crystal Structure of a Paired Domain-DNA Complex at 2.5 Angstroms Resolution Reveals Structural Basis for Pax Developmental Mutations Cell(Cambridge,Mass.), 80, 639-650, 1995. PDR020 M.A.Schumacher, K.Y.Choi, H.Zalkin, R.G.Brennan Crystal Structure of LacI Family Member, PurR, Bound to DNA: Minor Groove Binding by Alpha Helices Science, 266, 763-770, 1994. ---------------------------------------------------------------------- Page 27 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PDR021 F.Rastinejad, T.Perlmann, R.M.Evans, P.B.Sigler Structural Determinants of Nuclear Receptor Assembly on DNA Direct Repeats Nature, 375, 203-211, 1995. PDR022 Y.Cho, S.Gorina, P.D.Jeffrey, N.P.Pavletich Crystal Structure of a P53 Tumor Suppressor-DNA Complex: Understanding Tumorigenic Mutations Science, 265, 346-355, 1994. PDR024 G.Parkinson, A.Gunasekera, J.Vojtechovsky, X.Zhang, T.A.Kunkel, H.Berman, R.H.Ebright Aromatic Hydrogen Bond in Sequence-Specific Protein-DNA Recognition Nat.Struct.Biol., 3, 837-841, 1996. PDR025 G.Parkinson, A.Gunasekera, J.Vojtechovsky, X.Zhang, T.A.Kunkel, H.Berman, R.H.Ebright Aromatic Hydrogen Bond in Sequence-Specific Protein-DNA Recognition Nat.Struct.Biol., 3, 837-841, 1996. PDR026 M.Lewis, G.Chang, N.C.Horton, M.A.Kercher, H.C.Pace, M.A.Schumacher, R.G.Brennan, P.Lu Crystal Structure of the Lactose Operon Repressor and its Complexes with DNA and Inducer Science, 271, 1247-1254, 1996. PDR027 Y.Cho, S.Gorina, P.D.Jeffrey, N.P.Pavletich Crystal Structure of a P53 Tumor Suppressor-DNA Complex: Understanding Tumorigenic Mutations Science, 265, 346-355, 1994. PDR028 A.Glasfeld, M.A.Schumacher, K.Y.Choi, H.Zalkin, R.G.Brennan A Positively Charged Residue Bound in the Minor Groove Does not Alter the Bending of a DNA Duplex J.Am.Chem.Soc., 118, 13073-13074, 1996. ---------------------------------------------------------------------- Page 28 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PDR029 A.Glasfeld, M.A.Schumacher, K.Y.Choi, H.Zalkin, R.G.Brennan A Positively Charged Residue Bound in the Minor Groove Does not Alter the Bending of a DNA Duplex J.Am.Chem.Soc., 118, 13073-13074, 1996. PDR030 M.A.Schumacher, A.Glasfeld, H.Zalkin, R.G.Brennan The X-Ray Structure of the PurR-Guanine-Purf Operator Complex Reveals the Contributions of Complementary Electrostatic Surfaces and a Water-Mediated Hydrogen Bond to Corepressor Specificity and Binding Affinity J.Biol.Chem., 272, 22648-22653, 1997. PDR031 P.F.Kosa, G.Ghosh, B.S.Dedecker, P.B.Sigler The 2.1-A Crystal Structure of an Archaeal Preinitiation Complex: TATA-Box-Binding Protein/Transcription Factor (II)B Core/TATA-Box Proc.Nat.Acad.Sci.USA, 94, 6042-6047, 1997. PDR032 P.Cramer, C.J.Larson, G.L.Verdine, C.W.Muller Structure of the Human NF-kappaB p52 Homodimer-DNA Complex at 2.1 A Resolution Embo J., 16, 7078-7090, 1997. PDR033 F.E.Chen, D.B.Huang, Y.Q.Chen, G.Ghosh Crystal Structure of p50/P65 Heterodimer of Transcription Factor NF-kappaB Bound to DNA Nature, 391, 410-413, 1998. PDR034 E.M.Jacobson, P.Li, A.Leon-Del-Rio, M.G.Rosenfeld, A.K.Aggarwal Structure of Pit-1 POU Domain Bound to DNA as a Dimer: