PDB: 2832 件ウェブページステータス検索Chemie searchBIRD

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3TA5	Cobalt bound structure of an archaeal member of the LigD 3'-phosphoesterase DNA repair enzyme family 分子名称: ATP-dependent DNA ligase, N-terminal domain protein, COBALT (II) ION, ... 著者 Das, U, Smith, P, Shuman, S. 登録日 2011-08-03 公開日 2011-10-12 最終更新日 2023-09-13 実験手法 X-RAY DIFFRACTION (1.52 Å) 主引用文献 Structural insights to the metal specificity of an archaeal member of the LigD 3'-phosphoesterase DNA repair enzyme family. Nucleic Acids Res., 40, 2012
3TA7	Zinc bound structure of an archaeal member of the LigD 3'-phosphoesterase DNA repair enzyme family 分子名称: ATP-dependent DNA ligase, N-terminal domain protein, DI(HYDROXYETHYL)ETHER, ... 著者 Das, U, Smith, P, Shuman, S. 登録日 2011-08-03 公開日 2011-10-12 最終更新日 2024-02-28 実験手法 X-RAY DIFFRACTION (1.48 Å) 主引用文献 Structural insights to the metal specificity of an archaeal member of the LigD 3'-phosphoesterase DNA repair enzyme family. Nucleic Acids Res., 40, 2012
6WBO	DNA-Ligase from Thermococcus gammatolerans 分子名称: ADENOSINE MONOPHOSPHATE, DNA ligase, PHOSPHATE ION 著者 Flores-Hernandez, E, Cardona-Felix, C, Miranda-Blancas, R, Rudino-Pinera, E. 登録日 2020-03-26 公開日 2021-05-05 最終更新日 2023-10-18 実験手法 X-RAY DIFFRACTION (2.65 Å) 主引用文献 New structural DNA-Ligase from Thermococcus gammatolerans To Be Published
7SX5	Crystal structure of ligase I with nick duplexes containing mismatch A:C 分子名称: ADENOSINE MONOPHOSPHATE, DNA chain 1, DNA chain 2, ... 著者 Tang, Q, Gulkis, M, McKenna, R, Caglayan, M. 登録日 2021-11-22 公開日 2022-07-13 最終更新日 2023-10-18 実験手法 X-RAY DIFFRACTION (2.8 Å) 主引用文献 Structures of LIG1 that engage with mutagenic mismatches inserted by pol beta in base excision repair. Nat Commun, 13, 2022
7SXE	Crystal structure of ligase I with nick duplexes containing cognate G:T 分子名称: ADENOSINE MONOPHOSPHATE, DNA chain 1, DNA chain 2, ... 著者 Tang, Q, Gulkis, M, McKenna, R, Caglayan, M. 登録日 2021-11-22 公開日 2022-07-13 最終更新日 2023-10-18 実験手法 X-RAY DIFFRACTION (3 Å) 主引用文献 Structures of LIG1 that engage with mutagenic mismatches inserted by pol beta in base excision repair. Nat Commun, 13, 2022
5V1P	DNA polymerase beta substrate complex with 8-oxoG:C at the primer terminus and incoming dCTP analog 分子名称: 2'-deoxy-5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]cytidine, CHLORIDE ION, DNA (5'-D(*CP*CP*GP*AP*CP*GP*CP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), ... 著者 Freudenthal, B.D, Smith, M.R, Whitaker, A.M, Schaich, M.A. 登録日 2017-03-02 公開日 2017-05-10 最終更新日 2024-03-06 実験手法 X-RAY DIFFRACTION (1.991 Å) 主引用文献 Capturing a mammalian DNA polymerase extending from an oxidized nucleotide. Nucleic Acids Res., 45, 2017
