PDB: 45953 resultsInfo pagesStatus searchChemie searchBIRD

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3FIS	THE MOLECULAR STRUCTURE OF WILD-TYPE AND A MUTANT FIS PROTEIN: RELATIONSHIP BETWEEN MUTATIONAL CHANGES AND RECOMBINATIONAL ENHANCER FUNCTION OR DNA BINDING Descriptor: FACTOR FOR INVERSION STIMULATION (FIS) Authors: Yuan, H.S, Finkel, S.E, Feng, J-A, Johnson, R.C, Dickerson, R.E. Deposit date: 1991-08-12 Release date: 1993-10-31 Last modified: 2024-02-21 Method: X-RAY DIFFRACTION (2.3 Å) Cite: The molecular structure of wild-type and a mutant Fis protein: relationship between mutational changes and recombinational enhancer function or DNA binding. Proc.Natl.Acad.Sci.USA, 88, 1991
7A8P	Structure of human mitochondrial RNA polymerase in complex with IMT inhibitor. Descriptor: (3~{R})-1-[(2~{R})-2-[4-(2-chloranyl-4-fluoranyl-phenyl)-2-oxidanylidene-chromen-7-yl]oxypropanoyl]piperidine-3-carboxylic acid, DNA-directed RNA polymerase, mitochondrial Authors: Hillen, H.S, Bonekamp, N, Peter, B, Felser, A, Bergbrede, T, Choidas, A, Horn, M, Unger, A, di Lucrezia, R, Atanassov, I, Li, X, Koch, U, Menninger, S, Boros, J, Habenberger, P, Giavalisco, P, Cramer, P, Denzel, M, Nussbaumer, P, Klebl, B, Falkenberg, M, Gustafsson, C.M, Larsson, N.G. Deposit date: 2020-08-30 Release date: 2020-12-30 Last modified: 2024-05-01 Method: ELECTRON MICROSCOPY (3.5 Å) Cite: Small-molecule inhibitors of human mitochondrial DNA transcription. Nature, 588, 2020
6BM4	Pol II elongation complex with an abasic lesion at i-1 position,soaking UMPNPP Descriptor: 5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]uridine, DNA (5'-D(P*CP*AP*(3DR)P*CP*TP*CP*TP*TP*GP*AP*TP*G)-3'), DNA-directed RNA polymerase II subunit RPB1, ... Authors: Wang, W, Wang, D. Deposit date: 2017-11-13 Release date: 2018-02-28 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (2.951 Å) Cite: Structural basis of transcriptional stalling and bypass of abasic DNA lesion by RNA polymerase II. Proc. Natl. Acad. Sci. U.S.A., 115, 2018
6BLP	Pol II elongation complex with an abasic lesion at i+1 position, soaking AMPCPP Descriptor: DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER, DNA (5'-D(P*AP*(3DR)P*CP*TP*CP*TP*CP*GP*AP*TP*G)-3'), DNA-directed RNA polymerase II subunit RPB1, ... Authors: Wang, W, Wang, D. Deposit date: 2017-11-11 Release date: 2018-02-28 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (3.203 Å) Cite: Structural basis of transcriptional stalling and bypass of abasic DNA lesion by RNA polymerase II. Proc. Natl. Acad. Sci. U.S.A., 115, 2018
8VAT	Structure of the E. coli clamp loader bound to the beta clamp in a Open-RNAp/t conformation Descriptor: ADENOSINE-5'-DIPHOSPHATE, BERYLLIUM TRIFLUORIDE ION, Beta sliding clamp, ... Authors: Landeck, J.T, Kelch, B.A. Deposit date: 2023-12-11 Release date: 2024-03-27 Last modified: 2024-05-01 Method: ELECTRON MICROSCOPY (3.2 Å) Cite: Differences between bacteria and eukaryotes in clamp loader mechanism, a conserved process underlying DNA replication. J.Biol.Chem., 300, 2024
