PDB: 45953 resultsInfo pagesStatus searchChemie searchBIRD

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6PPH	Kaposi's sarcoma-associated herpesvirus (KSHV), C1 penton vertex register, CATC-binding structure Descriptor: Capsid vertex component 1, Capsid vertex component 2, Large tegument protein deneddylase, ... Authors: Gong, D, Dai, X, Jih, J, Liu, Y.T, Bi, G.Q, Sun, R, Zhou, Z.H. Deposit date: 2019-07-06 Release date: 2019-09-11 Last modified: 2019-11-27 Method: ELECTRON MICROSCOPY (3.8 Å) Cite: DNA-Packing Portal and Capsid-Associated Tegument Complexes in the Tumor Herpesvirus KSHV. Cell, 178, 2019
6PPD	Kaposi's sarcoma-associated herpesvirus (KSHV), C1 penton vertex register, CATC-absent structure Descriptor: Major capsid protein, Small capsomere-interacting protein, Triplex capsid protein 1, ... Authors: Gong, D, Dai, X, Jih, J, Liu, Y.T, Bi, G.Q, Sun, R, Zhou, Z.H. Deposit date: 2019-07-06 Release date: 2019-09-11 Last modified: 2019-11-27 Method: ELECTRON MICROSCOPY (3.7 Å) Cite: DNA-Packing Portal and Capsid-Associated Tegument Complexes in the Tumor Herpesvirus KSHV. Cell, 178, 2019
8G8H	Crystal structure of human DNA polymerase eta incorporating ITP across dC Descriptor: CALCIUM ION, DNA (5'-D(*AP*GP*CP*GP*TP*GP*AP*G)-3'), DNA (5'-D(P*AP*TP*CP*CP*TP*CP*AP*CP*GP*CP*T)-3'), ... Authors: Jung, H. Deposit date: 2023-02-17 Release date: 2024-02-21 Method: X-RAY DIFFRACTION (1.64 Å) Cite: Crystal structure of human DNA polymerase eta incorporating ITP across dC To Be Published
1A5T	CRYSTAL STRUCTURE OF THE DELTA PRIME SUBUNIT OF THE CLAMP-LOADER COMPLEX OF ESCHERICHIA COLI DNA POLYMERASE III Descriptor: DELTA PRIME, ZINC ION Authors: Guenther, B, Onrust, R, Sali, A, O'Donnell, M, Kuriyan, J. Deposit date: 1998-02-18 Release date: 1998-05-27 Last modified: 2024-02-07 Method: X-RAY DIFFRACTION (2.2 Å) Cite: Crystal structure of the delta' subunit of the clamp-loader complex of E. coli DNA polymerase III. Cell(Cambridge,Mass.), 91, 1997
1LAE	Solution Structure of the DNA 13-mer Hairpin CGCGGTXTCCGCG (X=PdG) Containing the 1,N2-propanodeoxyguanosine Adduct at the Seventh Position Descriptor: 5'-D(*CP*GP*CP*GP*GP*TP*(P)P*TP*CP*CP*GP*CP*G)-3' Authors: Weisenseel, J.P, Reddy, G.R, Marnett, L.J, Stone, M.P. Deposit date: 2002-03-28 Release date: 2002-04-17 Last modified: 2024-05-22 Method: SOLUTION NMR Cite: Structure of the 1,N(2)-propanodeoxyguanosine adduct in a three-base DNA hairpin loop derived from a palindrome in the Salmonella typhimurium hisD3052 gene. Chem.Res.Toxicol., 15, 2002
1G4Q	RNA/DNA HYBRID DECAMER OF CAAAGAAAAG/CTTTTCTTTG Descriptor: (4S)-2-METHYL-2,4-PENTANEDIOL, 5'-D(*CP*TP*TP*TP*TP*CP*TP*TP*TP*G)-3', 5'-R(*CP*AP*AP*AP*GP*AP*AP*AP*AP*G)-3', ... Authors: Han, G.W. Deposit date: 2000-10-27 Release date: 2003-07-08 Last modified: 2024-02-07 Method: X-RAY DIFFRACTION (1.15 Å) Cite: Direct-methods determination of an RNA/DNA hybrid decamer at 1.15 A resolution. Acta Crystallogr.,Sect.D, 57, 2001
3N0U	Crystal structure of Tm1821, the 8-oxoguanine DNA glycosylase of Thermotoga maritima Descriptor: Probable N-glycosylase/DNA lyase, SODIUM ION Authors: Cooper, D.R, Roy, A, Derewenda, Z.S, Integrated Center for Structure and Function Innovation (ISFI) Deposit date: 2010-05-14 Release date: 2011-04-06 Last modified: 2024-02-21 Method: X-RAY DIFFRACTION (1.5 Å) Cite: Crystal structure of Tm1821, the 8-oxoguanine DNA glycosylase of Thermotoga maritima To be Published