5V1I	DNA polymerase beta ternary product complex with 8-oxoG:C and inserted dCTP 分子名称: CHLORIDE ION, DNA (5'-D(*CP*CP*GP*AP*CP*GP*CP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*(8OG)P*C)-3'), ... 著者 Freudenthal, B.D, Smith, M.R, Whitaker, A.M, Schaich, M.A. 登録日 2017-03-02 公開日 2017-05-10 最終更新日 2023-10-04 実験手法 X-RAY DIFFRACTION (2.035 Å) 主引用文献 Capturing a mammalian DNA polymerase extending from an oxidized nucleotide. Nucleic Acids Res., 45, 2017
5V1R	DNA polymerase beta reactant complex with 8-oxoG:C at the primer terminus and incoming dCTP 分子名称: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, CHLORIDE ION, DNA (5'-D(*CP*CP*GP*AP*CP*GP*CP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), ... 著者 Freudenthal, B.D, Smith, M.R, Whitaker, A.M, Schaich, M.A. 登録日 2017-03-02 公開日 2017-05-10 最終更新日 2024-03-06 実験手法 X-RAY DIFFRACTION (2.077 Å) 主引用文献 Capturing a mammalian DNA polymerase extending from an oxidized nucleotide. Nucleic Acids Res., 45, 2017
5V1O	DNA polymerase beta product complex with 8-oxoG:A and inserted dCTP 分子名称: CHLORIDE ION, DNA (5'-D(*CP*CP*GP*AP*CP*GP*AP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*(8OG)P*C)-3'), ... 著者 Freudenthal, B.D, Schaich, M.A, Whitaker, A.M, Smith, M.R. 登録日 2017-03-02 公開日 2017-05-10 最終更新日 2024-03-06 実験手法 X-RAY DIFFRACTION (1.801 Å) 主引用文献 Capturing a mammalian DNA polymerase extending from an oxidized nucleotide. Nucleic Acids Res., 45, 2017
5V1F	DNA polymerase beta substrate complex with 8-oxoG at the primer terminus and incoming dCTP 分子名称: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, CALCIUM ION, DNA (5'-D(*CP*CP*GP*AP*CP*GP*CP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), ... 著者 Freudenthal, B.D, Smith, M.R, Schaich, M.A, Whitaker, A.M. 登録日 2017-03-02 公開日 2017-05-10 最終更新日 2023-10-04 実験手法 X-RAY DIFFRACTION (2.181 Å) 主引用文献 Capturing a mammalian DNA polymerase extending from an oxidized nucleotide. Nucleic Acids Res., 45, 2017
6P1R	Pre-catalytic ternary complex of human DNA Polymerase Mu with 1-nt gapped substrate containing template 8OG and bound incoming AMPNPP 分子名称: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, 5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]adenosine, CHLORIDE ION, ... 著者 Kaminski, A.M, Pedersen, L.C, Bebenek, K, Chiruvella, K.K, Ramsden, D.A, Kunkel, T.A. 登録日 2019-05-20 公開日 2019-09-04 最終更新日 2023-10-11 実験手法 X-RAY DIFFRACTION (1.701 Å) 主引用文献 Unexpected behavior of DNA polymerase Mu opposite template 8-oxo-7,8-dihydro-2'-guanosine. Nucleic Acids Res., 47, 2019
7NFC	Cryo-EM structure of NHEJ super-complex (dimer) 分子名称: DNA (27-MER), DNA (28-MER), DNA ligase 4, ... 著者 Chaplin, A.K, Hardwick, S.W, Kefala Stavridi, A, Chirgadze, D.Y, Blundell, T.L. 登録日 2021-02-05 公開日 2021-08-18 最終更新日 2024-07-10 実験手法 ELECTRON MICROSCOPY (4.14 Å) 主引用文献 Cryo-EM of NHEJ supercomplexes provides insights into DNA repair. Mol.Cell, 81, 2021