Unexpected Arrangement and Flexibility Genes Dev., 11, 198-212, 1997. PDR035 C.R.Escalante, J.Yie, D.Thanos, A.K.Aggarwal Structure of Irf-1 with Bound DNA Reveals Determinants of Interferon Regulation Nature, 391, 103-106, 1998. ---------------------------------------------------------------------- Page 29 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PDR036 S.Tan, T.J.Richmond Crystal Structure of the Yeast MATalpha2/MCM1/DNA Ternary Complex Nature, 391, 660-666, 1998. PDR040 M.A.Schumacher, K.Y.Choi, H.Zalkin, R.G.Brennan Crystal Structure of LacI Member, PurR, Bound to DNA: Minor Groove Binding by Alpha Helices Science, 266, 763-770, 1994. PDR041 M.A.Schumacher, K.Y.Choi, H.Zalkin, R.G.Brennan Crystal Structure of LacI Member, PurR, Bound to DNA: Minor Groove Binding by Alpha Helices Science, 266, 763-770, 1994. PDR042 M.A.Schumacher, K.Y.Choi, H.Zalkin, R.G.Brennan Crystal Structure of LacI Member, PurR, Bound to DNA: Minor Groove Binding by Alpha Helices Science, 266, 763-770, 1994. PDR043 F.Lu, M.A.Schumacher, D.N.Arvidson, A.Haldimann, B.L.Wanner, H.Zalkin, R.G.Brennan Structure-Based Redesign of Corepressor Specificity of the Escherichia Coli Purine Repressor by Substitution of Residue 190 Biochemistry, 37, 971-982, 1998. PDR044 F.Lu, M.A.Schumacher, D.N.Arvidson, A.Haldimann, B.L.Wanner, H.Zalkin, R.G.Brennan Structure-Based Redesign of Corepressor Specificity of the Escherichia Coli Purine Repressor by Substitution of Residue 190 Biochemistry, 37, 971-982, 1998. PDR045 F.Lu, M.A.Schumacher, D.N.Arvidson, A.Haldimann, B.L.Wanner, H.Zalkin, R.G.Brennan Structure-Based Redesign of Corepressor Specificity of the Escherichia Coli Purine Repressor by Substitution of Residue 190 Biochemistry, 37, 971-982, 1998. ---------------------------------------------------------------------- Page 30 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PDR046 M.A.Schumacher, K.Y.Choi, H.Zalkin, R.G.Brennan Crystal Structure of LacI Member, PurR, Bound to DNA: Minor Groove Binding by Alpha Helices Science, 266, 763-770, 1994. PDR049 T.Li, Y.Jin, A.K.Vershon, C.Wolberger Crystal Structure of the MATa1/MATalpha2 Homeodomain Heterodimer in Complex with DNA Containing an A-Tract Nucleic Acids Res., 26, 5707-5718, 1998. PDR050 Y.Q.Chen, S.Ghosh, G.Ghosh A Novel DNA Recognition Mode by the NF-Kappa B P65 Homodimer Nat.Struct.Biol., 5, 67-73, 1998. PDR051 Y.Q.Chen, S.Ghosh, G.Ghosh A Novel DNA Recognition Mode by the NF-Kappa B P65 Homodimer Nat.Struct.Biol., 5, 67-73, 1998. PDR052 X.Chen, U.Vinkemeier, Y.Zhao, D.Jeruzalmi, J.E.Darnell Junior, J.Kuriyan Crystal Structure of a Tyrosine Phosphorylated Stat-1 Dimer Bound to DNA Cell(Cambridge,Mass.), 93, 827-839, 1998. PDR053 R.A.Albright, B.W.Matthews Crystal Structure of Lambda-Cro Bound to a Consensus Operator at 3.0 A Resolution J.Mol.Biol., 280, 137-151, 1998. PDR056 S.Rhee, R.G.Martin, J.L.Rosner, D.R.Davies A Novel DNA-Binding Motif of MARA: The First Structure for an AraC Family Transcriptional Activator Proc.Nat.Acad.Sci.USA, 95, 10413-10418, 1998. ---------------------------------------------------------------------- Page 