PDB: 532 resultsInfo pagesStatus searchChemie searchBIRD

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3AJK	Crystal structure of d(CGCGGATf5UCGCG): 5-Formyluridine:Guanosine Base-pair in B-DNA with Hoechst33258 Descriptor: 2'-(4-HYDROXYPHENYL)-5-(4-METHYL-1-PIPERAZINYL)-2,5'-BI-BENZIMIDAZOLE, 5'-D(*CP*GP*CP*GP*GP*AP*TP*(UFR)P*CP*GP*CP*G*)-3', MAGNESIUM ION Authors: Tsunoda, M, Sakaue, T, Ueno, Y, Matsuda, A, Takenaka, A. Deposit date: 2010-06-07 Release date: 2011-04-27 Last modified: 2023-11-01 Method: X-RAY DIFFRACTION (1.95 Å) Cite: Insights into the structures of DNA damaged by hydroxyl radical: crystal structures of DNA duplexes containing 5-formyluracil J Nucleic Acids, 2010, 2010
2XC6	Crystal structure of the GNA 3'-CTC(Br)UAGAG-2' Descriptor: GNA, SODIUM ION Authors: Schlegel, M.K, Essen, L.-O, Meggers, E. Deposit date: 2010-04-16 Release date: 2011-05-04 Last modified: 2024-06-19 Method: X-RAY DIFFRACTION (1.83 Å) Cite: On the Structure and Dynamics of Duplex Gna. J.Org.Chem., 76, 2011
1KB1	SOLUTION STRUCTURE OF AN 11-MER DNA DUPLEX CONTAINING 6-THIOGUANINE OPPOSITE CYTOSINE Descriptor: 5'-D(*CP*GP*TP*AP*CP*(S6G)P*CP*AP*TP*GP*C)-3', 5'-D(*GP*CP*AP*TP*GP*CP*GP*TP*AP*CP*G)-3' Authors: Bohon, J, De Los Santos, C.R. Deposit date: 2001-11-05 Release date: 2001-11-28 Last modified: 2024-05-22 Method: SOLUTION NMR Cite: Structural effect of the anticancer agent 6-thioguanine on duplex DNA. Nucleic Acids Res., 31, 2003
1NBV	AN AUTOANTIBODY TO SINGLE-STRANDED DNA: COMPARISON OF THE THREE-DIMENSIONAL STRUCTURES OF THE UNLIGANDED FAB AND A DEOXYNUCLEOTIDE-FAB COMPLEX Descriptor: IGG2B-KAPPA BV04-01 FAB (HEAVY CHAIN), IGG2B-KAPPA BV04-01 FAB (LIGHT CHAIN) Authors: Herron, J.N, He, X.M, Edmundson, A.B. Deposit date: 1993-03-16 Release date: 1994-01-31 Last modified: 2019-08-14 Method: X-RAY DIFFRACTION (2 Å) Cite: An autoantibody to single-stranded DNA: comparison of the three-dimensional structures of the unliganded Fab and a deoxynucleotide-Fab complex. Proteins, 11, 1991
1DPN	B-DODECAMER CGCGAA(TAF)TCGCG WITH INCORPORATED 2'-DEOXY-2'-FLUORO-ARABINO-FURANOSYL THYMINE Descriptor: DNA (5'-D(*CP*GP*CP*GP*AP*AP*(TAF)P*TP*CP*GP*CP*G)-3'), MAGNESIUM ION Authors: Egli, M, Tereshko, V, Teplova, M, Minasov, G, Joachimiak, A, Sanishvili, R, Weeks, C.M, Miller, R, Maier, M.A, An, H, Dan Cook, P, Manoharan, M. Deposit date: 1999-12-27 Release date: 2000-04-04 Last modified: 2024-02-07 Method: X-RAY DIFFRACTION (0.95 Å) Cite: X-ray crystallographic analysis of the hydration of A- and B-form DNA at atomic resolution. Biopolymers, 48, 1998
1NR8	The crystal structure of a D-Lysine-based chiral PNA-DNA duplex Descriptor: 5'-D(P*AP*GP*TP*GP*AP*TP*CP*TP*AP*C)-3', H-((GPN)*(TPN)*(APN)*(GPN)*(A66)*(T66)*(C66)*(APN)*(CPN)*(TPN))-NH2, MAGNESIUM ION Authors: Menchise, V, De Simone, G, Tedeschi, T, Corradini, R, Sforza, S, Marchelli, R, Capasso, D, Saviano, M, Pedone, C. Deposit date: 2003-01-24 Release date: 2003-10-28 Last modified: 2023-11-15 Method: X-RAY DIFFRACTION (1.66 Å) Cite: Insights into peptide nucleic acid (PNA) structural features: The crystal structure of a D-lysine-based chiral PNA-DNA duplex Proc.Natl.Acad.Sci.USA, 100, 2003