6W35	A new Autotaxin Inhibitor for the Treatment of Idiopathic Pulmonary Fibrosis: A Clinical Candidate Discovered Using DNA-Encoded Chemistry Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-fluoranyl-~{N}-[(2~{R})-1-[1-(2~{H}-indazol-5-yl)-3-methyl-2,4-bis(oxidanylidene)-1,3,8-triazaspiro[4.5]decan-8-yl]-3-methyl-1-oxidanylidene-butan-2-yl]-5-(trifluoromethyl)benzamide, CALCIUM ION, ... Authors: Cuozzo, J.W. Deposit date: 2020-03-09 Release date: 2020-07-08 Last modified: 2023-10-18 Method: X-RAY DIFFRACTION (1.98 Å) Cite: Novel Autotaxin Inhibitor for the Treatment of Idiopathic Pulmonary Fibrosis: A Clinical Candidate Discovered Using DNA-Encoded Chemistry. J.Med.Chem., 63, 2020
8GKR	Crystal structure of human DNA polymerase eta incorporating 5F-dUTP across dA Descriptor: 2'-deoxy-5-fluorouridine 5'-(tetrahydrogen triphosphate), CALCIUM ION, DNA (5'-D(*AP*GP*TP*GP*TP*GP*AP*G)-3'), ... Authors: Jung, H. Deposit date: 2023-03-20 Release date: 2023-09-20 Method: X-RAY DIFFRACTION (2.784 Å) Cite: Crystal structure of human DNA polymerase eta incorporating 5F-dUTP across dA To Be Published
6WCD	Crystal Structure of Xenopus laevis APE2 Catalytic Domain Descriptor: 1,2-ETHANEDIOL, 1,4-BUTANEDIOL, 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, ... Authors: Wojtaszek, J.L, Wallace, B.D, Williams, R.S. Deposit date: 2020-03-30 Release date: 2020-05-06 Last modified: 2023-10-18 Method: X-RAY DIFFRACTION (1.54 Å) Cite: Endogenous DNA 3' Blocks Are Vulnerabilities for BRCA1 and BRCA2 Deficiency and Are Reversed by the APE2 Nuclease. Mol.Cell, 78, 2020
1LA8	Solution structure of the DNA hairpin 13-mer CGCGGTGTCCGCG Descriptor: 5'-D(*CP*GP*CP*GP*GP*TP*GP*TP*CP*CP*GP*CP*G)-3' Authors: Weisenseel, J.P, Reddy, G.R, Marnett, L.J, Stone, M.P. Deposit date: 2002-03-28 Release date: 2002-04-17 Last modified: 2024-05-22 Method: SOLUTION NMR Cite: Structure of the 1,N(2)-propanodeoxyguanosine adduct in a three-base DNA hairpin loop derived from a palindrome in the Salmonella typhimurium hisD3052 gene. Chem.Res.Toxicol., 15, 2002
1CX5	ANTISENSE DNA/RNA HYBRID CONTAINING MODIFIED BACKBONE Descriptor: 5'-D(*CP*GP*CP*GP*TP*T*(MMT)P*TP*GP*CP*GP*C), 5'-R(*GP*CP*GP*CP*AP*AP*AP*AP*CP*GP*CP*G) Authors: Yang, X, Han, X, Cross, C, Sanghvi, Y, Gao, X. Deposit date: 1999-08-28 Release date: 1999-09-14 Last modified: 2024-05-22 Method: SOLUTION NMR Cite: NMR structure of an antisense DNA.RNA hybrid duplex containing a 3'-CH(2)N(CH(3))-O-5' or an MMI backbone linker. Biochemistry, 38, 1999
1G00	ALTERNATION OF DNA AND SOLVENT LAYERS IN THE A FORM OF D(GGCGCC) OBTAINED BY ETHANOL CRYSTALLIZATION Descriptor: 5'-D(*GP*GP*CP*GP*CP*C)-3' Authors: Urpi, L, Navaza, J, Subirana, J.A. Deposit date: 2000-10-05 Release date: 2001-02-05 Last modified: 2024-04-03 Method: X-RAY DIFFRACTION (2.3 Å) Cite: Alternation of DNA and solvent layers in the A form of d(GGCGCC) obtained by ethanol crystallization. J.Biomol.Struct.Dyn., 18, 2000