8VAS	Structure of the E. coli clamp loader bound to the beta clamp in an Altered-Collar conformation Descriptor: ADENOSINE-5'-DIPHOSPHATE, BERYLLIUM TRIFLUORIDE ION, Beta sliding clamp, ... Authors: Landeck, J.T, Kelch, B.A. Deposit date: 2023-12-11 Release date: 2024-03-27 Last modified: 2024-05-01 Method: ELECTRON MICROSCOPY (3.8 Å) Cite: Differences between bacteria and eukaryotes in clamp loader mechanism, a conserved process underlying DNA replication. J.Biol.Chem., 300, 2024
7KC0	Structure of the Saccharomyces cerevisiae replicative polymerase delta in complex with a primer/template and the PCNA clamp Descriptor: 2',3'-DIDEOXY-THYMIDINE-5'-TRIPHOSPHATE, DNA (25-MER), DNA (5'-D(P*AP*TP*GP*AP*CP*CP*AP*TP*GP*AP*TP*TP*AP*CP*GP*AP*AP*TP*TP*GP*C)-3'), ... Authors: Zheng, F, Georgescu, R, Li, H, O'Donnell, M.E. Deposit date: 2020-10-04 Release date: 2020-12-02 Last modified: 2020-12-16 Method: ELECTRON MICROSCOPY (3.2 Å) Cite: Structure of eukaryotic DNA polymerase delta bound to the PCNA clamp while encircling DNA. Proc.Natl.Acad.Sci.USA, 117, 2020
8VAN	Structure of the E. coli clamp loader bound to the beta clamp in an Initial-Binding conformation Descriptor: Beta sliding clamp, DNA polymerase III subunit delta, DNA polymerase III subunit delta', ... Authors: Landeck, J.T, Pajak, J, Kelch, B.A. Deposit date: 2023-12-11 Release date: 2024-03-27 Last modified: 2024-05-01 Method: ELECTRON MICROSCOPY (7.7 Å) Cite: Differences between bacteria and eukaryotes in clamp loader mechanism, a conserved process underlying DNA replication. J.Biol.Chem., 300, 2024
8VAP	Structure of the E. coli clamp loader bound to the beta clamp in a Fully-Open conformation Descriptor: ADENOSINE-5'-DIPHOSPHATE, BERYLLIUM TRIFLUORIDE ION, Beta sliding clamp, ... Authors: Landeck, J.T, Kelch, B.A. Deposit date: 2023-12-11 Release date: 2024-03-27 Last modified: 2024-05-01 Method: ELECTRON MICROSCOPY (3 Å) Cite: Differences between bacteria and eukaryotes in clamp loader mechanism, a conserved process underlying DNA replication. J.Biol.Chem., 300, 2024
8VAM	Structure of the E. coli clamp loader bound to the beta clamp in a Semi-Open conformation Descriptor: ADENOSINE-5'-DIPHOSPHATE, BERYLLIUM TRIFLUORIDE ION, Beta sliding clamp, ... Authors: Landeck, J.T, Kelch, B.A. Deposit date: 2023-12-11 Release date: 2024-03-27 Last modified: 2024-05-01 Method: ELECTRON MICROSCOPY (3.9 Å) Cite: Differences between bacteria and eukaryotes in clamp loader mechanism, a conserved process underlying DNA replication. J.Biol.Chem., 300, 2024
6UPY	RNA polymerase II elongation complex with 5-guanidinohydantoin lesion in state 2E Descriptor: DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER, DNA-directed RNA polymerase II subunit RPB1, DNA-directed RNA polymerase II subunit RPB11, ... Authors: Oh, J, Wang, D. Deposit date: 2019-10-18 Release date: 2020-06-10 Last modified: 2023-10-11 Method: X-RAY DIFFRACTION (3.4 Å) Cite: RNA polymerase II stalls on oxidative DNA damage via a torsion-latch mechanism involving lone pair-pi and CH-pi interactions. Proc.Natl.Acad.Sci.USA, 117, 2020
5YHU	Crystal structure of the DNA-binding domain of human myelin-gene regulatory factor Descriptor: Myelin regulatory factor Authors: Chen, B, Zhu, Y, Ye, S, Zhang, R. Deposit date: 2017-09-30 Release date: 2018-05-23 Last modified: 2024-03-27 Method: X-RAY DIFFRACTION (1.85 Å) Cite: Structure of the DNA-binding domain of human myelin-gene regulatory factor reveals its potential protein-DNA recognition mode. J. Struct. Biol., 203, 2018