7NFE	Cryo-EM structure of NHEJ super-complex (monomer) 分子名称: DNA (5'-D(P*AP*AP*TP*AP*AP*AP*CP*TP*AP*AP*AP*AP*AP*CP*TP*AP*TP*TP*AP*TP*TP*AP*TP*G)-3'), DNA (5'-D(P*TP*AP*AP*TP*AP*AP*TP*AP*GP*TP*TP*TP*TP*TP*AP*GP*TP*TP*TP*AP*TP*TP*AP*G)-3'), DNA ligase 4, ... 著者 Chaplin, A.K, Hardwick, S.W, Kefala Stavridi, A, Chirgadze, D.Y, Blundell, T.L. 登録日 2021-02-06 公開日 2021-08-18 最終更新日 2024-07-10 実験手法 ELECTRON MICROSCOPY (4.29 Å) 主引用文献 Cryo-EM of NHEJ supercomplexes provides insights into DNA repair. Mol.Cell, 81, 2021
8EZB	NHEJ Long-range complex with ATP 分子名称: ADENOSINE-5'-TRIPHOSPHATE, DNA (30-MER), DNA (31-MER), ... 著者 Chen, S, He, Y. 登録日 2022-10-31 公開日 2023-06-14 最終更新日 2024-06-19 実験手法 ELECTRON MICROSCOPY (8.9 Å) 主引用文献 Cryo-EM visualization of DNA-PKcs structural intermediates in NHEJ. Sci Adv, 9, 2023
8EZA	NHEJ Long-range complex with PAXX 分子名称: ADENOSINE-5'-TRIPHOSPHATE, DNA (30-MER), DNA (31-MER), ... 著者 Chen, S, He, Y. 登録日 2022-10-31 公開日 2023-06-14 最終更新日 2024-06-19 実験手法 ELECTRON MICROSCOPY (4.39 Å) 主引用文献 Cryo-EM visualization of DNA-PKcs structural intermediates in NHEJ. Sci Adv, 9, 2023
5V1N	DNA polymerase beta substrate complex with 8-oxoG:A at the primer terminus and incoming dCTP 分子名称: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, CALCIUM ION, CHLORIDE ION, ... 著者 Freudenthal, B.D, Schaich, M.A, Whitaker, A.M, Smith, M.R. 登録日 2017-03-02 公開日 2017-05-10 最終更新日 2024-03-06 実験手法 X-RAY DIFFRACTION (2.005 Å) 主引用文献 Capturing a mammalian DNA polymerase extending from an oxidized nucleotide. Nucleic Acids Res., 45, 2017
7SUM	Crystal structure of human ligase I with nick duplexes containing cognate A:T 分子名称: ADENOSINE MONOPHOSPHATE, DNA ligase 1, DNA(5'-*GP*CP*TP*GP*AP*TP*GP*CP*GP*TP*A-3'), ... 著者 Tang, Q, Gulkis, M, McKenna, R, Caglayan, M. 登録日 2021-11-17 公開日 2022-07-13 最終更新日 2023-10-18 実験手法 X-RAY DIFFRACTION (2.9 Å) 主引用文献 Structures of LIG1 that engage with mutagenic mismatches inserted by pol beta in base excision repair. Nat Commun, 13, 2022
5VEZ	DNA polymerase beta substrate complex with 8-oxoG:A at the primer terminus and incoming dCTP analog 分子名称: 2'-deoxy-5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]cytidine, DNA (5'-D(*CP*CP*GP*AP*CP*GP*AP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*(8OG))-3'), ... 著者 Freudenthal, B.D, Schaich, M.A, Whitaker, A.M, Smith, M.R. 登録日 2017-04-06 公開日 2017-05-10 最終更新日 2023-10-04 実験手法 X-RAY DIFFRACTION (2.039 Å) 主引用文献 Capturing a mammalian DNA polymerase extending from an oxidized nucleotide. Nucleic Acids Res., 45, 2017
5WNX	DNA polymerase beta substrate complex with incoming 6-TdGTP 分子名称: 2-amino-9-{2-deoxy-5-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]oxy}phosphoryl]-beta-D-erythro-pentofuranosyl}-1,9-dihydro-6H-purine-6-thione, CALCIUM ION, CHLORIDE ION, ... 著者 Schaich, M.A, Smith, M.R, Cloud, A.S, Holloran, S.M, Freudenthal, B.D. 登録日 2017-08-01 公開日 2017-09-13 最終更新日 2023-10-04 実験手法 X-RAY DIFFRACTION (2.55 Å) 主引用文献 Structures of a DNA Polymerase Inserting Therapeutic Nucleotide Analogues. Chem. Res. Toxicol., 30, 2017