3KFX	Human dCK complex with 5-Me dC and ADP Descriptor: 5-METHYL-2'-DEOXYCYTIDINE, ADENOSINE-5'-DIPHOSPHATE, Deoxycytidine kinase Authors: Hazra, S, Lavie, A. Deposit date: 2009-10-28 Release date: 2010-09-15 Last modified: 2024-02-21 Method: X-RAY DIFFRACTION (1.96 Å) Cite: Structural and kinetic characterization of human deoxycytidine kinase variants able to phosphorylate 5-substituted deoxycytidine and thymidine analogues . Biochemistry, 49, 2010
3MBS	Crystal structure of 8mer PNA Descriptor: 1,2-ETHANEDIOL, Peptide Nucleic Acid Authors: Yeh, J.I, Pohl, E, Truan, D, He, W, Sheldrick, G.M, Achim, C. Deposit date: 2010-03-26 Release date: 2011-03-30 Last modified: 2023-11-15 Method: X-RAY DIFFRACTION (1.27 Å) Cite: The crystal structure of non-modified and bipyridine-modified PNA duplexes. Chemistry, 16, 2010
1WV6	X-ray structure of the A-decamer GCGTATACGC with a single 2'-O-butyl thymine in place of T6, Sr-form Descriptor: 5'-D(*GP*CP*GP*TP*AP*(2BT)P*AP*CP*GP*C)-3', STRONTIUM ION Authors: Egli, M, Minasov, G, Tereshko, V, Pallan, P.S, Teplova, M, Inamati, G.B, Lesnik, E.A, Owens, S.R, Ross, B.S, Prakash, T.P, Manoharam, M. Deposit date: 2004-12-11 Release date: 2005-06-28 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (2.55 Å) Cite: Probing the influence of stereoelectronic effects on the biophysical properties of oligonucleotides: comprehensive analysis of the RNA affinity, nuclease resistance, and crystal structure of ten 2'-O-ribonucleic acid modifications. Biochemistry, 44, 2005
1WV5	X-ray structure of the A-decamer GCGTATACGC with a single 2'-o-butyl thymine in place of T6, Mg-form Descriptor: 5'-D(*GP*CP*GP*TP*AP*(2BT)P*AP*CP*GP*C)-3', MAGNESIUM ION Authors: Egli, M, Minasov, G, Tereshko, V, Pallan, P.S, Teplova, M, Inamati, G.B, Lesnik, E.A, Owens, S.R, Ross, B.S, Prakash, T.P, Manoharam, M. Deposit date: 2004-12-11 Release date: 2005-06-28 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (2.3 Å) Cite: Probing the influence of stereoelectronic effects on the biophysical properties of oligonucleotides: comprehensive analysis of the RNA affinity, nuclease resistance, and crystal structure of ten 2'-O-ribonucleic acid modifications. Biochemistry, 44, 2005
1XJ9	Crystal structure of a partly self-complementary peptide nucleic acid (PNA) oligomer showing a duplex-triplex network Descriptor: peptide nucleic acid, (H-P(*GPN*TPN*APN*GPN*APN*TPN*CPN*APN*CPN*TPN)-LYS-NH2) Authors: Petersson, B, Nielsen, B.B, Rasmussen, H, Larsen, I.K, Gajhede, M, Nielsen, P.E, Kastrup, J.S. Deposit date: 2004-09-23 Release date: 2005-02-22 Last modified: 2023-11-15 Method: X-RAY DIFFRACTION (2.6 Å) Cite: Crystal Structure of a Partly Self-Complementary Peptide Nucleic Acid (PNA) Oligomer Showing a Duplex-Triplex Network J.Am.Chem.Soc., 127, 2005
3HP1	Crystal structure of human dCK R104M/D133A in complex with L-dT and ADP Descriptor: ADENOSINE-5'-DIPHOSPHATE, Deoxycytidine kinase, L-deoxythymidine Authors: Hazra, S, Lavie, A. Deposit date: 2009-06-03 Release date: 2009-06-16 Last modified: 2023-09-06 Method: X-RAY DIFFRACTION (2.31 Å) Cite: Extending Thymidine Kinase Activity to the Catalytic Repertoire of Human Deoxycytidine Kinase. Biochemistry, 48, 2009
6N89	Cryo-EM structure of the Importin beta:Histone H1.0 complex Descriptor: Histone H1.0, Importin subunit beta-1 Authors: Bilokapic, S, Ivic, N, Halic, M. Deposit date: 2018-11-28 Release date: 2019-02-27 Last modified: 2024-03-20 Method: ELECTRON MICROSCOPY (7.5 Å) Cite: Fuzzy Interactions Form and Shape the Histone Transport Complex. Mol. Cell, 73, 2019