31 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PDRC01 B.F.Luisi, W.X.Xu, Z.Otwinowski, L.P.Freedman, K.R.Yamamoto, P.B.Sigler Crystallographic Analysis of the Interaction of the Glucocorticoid Receptor with DNA Nature, 352, 495-505, 1991. PDRC03 J.W.R.Schwabe, L.Chapman, J.T.Finch, D.Rhodes The Crystal Structure of the Estrogen Receptor DNA-Binding Domain Bound to DNA: How Receptors Discriminate between Their Response Elements Cell(Cambridge,Mass.), 75, 567-578, 1993. PDT002 T.E.Ellenberger, C.J.Brandl, K.Struhl, S.C.Harrison The GCN4 Basic Region Leucine Zipper Binds DNA as a Dimer of Uninterrupted Alpha Helices: Crystal Structure of the Protein-DNA Complex Cell(Cambridge,Mass.), 71, 1223-1237, 1992. PDT003 R.Marmorstein, M.Carey, M.Ptashne, S.C.Harrison DNA Recognition by GAL4: Structure of a Protein/DNA Complex Nature, 356, 408-414, 1992. PDT004 C.R.Kissinger, B.Liu, E.Martin-Blanco, T.B.Kornberg C.O.Pabo Crystal Structure of an Engrailed Homeodomain-DNA Complex at 2.8 Angstroms Resolution: A Framework for Understanding Homeodomain-DNA Interactions Cell(Cambridge,Mass.), 63, 579-590, 1990. PDT005 C.Wolberger, A.K.Vershon, B.Liu, A.D.Johnson, C.O.Pabo Crystal Structure of a MAT-Alpha2 Homeodomain-Operator Complex Suggests a General Model for Homeodomain-DNA Interactions Cell(Cambridge,Mass.), 67, 517-528, 1991. PDT006 N.P.Pavletich, C.O.Pabo Zinc Finger-DNA Recognition: Crystal Structure of a Zif268- DNA Complex at 2.1 Angstroms Science, 252, 809-817, 1991. ---------------------------------------------------------------------- Page 32 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PDT007 P.Koenig, T.J.Richmond The X-Ray Structure of the GCN4-bZIP Bound to ATF/CREB Site DNA Shows the Complex Depends on DNA Flexibility J.Mol.Biol., 233, 139-154, 1993. PDT008 N.P.Pavletich, C.O.Pabo Crystal Structure of a Five-Finger GLI-DNA Complex: New Perspectives on Zinc Fingers Science, 261, 1701-1707, 1993. PDT009 J.L.Kim, D.B.Nikolov, S.K.Burley Co-Crystal Structure of TBP Recognizing the Minor Groove of a TATA Element Nature, 365, 520-527, 1993. PDT011 L.Fairall, J.W.R.Schwabe, L.Chapman, J.T.Finch, D.Rhodes The Crystal Structure of a Two Zinc-Finger Peptide Reveals an Extension to the Rules for Zinc-Finger/DNA Recognition Nature, 366, 483-487, 1993. PDT012 Y.Kim, J.H.Geiger, S.Hahn, P.B.Sigler Crystal Structure of a Yeast TBP/TATA-Box Complex Nature, 365, 512-520, 1993. PDT013 K.L.Clark, E.D.Halay, E.Lai, S.K.Burley Co-Crystal Structure of the HNF-3/Fork Head DNA-Recognition Motif Resembles Histone H5 Nature, 364, 412-420, 1993. PDT014 J.N.M.Glover, S.C.Harrison Crystal Structure of the Heterodimeric bZIP Transcription Factor C-Fos-C-Jun Bound to DNA Nature, 373, 257-261, 1995. ---------------------------------------------------------------------- Page 33 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PDT015 G.Ghosh, G.Van Duyne, S.Ghosh, P.B.Sigler Structure of NF-Kappa B p50 Homodimer Bound to a Kappa B Site Nature, 373, 303-310, 1995. PDT016 P.C.M.Ma, M.A.Rould, H.Weintraub, C.O.Pabo Crystal Structure of MyoD bHLH Domain Bound to DNA: Perspectives on DNA