CITATIONS FOR DNA/RNA HYBRIDS ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- AH0001 G.Conn, T.Brown, G.Leonard The Crystal Structure of the RNA/DNA hybrid r(GAAGAGAAGC). d(GCTTCTCTTC) Shows Significant Differences to that Found in Solution Nucleic Acids Res., 27, 555-561, 1999. AH0005 Y.Xiong, M.Sundaralingam Crystal structure of a DNA.RNA hybrid duplex with a polypurine RNA r(gaagaagag) and a complementary polypyrimidine DNA d(CTCTTCTTC) Nucleic Acids Res., 28, 2171-2176, 2000. AH0007 H.Robinson, Y.-G.Gao, R.Sanishvili, A.Joachimiak, A.H.- J.Wang Hexahydrated magnesium ions bind in the deep major groove and at the outer mouth of the A-form nucleic acid duplexes Nucleic Acids Res., 28, 1760-1766, 2000. AH0008 H.Robinson, Y.-G.Gao, R.Sanishvili, A.Joachimiak, A.H.- J.Wang Hexahydrated magnesium ions bind in the deep major groove and at the outer mouth of the A-form nucleic acid duplexes Nucleic Acids Res., 28, 1760-1766, 2000. AH0009 H.Robinson, Y.-G.Gao, R.Sanishvili, A.Joachimiak, A.H.- J.Wang Hexahydrated magnesium ions bind in the deep major groove and at the outer mouth of the A-form nucleic acid duplexes Nucleic Acids Res., 28, 1760-1766, 2000. AH0010 C.Sudarsanakumar, Y.Xiong, M.Sundaralingam Crystal Structure of an Adenine Bulge in the RNA Chain of a DNA.RNA Hybrid, d(CTCCTCTTC)/r(gaagagagag) J.Mol.Biol., 299, 103-112, 2000. AH0011 M.C.Wahl, M.Sundaralingam B-form to A-form conversion by a 3'-terminal ribose: crystal structure of the chimera d(CCACTAGTG)r(G) Nucleic Acids Res., 28, 4356-4363, 2000. ----------------------------------------------------------------------- Page 1 created by the NDB Project on Wed May 26 14:26:52 2004 CITATIONS FOR DNA/RNA HYBRIDS ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- AH0012 G.W.Han Direct-methods determination of an RNA/DNA hybrid decamer at 1.15 A resolution ACTA CRYSTALLOGR.,SECT.D, 57, 213-218, 2001. AH0013 V.Tereshko, S.Wallace, N.Usman, F.Wincott, M.Egli X-ray crystallographic observation of "in-line" and "adjacent" conformations in a bulged self-cleaving RNA/DNA hybrid RNA, 7, 405-420, 2001. AH0014 V.Tereshko, S.Wallace, N.Usman, F.Wincott, M.Egli X-ray crystallographic observation of "in-line" and "adjacent" conformations in a bulged self-cleaving RNA/DNA hybrid RNA, 7, 405-420, 2001. AH0015 W.Cruse, P.Saludjian, A.Neuman, T.Prange Destabilizing Effect of a Fluorouracil Extra Base in a Hybrid RNA Duplex Compared with Bromo and Chloro Analogues Acta Crystallogr., Sect.D, 57, 1609-1613, 2001. AH0016 W.Cruse, P.Saludjian, A.Neuman, T.Prange Destabilizing Effect of a Fluorouracil Extra Base in a Hybrid RNA Duplex Compared with Bromo and Chloro Analogues Acta Crystallogr., Sect.D, 57, 1609-1613, 2001. AH0017 W.Cruse, P.Saludjian, A.Neuman, T.Prange Destabilizing Effect of a Fluorouracil Extra Base in a Hybrid RNA Duplex Compared with Bromo and Chloro Analogues Acta Crystallogr., Sect.D, 57, 1609-1613, 2001. AH0018 W.B.Cruse, P.Saludjian, A.Neuman, T.Prange Destabilizing Effect of a Fluorouracil Extra Base in a Hybrid RNA Duplex Compared with Bromo and Chloro Analogues Acta Crystallogr., Sect.D, 57, 1609-1613, 2001. ----------------------------------------------------------------------- Page 2 created by the NDB Project on Wed May 26 14:26:52 2004 CITATIONS FOR DNA/RNA HYBRIDS ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- AH0019 G.W.Han, M.L.Kopka, D.Langs, M.R.Sawaya, R.E.Dickerson Crystal structure of an RNADNA hybrid reveals intermolecular