1FYM	SERENDIPITOUS CRYSTAL STRUCTURE CONTAINING THE HEAT SHOCK TRANSCRIPTION FACTOR'S DNA BINDING DOMAIN AND COGNATE DNA IN A TAIL-TO-TAIL ORIENTATION Descriptor: HEAT SHOCK TRANSCRIPTION PROTEIN, TAIL-TO-TAIL HSE Authors: Littlefield, O, Nelson, H.C.M. Deposit date: 2000-10-02 Release date: 2001-09-28 Last modified: 2024-02-07 Method: X-RAY DIFFRACTION (2.2 Å) Cite: Crystal packing interaction that blocks crystallization of a site-specific DNA binding protein-DNA complex. Proteins, 45, 2001
1FYL	SERENDIPITOUS CRYSTAL STRUCTURE CONTAINING THE HEAT SHOCK TRANSCRIPTION FACTOR'S DNA BINDING DOMAIN AND COGNATE DNA IN A HEAD-TO-HEAD ORIENTATION Descriptor: HEAD-TO-HEAD HSE, HEAT SHOCK FACTOR PROTEIN Authors: Littlefield, O, Nelson, H.C.M. Deposit date: 2000-10-02 Release date: 2001-09-28 Last modified: 2021-11-03 Method: X-RAY DIFFRACTION (2.1 Å) Cite: Crystal packing interaction that blocks crystallization of a site-specific DNA binding protein-DNA complex. Proteins, 45, 2001
5ZHU	Crystal structure of the DNA-binding domain of human myelin-gene regulatory factor Descriptor: Myelin regulatory factor Authors: Chen, B, Zhu, Y, Ye, S, Zhang, R. Deposit date: 2018-03-13 Release date: 2018-05-23 Last modified: 2023-11-22 Method: X-RAY DIFFRACTION (2.202 Å) Cite: Structure of the DNA-binding domain of human myelin-gene regulatory factor reveals its potential protein-DNA recognition mode. J. Struct. Biol., 203, 2018
8G2N	Crystal structure of Tetrahymena thermophila G-rich DNA with novel ligand PyDH2 Descriptor: 4,4'-{pyridine-2,6-diylbis[carbonyl-(1E)-hydrazin-2-yl-1-ylidene-(E)-methanylylidene]}bis(1-methylquinolin-1-ium), G-rich DNA, MAGNESIUM ION, ... Authors: Martin, K.N, Yatsunyk, L.A. Deposit date: 2023-02-06 Release date: 2024-02-14 Method: X-RAY DIFFRACTION (1.33 Å) Cite: Crystal structure of Tetrahymena thermophila G-rich DNA with novel ligand PyDH2 To be published
7RTE	X-ray structure of wild type RBPJ-L3MBTL3-DNA complex Descriptor: 1,2-ETHANEDIOL, DNA (5'-D(*AP*AP*TP*CP*TP*TP*TP*CP*CP*CP*AP*CP*GP*GP*T)-3'), DNA (5'-D(*TP*TP*AP*CP*CP*GP*TP*GP*GP*GP*AP*AP*AP*GP*A)-3'), ... Authors: Hall, D.P, Kovall, R.A, Yuan, Z. Deposit date: 2021-08-13 Release date: 2022-08-24 Last modified: 2023-10-25 Method: X-RAY DIFFRACTION (2.06 Å) Cite: The structure, binding and function of a Notch transcription complex involving RBPJ and the epigenetic reader protein L3MBTL3. Nucleic Acids Res., 50, 2022
7RTI	X-ray structure of RBPJ-L3MBTL3(dT62)-DNA complex Descriptor: 1,2-ETHANEDIOL, DNA (5'-D(*AP*AP*TP*CP*TP*TP*TP*CP*CP*CP*AP*CP*GP*GP*T)-3'), DNA (5'-D(*TP*TP*AP*CP*CP*GP*TP*GP*GP*GP*AP*AP*AP*GP*A)-3'), ... Authors: Hall, D.P, Kovall, R.A, Yuan, Z. Deposit date: 2021-08-13 Release date: 2022-08-24 Last modified: 2023-10-25 Method: X-RAY DIFFRACTION (2.05 Å) Cite: The structure, binding and function of a Notch transcription complex involving RBPJ and the epigenetic reader protein L3MBTL3. Nucleic Acids Res., 50, 2022