Recognition and Implications for Transcriptional Activation Cell(Cambridge,Mass.), 77, 451-459, 1994. PDT017 R.Marmorstein, S.C.Harrison Crystal Structure of a PPR1-DNA Complex: DNA Recognition by Proteins Containing a Zn2Cys6 Binuclear Cluster Genes Dev., 8, 2504-2512, 1994. PDT019 J.D.Klemm, M.A.Rould, R.Aurora, W.Herr, C.O.Pabo Crystal Structure of the Oct-1 POU Domain Bound to an Octamer Site: DNA Recognition with Tethered DNA-Binding Modules Cell(Cambridge,Mass.), 77, 21-32, 1994. PDT020 T.Ellenberger, D.Fass, M.Arnaud, S.C.Harrison Crystal Structure of Transcription Factor E47: E-Box Recognition by a Basic Region Helix-Loop-Helix Dimer Genes Dev., 8, 970-980, 1994. PDT021 L.Pellegrini, S.Tan, T.J.Richmond Structure of Serum Response Factor Core Bound to DNA Nature, 376, 490-498, 1995. PDT022 C.W.Mueller, F.A.Rey, M.Sodeoka, G.L.Verdine, S.C.Harrison Structure of the NF-kappaB p50 Homodimer Bound to DNA Nature, 373, 311-317, 1995. ---------------------------------------------------------------------- Page 34 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PDT023 A.R.Ferre-D'Amare, G.C.Prendergast, E.B.Ziff, S.K.Burley Recognition by Max of its Cognate DNA Through a Dimeric B/HLH/Z Domain Nature, 363, 38-45, 1993. PDT024 Z.S.Juo, T.K.Chiu, P.M.Leiberman, I.Baikalov, A.J.Berk, R.E.Dickerson How Proteins Recognize the TATA-Box J.Mol.Biol., 261, 239-254, 1996. PDT025 J.L.Kim, S.K.Burley 1.9 A Resolution Refined Structure of TBP Recognizing the Minor Groove of TATAAAAG Nat.Struct.Biol., 1, 638-653, 1994. PDT027 A.R.Ferre-D'Amare, P.Pognonec, R.G.Roeder, S.K.Burley Structure and Function of the B/HLH/Z Domain of USF Embo J., 13, 180-189, 1994. PDT028 T.Li, M.R.Stark, A.D.Johnson, C.Wolberger Crystal Structure of the MATa1/MATalpha2 Homeodomain Heterodimer Bound to DNA Science, 270, 262-269, 1995. PDT029 W.Keller, P.Koenig, T.J.Richmond Crystal Structure of a bZIP/DNA Complex at 2.2 Angstroms: Determinants of DNA Specific Recognition J.Mol.Biol., 254, 657-667, 1995. PDT030 D.T.Gewirth, P.B.Sigler The Basis for Half-Site Specificity Explored Through a Non- Cognate Steroid Receptor-DNA Complex Nat.Struct.Biol., 2, 386-394, 1995. ---------------------------------------------------------------------- Page 35 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PDT031 J.A.Hirsch, A.K.Aggarwal Structure of the Even-skipped Homeodomain Complexed to AT- rich DNA: New Perspectives on Homeodomain Specificity Embo J., 14, 6280-6291, 1995. PDT032 D.B.Nikolov, H.Chen, E.D.Halay, A.A.Usheva, K.Hisatake, D.K.Lee, R.G.Roeder, S.K.Burley Crystal Structure of a TFIIB-TBP-TATA-Element Ternary Complex Nature, 377, 119-128, 1995. PDT033 R.Kodandapani, F.Pio, C.Z.Ni, G.Piccialli, M.Klemsz, S.McKercher, R.A.Maki, K.R.Ely A New Pattern for Helix-Turn-Helix Recognition Revealed by the PU.1 ETS-Domain-DNA Complex Nature, 380, 456-460, 1996. PDT034 D.B.Nikolov, H.Chen, E.D.Halay, A.Hoffman, R.G.Roeder, S.K.Burley Crystal Structure of a Human TATA Box-Binding Protein/TATA Element Complex Proc.Nat.Acad.Sci.USA, 93, 4862-4867, 1996. PDT035 P.Koenig, R.Giraldo, L.Chapman, D.Rhodes Crystal Structure of