3GNA	Crystal structure of the RAG1 nonamer-binding domain with DNA Descriptor: 5'-D(*AP*CP*TP*TP*AP*AP*CP*AP*AP*AP*AP*AP*CP*C)-3', 5'-D(*TP*GP*GP*TP*TP*TP*TP*TP*GP*TP*TP*AP*AP*G)-3', V(D)J recombination-activating protein 1 Authors: Yin, F.F, Bailey, S, Innis, C.A, Steitz, T.A, Schatz, D.G. Deposit date: 2009-03-16 Release date: 2009-04-28 Last modified: 2024-02-21 Method: X-RAY DIFFRACTION (2.4 Å) Cite: Structure of the RAG1 nonamer binding domain with DNA reveals a dimer that mediates DNA synapsis. Nat.Struct.Mol.Biol., 16, 2009
6GSA	Core Centromere Binding Factor 3 (CBF3) with monomeric Ndc10 Descriptor: Centromere DNA-binding protein complex CBF3 subunit A, Centromere DNA-binding protein complex CBF3 subunit B, Centromere DNA-binding protein complex CBF3 subunit C, ... Authors: Zhang, W.J, Lukoynova, N, Vaughan, C.K. Deposit date: 2018-06-13 Release date: 2018-08-01 Method: ELECTRON MICROSCOPY (4.2 Å) Cite: Insights into Centromere DNA Bending Revealed by the Cryo-EM Structure of the Core Centromere Binding Factor 3 with Ndc10. Cell Rep, 24, 2018
4NIH	Crystal structure of AlkB E136L mutant protein with cofactors bound to dsDNA containing m6A/A Descriptor: 2-OXOGLUTARIC ACID, 5'-D(*AP*AP*CP*GP*GP*TP*AP*TP*TP*AP*CP*CP*T)-3', 5'-D(*TP*AP*GP*GP*TP*AP*AP*(6MA)P*AP*CP*CP*GP*T)-3', ... Authors: Yi, C.Q, Zhu, C.X. Deposit date: 2013-11-06 Release date: 2014-04-16 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (1.374 Å) Cite: Switching Demethylation Activities between AlkB Family RNA/DNA Demethylases through Exchange of Active-Site Residues. Angew.Chem.Int.Ed.Engl., 53, 2014
4NII	Crystal structure of AlkB D135I mutant protein with cofactors bound to dsDNA containing m6A/A Descriptor: 2-OXOGLUTARIC ACID, 5'-D(*AP*AP*CP*GP*GP*TP*AP*TP*TP*AP*CP*CP*T)-3', 5'-D(*TP*AP*GP*GP*TP*AP*AP*(6MA)P*AP*CP*CP*GP*T)-3', ... Authors: Yi, C.Q, Zhu, C.X. Deposit date: 2013-11-06 Release date: 2014-04-16 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (1.622 Å) Cite: Switching Demethylation Activities between AlkB Family RNA/DNA Demethylases through Exchange of Active-Site Residues. Angew.Chem.Int.Ed.Engl., 53, 2014
4NIG	Crystal structure of AlkB D135I/E136H mutant protein with cofactors bound to dsDNA containing m6A/A Descriptor: 2-OXOGLUTARIC ACID, 5'-D(*AP*AP*CP*GP*GP*TP*AP*TP*TP*AP*CP*CP*T)-3', 5'-D(*TP*AP*GP*GP*TP*AP*AP*(6MA)P*AP*CP*CP*GP*T)-3', ... Authors: Yi, C.Q, Zhu, C.X. Deposit date: 2013-11-06 Release date: 2014-04-16 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (1.52 Å) Cite: Switching Demethylation Activities between AlkB Family RNA/DNA Demethylases through Exchange of Active-Site Residues. Angew.Chem.Int.Ed.Engl., 53, 2014
4NID	Crystal structure of AlkB protein with cofactors bound to dsDNA containing m6A Descriptor: 2-OXOGLUTARIC ACID, 5'-D(*AP*AP*CP*GP*GP*TP*AP*TP*TP*AP*CP*CP*T)-3', 5'-D(*TP*AP*GP*GP*TP*AP*AP*(6MA)P*AP*CP*CP*GP*T)-3', ... Authors: Zhu, C.X, Yi, C.Q. Deposit date: 2013-11-06 Release date: 2014-04-16 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (1.58 Å) Cite: Switching Demethylation Activities between AlkB Family RNA/DNA Demethylases through Exchange of Active-Site Residues. Angew.Chem.Int.Ed.Engl., 53, 2014