intercalation: Dimer formation by base-pair swapping Proc.Nat.Acad.Sci.USA, 100, 9214-9219, 2003. AHH0114 U.Mueller, G.Meier, A.M.Onori, L.Cellai, H.Heumann, U.Heinemann Crystal Structure of an 8-base-pair fragment containing the 3'-DNA-RNA-5' junction formed during initiation of minus- strand synthesis of HIV replication Biochemistry, 37, 12005-12011, 1998. AHH071 M.C.Wahl, C.Ban, C.Sekharudu, B.Ramakrishnan, M.Sundaralingam Structure of the Purine-Pyrimidine Alternating RNA Double Helix, r(GUAUAUA)d(C) , with a 3'-Terminal Deoxy Residue Acta Crystallogr.,Sect.D, 52, 655-667, 1996. AHH077 R.Biswas, M.C.Wahl, C.Ban, M.Sundaralingam Crystal Structure of an Alternating Octamer r(GUAUGUA)dC with Adjacent G.U Wobble Pairs J.Mol.Biol., 267, 1149-1156, 1997. AHH089 R.Biswas, M.Sundaralingam Crystal Structure of r(GUGUGUA)dC with Tandem G-U/U-G Wobble Pairs with Strand Slippage J.Mol.Biol., 270, 511-519, 1997. AHIB53 W.Cruse, P.Saludjian, E.Biala, P.Strazewski, T.Prange, O.Kennard The Structure of a Mispaired RNA Double Helix at 1.6 Angstroms Resolution and Implications for the Prediction of RNA Secondary Structure Proc.Nat.Acad.Sci.USA, 91, 4160-4164, 1994. AHJ015 A.H.-J.Wang, S.Fujii, J.H.Van Boom, G.A.Van Der Marel, S.A.A.Van Boeckel, A.Rich Molecular Structure of r(GCG)d(TATACGC): A DNA-RNA Hybrid Helix Joined to Double Helical DNA Nature, 299, 601-604, 1982. ----------------------------------------------------------------------- Page 3 created by the NDB Project on Wed May 26 14:26:52 2004 CITATIONS FOR DNA/RNA HYBRIDS ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- AHJ040 M.Egli, N.Usman, S.Zhang, A.Rich Crystal Structure of an Okazaki Fragment at 2 Angstroms Resolution Proc.Nat.Acad.Sci.USA, 89, 534-538, 1992. AHJ043 M.Egli, N.Usman, A.Rich Conformational Influence of the Ribose 2'-Hydroxyl Group: Crystal Structures of DNA-RNA Chimeric Duplexes Biochemistry, 32, 3221-3237, 1993. AHJ044 M.Egli, N.Usman, A.Rich Conformational Influence of the Ribose 2'-Hydroxyl Group: Crystal Structures of DNA-RNA Chimeric Duplexes Biochemistry, 32, 3221-3237, 1993. AHJ052 C.Ban, B.Ramakrishnan, M.Sundaralingam A Single 2'-Hydroxyl Group Converts B-DNA to A-DNA: Crystal Structure of the DNA-RNA Chimeric Decamer Duplex d(CCGGC)r(G)d(CCGG) with a Novel Intermolecular G.C Base- Paired Quadruplet J.Mol.Biol., 236, 275-285, 1994. AHJ060 C.Ban, B.Ramakrishnan, M.Sundaralingam Crystal Structure of the Highly Distorted Chimeric Decamer r(C)d(CGGCGCCG)r(G)-Spermine Complex-Spermine Binding to Phosphate Only and Minor Groove Tertiary Base-Pairing Nucleic Acids Res., 22, 5466-5476, 1994. AHJ068 Y.-G.Gao, H.Robinson, J.H.Van Boom, A.H.-J.Wang Influence of Counter-Ions on the Crystal Structures of DNA Decamers: Binding of [Co(NH3)6]3+ and Ba2+ to A-DNA Biophys.J., 69, 559-568, 1995. AHJS55 P.Lubini, W.Zuercher, M.Egli Stabilizing Effects of the RNA 2'-Substituent: Crystal Structure of an Oligodeoxynucleotide Duplex Containing 2'-O- Methylated Adenosines Chem.Biol., 1, 39-45, 1994. ----------------------------------------------------------------------- Page 4 created by the NDB Project on Wed May 26 14:26:52 2004 CITATIONS FOR DNA/RNA HYBRIDS ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- AR0019 B.Masquida, C.Sauter, E.Westhof A sulfate pocket formed by three GoU pairs in the 0.97 A resolution crystal structure of a nonameric RNA RNA, 5, 1384-1395, 1999. DR0001 S.N.Mitra, R.Biswas, K.Shi, M.Sundaralingam Crystal structure of