5WO0	DNA polymerase beta substrate complex with incoming 5-FodUTP 分子名称: 2'-deoxy-5-formyluridine 5'-(tetrahydrogen triphosphate), CALCIUM ION, CHLORIDE ION, ... 著者 Schaich, M.A, Smith, M.R, Cloud, A.S, Holloran, S.M, Freudenthal, B.D. 登録日 2017-08-01 公開日 2017-09-13 最終更新日 2023-10-04 実験手法 X-RAY DIFFRACTION (1.6 Å) 主引用文献 Structures of a DNA Polymerase Inserting Therapeutic Nucleotide Analogues. Chem. Res. Toxicol., 30, 2017
5WNY	DNA polymerase beta substrate complex with incoming 5-FdUTP 分子名称: 2'-deoxy-5-fluorouridine 5'-(tetrahydrogen triphosphate), CALCIUM ION, CHLORIDE ION, ... 著者 Schaich, M.A, Smith, M.R, Cloud, A.S, Holloran, S.M, Freudenthal, B.D. 登録日 2017-08-01 公開日 2017-09-13 最終更新日 2023-10-04 実験手法 X-RAY DIFFRACTION (2.1 Å) 主引用文献 Structures of a DNA Polymerase Inserting Therapeutic Nucleotide Analogues. Chem. Res. Toxicol., 30, 2017
5WNZ	DNA polymerase beta substrate complex with incoming 5-FodCTP 分子名称: 2'-deoxy-5-formylcytidine 5'-(tetrahydrogen triphosphate), CALCIUM ION, CHLORIDE ION, ... 著者 Schaich, M.A, Smith, M.R, Cloud, A.S, Holloran, S.M, Freudenthal, B.D. 登録日 2017-08-01 公開日 2017-09-13 最終更新日 2023-10-04 実験手法 X-RAY DIFFRACTION (2.2 Å) 主引用文献 Structures of a DNA Polymerase Inserting Therapeutic Nucleotide Analogues. Chem. Res. Toxicol., 30, 2017
7SGL	DNA-PK complex of DNA end processing 分子名称: ADENOSINE-5'-TRIPHOSPHATE, DNA-dependent protein kinase catalytic subunit, Hairpin_1, ... 著者 Liu, L, Li, J, Chen, X, Yang, W, Gellert, M. 登録日 2021-10-06 公開日 2022-01-12 最終更新日 2022-01-19 実験手法 ELECTRON MICROSCOPY (3 Å) 主引用文献 Autophosphorylation transforms DNA-PK from protecting to processing DNA ends. Mol.Cell, 82, 2022
6P1S	Post-catalytic nicked complex of human DNA Polymerase Mu with 1-nt gapped substrate containing template 8OG and newly incorporated AMP 分子名称: 1,2-ETHANEDIOL, 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, ADENOSINE-5'-TRIPHOSPHATE, ... 著者 Kaminski, A.M, Pedersen, L.C, Bebenek, K, Chiruvella, K.K, Ramsden, D.A, Kunkel, T.A. 登録日 2019-05-20 公開日 2019-09-04 最終更新日 2023-10-11 実験手法 X-RAY DIFFRACTION (1.75 Å) 主引用文献 Unexpected behavior of DNA polymerase Mu opposite template 8-oxo-7,8-dihydro-2'-guanosine. Nucleic Acids Res., 47, 2019
6P1O	Post-catalytic nicked complex of human DNA Polymerase Mu with 1-nt gapped substrate containing template 8OG and newly incorporated dAMP 分子名称: 1,2-ETHANEDIOL, 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, ADENOSINE-5'-TRIPHOSPHATE, ... 著者 Kaminski, A.M, Pedersen, L.C, Bebenek, K, Chiruvella, K.K, Ramsden, D.A, Kunkel, T.A. 登録日 2019-05-20 公開日 2019-09-04 最終更新日 2023-10-11 実験手法 X-RAY DIFFRACTION (1.65 Å) 主引用文献 Unexpected behavior of DNA polymerase Mu opposite template 8-oxo-7,8-dihydro-2'-guanosine. Nucleic Acids Res., 47, 2019

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