4QKK	Crystal structure of an oligonucleotide containing 5-formylcytosine Descriptor: DNA (5'-D(*CP*TP*AP*(5FC)P*GP*(5FC)P*GP*(5FC)P*GP*TP*AP*G)-3') Authors: Raiber, E.-A, Murat, P, Chirgadze, D.Y, Luisi, B.F, Balasubramanian, S. Deposit date: 2014-06-06 Release date: 2014-12-10 Last modified: 2024-03-20 Method: X-RAY DIFFRACTION (1.4 Å) Cite: 5-Formylcytosine alters the structure of the DNA double helix. Nat.Struct.Mol.Biol., 22, 2015
3THZ	Human MutSbeta complexed with an IDL of 6 bases (Loop6) and ADP Descriptor: ADENOSINE-5'-DIPHOSPHATE, DNA Loop6 minus strand, DNA Loop6 plus strand, ... Authors: Yang, W. Deposit date: 2011-08-19 Release date: 2011-12-21 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (4.3 Å) Cite: Mechanism of mismatch repair revealed by human MutS bound to unpaired DNA loops Nat.Struct.Mol.Biol., 19, 2012
2W9A	Ternary complex of Dpo4 bound to N2,N2-dimethyl-deoxyguanosine modified DNA with incoming dGTP Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP *TP*TP*CP*DOC)-3', 5'-D(*TP*CP*AP*CP*O2GP*GP*AP*AP*TP*CP *CP*TP*TP*CP*CP*CP*CP*C)-3', ... Authors: Eoff, R.L, Zhang, H, Kosekov, I.D, Rizzo, C.J, Egli, M, Guengerich, F.P. Deposit date: 2009-01-22 Release date: 2009-05-12 Last modified: 2023-12-13 Method: X-RAY DIFFRACTION (2.6 Å) Cite: Structure-Function Relationships in Miscoding by Sulfolobus Solfataricus DNA Polymerase Dpo4: Guanine N2,N2-Dimethyl Substitution Produces Inactive and Miscoding Polymerase Complexes. J.Biol.Chem., 284, 2009
2W9B	Binary complex of Dpo4 bound to N2,N2-dimethyl-deoxyguanosine modified DNA Descriptor: 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP *TP*TP*CP*DOCP)-3', 5'-D(*TP*CP*AP*TP*M2GP*GP*AP*AP*TP*CP*CP *TP*TP*CP*CP*CP*CP*C)-3', DNA POLYMERASE IV, ... Authors: Eoff, R.L, Zhang, H, Kosekov, I.D, Rizzo, C.J, Egli, M, Guengerich, F.P. Deposit date: 2009-01-22 Release date: 2009-05-12 Last modified: 2023-12-13 Method: X-RAY DIFFRACTION (2.28 Å) Cite: Structure-Function Relationships in Miscoding by Sulfolobus Solfataricus DNA Polymerase Dpo4: Guanine N2,N2-Dimethyl Substitution Produces Inactive and Miscoding Polymerase Complexes. J.Biol.Chem., 284, 2009
2W9C	Ternary complex of Dpo4 bound to N2,N2-dimethyl-deoxyguanosine modified DNA with incoming dTTP Descriptor: 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP *TP*TP*DOCP)-3', 5'-D(*TP*CP*AP*CP*O2GP*GP*AP*AP*TP*CP*CP *TP*TP*CP*CP*CP*CP*C)-3', DNA POLYMERASE IV, ... Authors: Eoff, R.L, Zhang, H, Kosekov, I.D, Rizzo, C.J, Egli, M, Guengerich, F.P. Deposit date: 2009-01-22 Release date: 2009-05-12 Last modified: 2023-12-13 Method: X-RAY DIFFRACTION (2.9 Å) Cite: Structure-Function Relationships in Miscoding by Sulfolobus Solfataricus DNA Polymerase Dpo4: Guanine N2,N2-Dimethyl Substitution Produces Inactive and Miscoding Polymerase Complexes. J.Biol.Chem., 284, 2009
2XCP	TERNARY COMPLEX OF SULFOLOBUS SOLFATARICUS DPO4 DNA POLYMERASE, 7,8- DIHYDRO-8-OXODEOXYGUANINE MODIFIED DNA AND dCTP - MAGNESIUM FORM Descriptor: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP *TP*DOC)-3', 5'-D(*TP*CP*AP*CP*8OGP*GP*AP*AP*TP*CP*CP *TP*TP*CP*CP*CP*CP*C)-3', ... Authors: Irimia, A, Egli, M. Deposit date: 2010-04-24 Release date: 2010-09-08 Last modified: 2023-12-20 Method: X-RAY DIFFRACTION (2.6 Å) Cite: Metal Ion Dependence of the Active Site Conformation of the Trans-Lesion DNA Polymerase Dpo4 from Sulfolobus Solfataricus Acta Crystallogr.,Sect.F, 66, 2010