an RNA duplex [r(gugcaca)dC]2 with 3'- dinucleoside overhangs forming a superhelix. J.Biomol.Struct.Dyn., 11, 189-194, 2000. DR0002 K.Shi, R.Biswas, S.N.Mitra, M.Sundaralingam The crystal structure of the octamer [r(guauaca)dC]2 with six Watson-Crick base-pairs and two 3' overhang residues J.Mol.Biol., 299, 113-122, 2000. DR0003 Y.Xiong, M.Sundaralingam Crystal Structure and Conformation of a DNA:RNA Hybrid Duplex with a Polypurine RNA Strand: D(Ttcttbr5Cttc):R(Gaagaagaa) Structure (London), 6, 1493-n.a., 1998. GHHB34 X.Chen, B.Ramakrishnan, M.Sundaralingam Crystal Structures of the B-Form DNA-RNA Chimers Complexed with Distamycin Nat.Struct.Biol., 2, 733-735, 1995. GHHB35 X.Chen, B.Ramakrishnan, M.Sundaralingam Crystal Structures of the B-Form DNA-RNA Chimers Complexed with Distamycin Nat.Struct.Biol., 2, 733-735, 1995. UH0001 J.Nowakowski, P.S.Shim, G.S.Prasad, C.D.Stout, G.F.Joyce Crystal Structure of an 82-Nucleotide RNA-DNA Complex Formed by the 10-23 DNA Enzyme Nat.Struct.Biol., 6, 151-156, 1999. ----------------------------------------------------------------------- Page 5 created by the NDB Project on Wed May 26 14:26:52 2004 CITATIONS FOR DNA/RNA HYBRIDS ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- UH0002 J.Nowakowski, P.J.Shim, C.D.Stout, G.F.Joyce Alternative conformations of a nucleic acid four-way junction J.Mol.Biol., 300, 93-102, 2000. UH0005 M.L.Kopka, L.Lavelle, G.W.Han, H.-L.Ng, R.E.Dickerson An Unusual Sugar Conformation in the Structure of an RNA/DNA Decamer of the Polypurine Tract May Affect Recognition by RNase H J.Mol.Biol., 334, 653-665, 2003. UH0006 M.L.Kopka, L.Lavelle, G.W.Han, H.-L.Ng, R.E.Dickerson An Unusual Sugar Conformation in the Structure of an RNA/DNA Decamer of the Polypurine Tract May Affect Recognition by RNase H J.Mol.Biol., 334, 653-665, 2003. UHJ055 N.C.Horton, B.C.Finzel The Structure of an RNA/DNA Hybrid: A Substrate of the Ribonuclease Activity of HIV-1 Reverse Transcriptase J.Mol.Biol., 264, 521-533, 1996. UHJ073 C.Ban, B.Ramakrishnan, M.Sundaralingam Crystal Structure of Two Self-Complementary Chimeric Decamer d(CCGG)r(C)d(GCCGG) and d(CCGG)r(CG)d(CCGG) To be Published, n.a., n.a.-n.a., n.a.. UHJ074 C.Ban, B.Ramakrishnan, M.Sundaralingam Crystal Structure of Two Self-Complementary Chimeric Decamers d(CCGG)r(C)d(GCCGG) and d(CCGG)r(CG)d(CCGG) To be Published, n.a., n.a.-n.a., n.a.. UHK045 S.Portmann, S.Grimm, C.Workman, N.Usman, M.Egli Crystal Structures of an A-Form Duplex with Single- Adenosine Bulges and a Conformational Basis for Site Specific RNA Self-Cleavage Chem.Biol., 3, 173-184, 1996. ----------------------------------------------------------------------- Page 6 created by the NDB Project on Wed May 26 14:26:52 2004 CITATIONS FOR DNA/RNA HYBRIDS ----------------------------------------------------------------------- NDB ID Citation ----------------------------------------------------------------------- UHK046 S.Portmann, S.Grimm, C.Workman, N.Usman, M.Egli Crystal Structures of an A-Form Duplex with Single- Adenosine Bulges and a Conformational Basis for Site Specific RNA Self-Cleavage Chem.Biol., 3, 173-184, 1996. ZHF026 M.Teng, Y.-C.Liaw, G.A.Van Der Marel, J.H.Van Boom, A.H.- J.Wang Effects of the O2' Hydroxyl Group on Z-DNA Conformation: Structure of Z-RNA and (ARA C)-[Z-DNA] Biochemistry, 28, 4923-4928, 1989. ----------------------------------------------------------------------- Page 7 created by the NDB Project on Wed May 26 14:26:52 2004