the DNA Binding Domain of Yeast RAP1 in Complex with a Telomeric DNA Site Cell(Cambridge,Mass.), 85, 125-136, 1996. PDT036 S.Tan, Y.Hunziker, D.F.Sargent, T.J.Richmond Crystal Structure of a Yeast TFIIA/TBP/DNA Complex Nature, 381, 127-134, 1996. PDT037 J.H.Geiger, S.Hahn, S.Lee, P.B.Sigler Crystal Structure of the Yeast TFIIA/TBP/DNA Complex Science, 272, 830-836, 1996. ---------------------------------------------------------------------- Page 36 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PDT038 H.B.Houbaviy, A.Usheva, T.Shenk, S.K.Burley Cocrystal Structure of YY1 Bound to the Adeno-Associated Virus P5 Initiator Proc.Nat.Acad.Sci.USA, 93, 13577-13582, 1996. PDT039 M.Elrod-Erickson, M.A.Rould, L.Nekludova, C.O.Pabo Zif268 Protein-DNA Complex Refined at 1.6 A: A Model System for Understanding Zinc Finger-DNA Interactions Structure (London), 4, 1171-1180, 1996. PDT040 P.A.Rice, S.-W.Yang, K.Mizuuchi, H.A.Nash Crystal Structure of an IHF-DNA Complex: A Protein-Induced DNA U-Turn Cell(Cambridge,Mass.), 87, 1295-1306, 1996. PDT042 P.Brownlie, T.A.Ceska, M.Lamers, C.Romier, H.Theo, D.Suck The Crystal Structure of an Intact Human Max-DNA Complex: New Insights into Mechanisms of Transcriptional Control Structure (London), 5, 509-520, 1997. PDT043 L.Tucker-Kellogg, M.A.Rould, K.A.Chambers, S.E.Ades, R.T.Sauer, C.O.Pabo Engrailed (Gln50-->Lys) Homeodomain-DNA Complex at 1.9 A Resolution: Structural Basis for Enhanced Affinity and Altered Specificity Structure (London), 5, 1047-1054, 1997. PDT044 K.Swaminathan, P.Flynn, R.J.Reece, R.Marmorstein Crystal Structure of a Put3-DNA Complex Reveals a Novel Mechanism for DNA Recognition by a Protein Containing a Zn2Cys6 Binuclear Cluster Nat.Struct.Biol., 4, 751-759, 1997. PDT045 C.W.Muller, B.G.Herrmann Crystallographic Structure of the T Domain-DNA Complex of the Brachyury Transcription Factor Nature, 389, 884-888, 1997. ---------------------------------------------------------------------- Page 37 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PDT046 T.Shimizu, A.Toumoto, K.Ihara, M.Shimizu, Y.Kyogoku, N.Ogawa, Y.Oshima, T.Hakoshima Crystal Structure of Pho4 bHLH Domain-DNA Complex: Flanking Base Recognition Embo J., 16, 4689-4697, 1997. PDT048 A.H.Batchelor, D.E.Piper, C.F.De La Brousse, S.L.McKnight, C.Wolberger The Structure of Gabp Alpha/Beta: An Ets Domain-Ankyrin Repeat Heterodimer Bound to DNA Science, 279, 1037-1041, 1998. PDT049 J.M.Passner, T.A.Steitz The Structure of a CAP-DNA Complex Having Two cAMP Molecules Bound to Each Monomer Proc.Nat.Acad.Sci.USA, 94, 2843-2847, 1997. PDT050 L.Chen, J.N.Glover, P.G.Hogan, A.Rao, S.C.Harrison Structure of the DNA-Binding Domains from Nfat, Fos and Jun Bound Specifically to DNA Nature, 392, 42-48, 1998. PDT055 M.Elrod-Erickson, T.E.Benson, C.O.Pabo High-Resolution Structures of Variant Zif268-DNA Complexes: Implications for Understanding Zinc Finger-DNA Recognition Structure (London), 6, 451-n.a., 1998. PDT056 M.Elrod-Erickson, T.E.Benson, C.O.Pabo High-Resolution Structures of Variant Zif268-DNA Complexes: Implications for Understanding Zinc Finger-DNA Recognition Structure (London), 6, 451-464, 1998. PDT057 M.Elrod-Erickson, T.E.Benson, C.O.Pabo High-Resolution Structures of Variant Zif268-DNA Complexes: Implications for Understanding Zinc Finger-DNA Recognition Structure (London), 6, 451-464, 1998. ---------------------------------------------------------------------- Page 38 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PDT058 M.Elrod-Erickson, T.E.Benson, C.O.Pabo High-Resolution Structures of Variant Zif268-DNA Complexes: Implications for Understanding Zinc Finger-DNA Recognition Structure (London), 6, 451-464, 1998. PDT059 M.Elrod-Erickson, T.E.Benson, C.O.Pabo High-Resolution Structures of Variant Zif268-DNA Complexes: Implications for Understanding Zinc Finger-DNA Recognition Structure (London), 6, 451-464, 1998. PDT060 M.Elrod-Erickson, T.E.Benson, C.O.Pabo High-Resolution Structures of Variant Zif268-DNA Complexes: Implications for Understanding Zinc Finger-DNA Recognition Structure (London), 6, 451-464, 1998. PDT061 M.Elrod-Erickson, T.E.Benson, C.O.Pabo High-Resolution Structures of Variant Zif268-DNA Complexes: Implications for Understanding Zinc Finger-DNA Recognition Structure (London), 6, 451-464, 1998. PDT062 A.Parraga, L.Bellsolell, A.R.Ferre-D'Amare, S.K.Burley Co-Crystal Structure of Sterol Regulatory Element Binding Protein 1A at 2.3 A Resolution Structure (London), 6, 661-672, 1998. PDT063 D.N.Arvidson, F.Lu, C.Faber, H.Zalkin, R.G.Brennan The Structure of PurR Mutant L54M Shows an Alternative Route to DNA Kinking Nat.Struct.Biol., 5, 436-441, 1998. PDT064 P.B.Rupert, G.W.Daughdrill, B.Bowerman, B.W.Matthews A New DNA-Binding Motif in the Skn-1 Binding Domain-DNA Complex Nat.Struct.Biol., 5, 484-491, 1998. ---------------------------------------------------------------------- Page 39 created by the NDB Project on Wed May 26 14:27:10 2004 CITATIONS FOR PROTEIN/DNA (REGULATORY) ---------------------------------------------------------------------- NDB ID Citation ---------------------------------------------------------------------- PDT065 R.T.Nolte, R.M.Conlin, S.C.Harrison, R.S.Brown Differing Roles for Zinc Fingers in DNA Recognition: Structure of a Six-Finger Transcription Factor Iiia Complex Proc.Nat.Acad.Sci.USA, 95, 2938-2943, 1998. PDTB41 C.A.Kim, J.M.Berg A 2.2 A Resolution Crystal Structure of a Designed Zinc Finger Protein Bound to DNA Nat.Struct.Biol., 3, 940-945, 1996. PDTE01 K.Kamada, T.Horiuchi, K.Ohsumi, N.Shimamoto, K.Morikawa Structure of a Replication-Terminator Protein Complexed with DNA Nature, 383, 598-603, 1996. PDV001 R.S.Hegde, S.R.Grossman, L.A.Laimins, P.B.Sigler Crystal Structure at 1.7 Angstroms of the Bovine Papillomavirus-1 E2 DNA-Binding Domain Bound to its DNA Target Nature, 359, 505-512, 1992. PDV004 Y.Shamoo, A.M.Friedman, M.R.Parsons, W.H.Konigsberg, T.A.Steitz Crystal Structure of a Replication Fork Single-Stranded DNA Binding Protein ( T4 Gp32) Complexed to DNA Nature, 376, 362-366, 1995. 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. ---------------------------------------------------------------------- Page 40 created by the NDB Project on Wed May 26 14:27:10 2004