5CIZ	E. coli RNA polymerase alpha subunit CTD in complex with CAP and DNA: A(5)-tract binding site for alpha CTD Descriptor: ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE, DNA (5'-D(*CP*TP*AP*GP*AP*TP*CP*AP*CP*AP*TP*TP*TP*TP*AP*GP*GP*CP*AP*AP*AP*AP*AP*G)-3'), DNA (5'-D(*CP*TP*TP*TP*TP*TP*GP*CP*CP*TP*AP*AP*AP*AP*TP*GP*TP*GP*AP*T)-3'), ... Authors: Napoli, A.A, Lawson, C.L. Deposit date: 2015-07-13 Release date: 2016-06-29 Last modified: 2023-09-27 Method: X-RAY DIFFRACTION (5.0098 Å) Cite: The RNA Polymerase alpha Subunit Recognizes the DNA Shape of the Upstream Promoter Element Biochemistry, 2020
2HT0	IHF bound to doubly nicked DNA Descriptor: 5'-D(*CP*GP*GP*TP*GP*CP*AP*AP*CP*AP*AP*AP*T)-3', 5'-D(*GP*CP*TP*TP*AP*TP*CP*AP*AP*TP*TP*TP*GP*TP*TP*GP*CP*AP*CP*C)-3', 5'-D(*GP*GP*CP*CP*AP*AP*AP*AP*AP*AP*GP*CP*AP*TP*T)-3', ... Authors: Swinger, K.K, Rice, P.A. Deposit date: 2006-07-24 Release date: 2006-11-28 Last modified: 2024-02-14 Method: X-RAY DIFFRACTION (2 Å) Cite: Structure-based Analysis of HU-DNA Binding. J.Mol.Biol., 365, 2007
1L3L	Crystal structure of a bacterial quorum-sensing transcription factor complexed with pheromone and DNA Descriptor: 3-OXO-OCTANOIC ACID (2-OXO-TETRAHYDRO-FURAN-3-YL)-AMIDE, 5'-D(*GP*AP*TP*GP*TP*GP*CP*AP*GP*AP*TP*CP*TP*GP*CP*AP*CP*AP*TP*C)-3', Transcriptional activator protein traR Authors: Zhang, R, Pappas, T, Brace, J.L, Miller, P.C, Oulmassov, T, Molyneaux, J.M, Anderson, J.C, Bashkin, J.K, Winans, S.C, Joachimiak, A. Deposit date: 2002-02-27 Release date: 2002-07-03 Last modified: 2017-10-11 Method: X-RAY DIFFRACTION (1.66 Å) Cite: Structure of a bacterial quorum-sensing transcription factor complexed with pheromone and DNA. Nature, 417, 2002
8KG8	Yeast replisome in state II Descriptor: ADENOSINE-5'-DIPHOSPHATE, Cell division control protein 45, DNA (61-mer), ... Authors: Dang, S, Zhai, Y, Feng, J, Yu, D, Xu, Z. Deposit date: 2023-08-17 Release date: 2023-12-06 Method: ELECTRON MICROSCOPY (4.23 Å) Cite: Synergism between CMG helicase and leading strand DNA polymerase at replication fork. Nat Commun, 14, 2023
8KG9	Yeast replisome in state III Descriptor: ADENOSINE-5'-DIPHOSPHATE, Cell division control protein 45, DNA (61-mer), ... Authors: Dang, S, Zhai, Y, Feng, J, Yu, D, Xu, Z. Deposit date: 2023-08-17 Release date: 2023-12-06 Method: ELECTRON MICROSCOPY (4.52 Å) Cite: Synergism between CMG helicase and leading strand DNA polymerase at replication fork. Nat Commun, 14, 2023
8KG6	Yeast replisome in state I Descriptor: ADENOSINE-5'-DIPHOSPHATE, Cell division control protein 45, Chromosome segregation in meiosis protein 3, ... Authors: Dang, S, Zhai, Y, Feng, J, Yu, D, Xu, Z. Deposit date: 2023-08-17 Release date: 2023-12-06 Method: ELECTRON MICROSCOPY (3.07 Å) Cite: Synergism between CMG helicase and leading strand DNA polymerase at replication fork. Nat Commun, 14, 2023
1HU8	CRYSTAL STRUCTURE OF THE MOUSE P53 CORE DNA-BINDING DOMAIN AT 2.7A RESOLUTION Descriptor: CELLULAR TUMOR ANTIGEN P53, ZINC ION Authors: Zhao, K, Chai, X, Johnston, K, Clements, A, Marmorstein, R. Deposit date: 2001-01-04 Release date: 2001-07-04 Last modified: 2023-08-09 Method: X-RAY DIFFRACTION (2.7 Å) Cite: Crystal structure of the mouse p53 core DNA-binding domain at 2.7 A resolution. J.Biol.Chem., 276, 2001

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