PDB: 45817 件ウェブページステータス検索Chemie searchBIRD

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6KSF	Crystal Structure of ALKBH1 bound to 21-mer DNA bulge 分子名称: Alpha-ketoglutarate-dependent dioxygenase alkB homolog 1, CHLORIDE ION, DNA (5'-D(*DGP*DCP*DTP*DGP*DAP*DGP*DTP*DGP*DCP*DCP*DCP*DGP*DCP*DGP*DTP*DGP*DCP*DTP*DGP*DGP*DAP*DTP*DCP*DC)-3'), ... 著者 Li, H, Zhang, M. 登録日 2019-08-23 公開日 2020-04-08 最終更新日 2023-11-22 実験手法 X-RAY DIFFRACTION (2.4 Å) 主引用文献 Mammalian ALKBH1 serves as an N6-mA demethylase of unpairing DNA. Cell Res., 30, 2020
1FJA	NMR STUDY OF DEOXYRIBONUCLEIC ACID COMPLEXED WITH ACTINOMYCIN D 分子名称: ACTINOMYCIN D, DNA (5'-D(*AP*AP*GP*CP*GP*CP*TP*T)-3') 著者 Chen, H, Liu, X, Patel, D.J. 登録日 1995-12-15 公開日 1996-06-10 最終更新日 2024-07-10 実験手法 SOLUTION NMR 主引用文献 DNA Bending and Unwinding Associated with Actinomycin D Antibiotics Bound to Partially Overlapping Sites on DNA. J.Mol.Biol., 258, 1996
6FB5	Crystal Structure of a Tailored I-CreI Homing Endonuclease Protein (3115 variant) in complex with an altered version of its target DNA (Haemoglobin beta subunit gene) at 5NNN region in the presence of Magnesium 分子名称: ACETATE ION, DNA (5'-D(*TP*CP*AP*GP*AP*CP*TP*TP*GP*TP*CP*CP*AP*CP*AP*GP*GP*AP*GP*TP*CP*AP*GP*A)-3'), DNA (5'-D(*TP*CP*TP*GP*AP*CP*TP*CP*CP*TP*GP*TP*GP*GP*AP*CP*AP*AP*GP*TP*CP*TP*GP*A)-3'), ... 著者 Molina, R, Prieto, J. 登録日 2017-12-18 公開日 2018-07-18 最終更新日 2024-01-17 実験手法 X-RAY DIFFRACTION (2.2 Å) 主引用文献 Understanding the indirect DNA read-out specificity of I-CreI Meganuclease. Sci Rep, 8, 2018
5UUG	Bacillus cereus DNA glycosylase AlkD bound to a yatakemycin-adenine nucleobase adduct and DNA containing an abasic site (9-mer product complex) 分子名称: CALCIUM ION, DNA (5'-D(*AP*GP*GP*CP*AP*(ORP)P*AP*GP*C)-3'), DNA (5'-D(*TP*GP*CP*TP*TP*TP*GP*CP*C)-3'), ... 著者 Mullins, E.A, Eichman, B.F. 登録日 2017-02-16 公開日 2017-07-19 最終更新日 2023-10-04 実験手法 X-RAY DIFFRACTION (1.712 Å) 主引用文献 Toxicity and repair of DNA adducts produced by the natural product yatakemycin. Nat. Chem. Biol., 13, 2017
5CL7	Alkylpurine DNA glycosylase AlkD bound to DNA containing a 3-methyladenine analog or DNA containing an abasic site and a free nucleobase (18% substrate/82% product at 96 hours) 分子名称: 7-methyl-3H-imidazo[4,5-c]pyridin-4-amine, AlkD, DNA (5'-D(*CP*CP*CP*GP*AP*(DZM)P*AP*GP*TP*CP*CP*G)-3'), ... 著者 Mullins, E.A, Eichman, B.F. 登録日 2015-07-16 公開日 2015-10-28 最終更新日 2023-09-27 実験手法 X-RAY DIFFRACTION (1.44 Å) 主引用文献 The DNA glycosylase AlkD uses a non-base-flipping mechanism to excise bulky lesions. Nature, 527, 2015