2W7N	Crystal Structure of KorA Bound to Operator DNA: Insight into Repressor Cooperation in RP4 Gene Regulation Descriptor: 5'-D(*AP*AP*TP*GP*TP*TP*TP*AP*GP*CP *TP*AP*AP*AP*CP*AP*AP*G)-3', 5'-D(*CP*BRUP*BRUP*GP*TP*TP*TP*AP*GP*CP*TP*AP *AP*AP*CP*AP*BRUP*T)-3', TRFB TRANSCRIPTIONAL REPRESSOR PROTEIN Authors: Koenig, B, Mueller, J.J, Lanka, E, Heinemann, U. Deposit date: 2008-12-23 Release date: 2009-02-17 Last modified: 2024-05-08 Method: X-RAY DIFFRACTION (1.85 Å) Cite: Crystal Structure of Kora Bound to Operator DNA: Insight Into Repressor Cooperation in Rp4 Gene Regulation Nucleic Acids Res., 37, 2009
7KZI	Intermediate state (QQQ) of near full-length DnaK alternatively fused with a substrate peptide Descriptor: ADENOSINE-5'-TRIPHOSPHATE, CHLORIDE ION, Chaperone protein DnaK fused with substrate peptide,Chaperone protein DnaK fused with substrate peptide, ... Authors: Wang, W, Hendrickson, W.A. Deposit date: 2020-12-10 Release date: 2021-05-12 Last modified: 2023-10-18 Method: X-RAY DIFFRACTION (2.82 Å) Cite: Intermediates in allosteric equilibria of DnaK-ATP interactions with substrate peptides Acta Crystallogr.,Sect.D, 77, 2021
1DPU	SOLUTION STRUCTURE OF THE C-TERMINAL DOMAIN OF HUMAN RPA32 COMPLEXED WITH UNG2(73-88) Descriptor: REPLICATION PROTEIN A (RPA32) C-TERMINAL DOMAIN, URACIL DNA GLYCOSYLASE (UNG2) Authors: Mer, G, Edwards, A.M, Chazin, W.J. Deposit date: 1999-12-27 Release date: 2000-11-10 Last modified: 2024-05-22 Method: SOLUTION NMR Cite: Structural basis for the recognition of DNA repair proteins UNG2, XPA, and RAD52 by replication factor RPA. Cell(Cambridge,Mass.), 103, 2000
2HOT	Phage selected homeodomain bound to modified DNA Descriptor: 3-PROP-2-YN-1-YL-1,3-OXAZOLIDIN-2-ONE, 5'-D(*AP*TP*CP*CP*GP*GP*GP*GP*AP*TP*TP*AP*CP*AP*TP*GP*GP*CP*AP*AP*A)-3', 5'-D(*TP*TP*TP*TP*GP*CP*CP*AP*TP*GP*TP*AP*AP*TP*CP*CP*CP*CP*GP*GP*A)-3', ... Authors: Feldman, M.E, Simon, M.D, Shokat, K.M. Deposit date: 2006-07-16 Release date: 2006-12-12 Last modified: 2024-02-14 Method: X-RAY DIFFRACTION (2.19 Å) Cite: Structure and properties of a re-engineered homeodomain protein-DNA interface. Acs Chem.Biol., 1, 2006
1V1Q	Crystal structure of PriB- a primosomal DNA replication protein of Escherichia coli Descriptor: CYSTEINE, PRIMOSOMAL REPLICATION PROTEIN N Authors: Liu, J.-H, Chang, T.-W, Huang, C.-Y, Chang, M.-C, Chen, S.-U, Wu, H.-N, Hsiao, C.-D. Deposit date: 2004-04-22 Release date: 2004-10-25 Last modified: 2023-11-08 Method: X-RAY DIFFRACTION (2.1 Å) Cite: Crystal Structure of Prib- a Primosomal DNA Replication Protein of Escherichia Coli J.Biol.Chem., 279, 2004
2QKB	Human RNase H catalytic domain mutant D210N in complex with 20-mer RNA/DNA hybrid Descriptor: 1,2-ETHANEDIOL, 5'-D(*DGP*DGP*DAP*DAP*DTP*DCP*DAP*DGP*DGP*DTP*DGP*DTP*DCP*DGP*DCP*DAP*DCP*DTP*DCP*DT)-3', 5'-R(*GP*GP*AP*GP*UP*GP*CP*GP*AP*CP*AP*CP*CP*UP*GP*AP*UP*UP*CP*C)-3'), ... Authors: Nowotny, M, Gaidamakov, S.A, Ghirlando, R, Cerritelli, S.M, Crouch, R.J, Yang, W. Deposit date: 2007-07-10 Release date: 2007-11-13 Last modified: 2023-11-15 Method: X-RAY DIFFRACTION (2.4 Å) Cite: Structure of Human RNase H1 Complexed with an RNA/DNA Hybrid: Insight into HIV Reverse Transcription Mol.Cell, 28, 2007

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