2XCA	TERNARY COMPLEX OF SULFOLOBUS SOLFATARICUS DPO4 DNA POLYMERASE, 7,8- DIHYDRO-8-OXODEOXYGUANINE MODIFIED DNA AND dGTP - MAGNESIUM FORM Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*DOC)-3', 5'-D(*TP*CP*AP*CP*8OGP*GP*AP*AP*TP*CP*CP*TP*TP*CP* CP*CP*CP*C)-3', ... Authors: Irimia, A, Egli, M. Deposit date: 2010-04-20 Release date: 2010-09-08 Last modified: 2023-12-20 Method: X-RAY DIFFRACTION (2.5 Å) Cite: Metal Ion Dependence of the Active Site Conformation of the Trans-Lesion DNA Polymerase Dpo4 from Sulfolobus Solfataricus Acta Crystallogr.,Sect.F, 66, 2010
2XC9	BINARY COMPLEX OF SULFOLOBUS SOLFATARICUS DPO4 DNA POLYMERASE AND 1, N2-ETHENOGUANINE MODIFIED DNA, MAGNESIUM FORM Descriptor: 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*CP*G)-3', 5'-D(*TP*CP*AP*CP*GNEP*GP*AP*AP*TP*CP*CP*TP*TP* CP*CP*CP*CP*C)-3', DNA POLYMERASE IV Authors: Irimia, A, Loukachevitch, L.V, Egli, M. Deposit date: 2010-04-20 Release date: 2010-09-08 Last modified: 2023-12-20 Method: X-RAY DIFFRACTION (2.2 Å) Cite: Metal Ion Dependence of the Active Site Conformation of the Trans-Lesion DNA Polymerase Dpo4 from Sulfolobus Solfataricus Acta Crystallogr.,Sect.F, 66, 2010
3THX	Human MutSbeta complexed with an IDL of 3 bases (Loop3) and ADP Descriptor: ADENOSINE-5'-DIPHOSPHATE, DNA Loop3 minus strand, DNA Loop3 plus strand, ... Authors: Yang, W. Deposit date: 2011-08-19 Release date: 2011-12-21 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (2.7 Å) Cite: Mechanism of mismatch recognition revealed by human MutSbeta bound to unpaired DNA loops Nat.Struct.Mol.Biol., 19, 2012
3THY	Human MutSbeta complexed with an IDL of 2 bases (Loop2) and ADP Descriptor: ADENOSINE-5'-DIPHOSPHATE, DNA Loop2 minus strand, DNA Loop2 plus strand, ... Authors: Yang, W. Deposit date: 2011-08-19 Release date: 2011-12-21 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (2.894 Å) Cite: Mechanism of mismatch repair revealed by human MutSbeta bound to unpaired DNA loops Nat.Struct.Mol.Biol., 19, 2012
2W8K	Y-family DNA polymerase Dpo4 bypassing N2-naphthyl-guanine adduct in syn orientation Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP *TP*TP*CP*DOC)-3', 5'-D(*TP*CP*AP*CP*N2GP*GP*AP*AP*TP*CP*CP *TP*TP*CP*CP*CP*CP*C)-3', ... Authors: Eoff, R.L, Zhang, H, Egli, M, Guengerich, F.P. Deposit date: 2009-01-16 Release date: 2009-01-27 Last modified: 2023-12-13 Method: X-RAY DIFFRACTION (3.1 Å) Cite: Versatility of Y-Family Sulfolobus Solfataricus DNA Polymerase Dpo4 in Translesion Synthesis Past Bulky N2-Alkylguanine Adducts. J.Biol.Chem., 284, 2009
2W8L	Y-family DNA polymerase Dpo4 bypassing N2-naphthyl-guanine adduct in anti orientation Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP *TP*TP*CP*DOC)-3', 5'-D(*TP*CP*AP*CP*N2GP*GP*AP*AP*TP*CP *CP*TP*TP*CP*CP*CP*CP*C)-3', ... Authors: Eoff, R.L, Zhang, H, Egli, M, Guengerich, F.P. Deposit date: 2009-01-16 Release date: 2009-01-27 Last modified: 2023-12-13 Method: X-RAY DIFFRACTION (3 Å) Cite: Versatility of Y-Family Sulfolobus Solfataricus DNA Polymerase Dpo4 in Translesion Synthesis Past Bulky N2-Alkylguanine Adducts. J.Biol.Chem., 284, 2009

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