5CL4	Alkylpurine DNA glycosylase AlkD bound to DNA containing a 3-methyladenine analog or DNA containing an abasic site and a free nucleobase (71% substrate/29% product at 24 hours) 分子名称: 7-methyl-3H-imidazo[4,5-c]pyridin-4-amine, AlkD, DNA (5'-D(*CP*CP*CP*GP*AP*(DZM)P*AP*GP*TP*CP*CP*G)-3'), ... 著者 Mullins, E.A, Eichman, B.F. 登録日 2015-07-16 公開日 2015-10-28 最終更新日 2023-09-27 実験手法 X-RAY DIFFRACTION (1.866 Å) 主引用文献 The DNA glycosylase AlkD uses a non-base-flipping mechanism to excise bulky lesions. Nature, 527, 2015
5CL5	Alkylpurine DNA glycosylase AlkD bound to DNA containing a 3-methyladenine analog or DNA containing an abasic site and a free nucleobase (51% substrate/49% product at 48 hours) 分子名称: 7-methyl-3H-imidazo[4,5-c]pyridin-4-amine, AlkD, DNA (5'-D(*CP*CP*CP*GP*AP*(DZM)P*AP*GP*TP*CP*CP*G)-3'), ... 著者 Mullins, E.A, Eichman, B.F. 登録日 2015-07-16 公開日 2015-10-28 最終更新日 2023-09-27 実験手法 X-RAY DIFFRACTION (1.569 Å) 主引用文献 The DNA glycosylase AlkD uses a non-base-flipping mechanism to excise bulky lesions. Nature, 527, 2015
5CL6	Alkylpurine DNA glycosylase AlkD bound to DNA containing a 3-methyladenine analog or DNA containing an abasic site and a free nucleobase (33% substrate/67% product at 72 hours) 分子名称: 7-methyl-3H-imidazo[4,5-c]pyridin-4-amine, AlkD, DNA (5'-D(*CP*CP*CP*GP*AP*(DZM)P*AP*GP*TP*CP*CP*G)-3'), ... 著者 Mullins, E.A, Eichman, B.F. 登録日 2015-07-16 公開日 2015-10-28 最終更新日 2023-09-27 実験手法 X-RAY DIFFRACTION (1.541 Å) 主引用文献 The DNA glycosylase AlkD uses a non-base-flipping mechanism to excise bulky lesions. Nature, 527, 2015
5CDP	2.45A structure of etoposide with S.aureus DNA gyrase and DNA 分子名称: (5S,5aR,8aR,9R)-9-(4-hydroxy-3,5-dimethoxyphenyl)-8-oxo-5,5a,6,8,8a,9-hexahydrofuro[3',4':6,7]naphtho[2,3-d][1,3]dioxol -5-yl 4,6-O-[(1R)-ethylidene]-beta-D-glucopyranoside, DNA (5'-D(*AP*GP*CP*CP*GP*TP*AP*G*GP*GP*TP*AP*CP*CP*TP*AP*CP*GP*GP*CP*T)-3'), DNA gyrase subunit A, ... 著者 Bax, B.D, Srikannathasan, V, Chan, P.F. 登録日 2015-07-04 公開日 2015-12-16 最終更新日 2024-01-10 実験手法 X-RAY DIFFRACTION (2.45 Å) 主引用文献 Structural basis of DNA gyrase inhibition by antibacterial QPT-1, anticancer drug etoposide and moxifloxacin. Nat Commun, 6, 2015
5VVL	Cas1-Cas2 bound to full-site mimic with Ni 分子名称: CRISPR-associated endonuclease Cas1, CRISPR-associated endoribonuclease Cas2, DNA (11-MER), ... 著者 Wright, A.V, Knott, G.J, Doxzen, K.D, Doudna, J.A. 登録日 2017-05-19 公開日 2017-08-02 最終更新日 2023-10-04 実験手法 X-RAY DIFFRACTION (3.31 Å) 主引用文献 Structures of the CRISPR genome integration complex. Science, 357, 2017
146D	SOLUTION STRUCTURE OF THE MITHRAMYCIN DIMER-DNA COMPLEX 分子名称: 1,2-HYDRO-1-OXY-3,4-HYDRO-3-(1-METHOXY-2-OXY-3,4-DIHYDROXYPENTYL)-8,9-DIHYROXY-7-METHYLANTHRACENE, 2,6-dideoxy-3-C-methyl-beta-D-ribo-hexopyranose-(1-3)-2,6-dideoxy-beta-D-galactopyranose-(1-3)-beta-D-Olivopyranose, DNA (5'-D(*TP*CP*GP*CP*GP*A)-3'), ... 著者 Sastry, M, Patel, D.J. 登録日 1993-11-09 公開日 1995-03-31 最終更新日 2024-05-22 実験手法 SOLUTION NMR 主引用文献 Solution structure of the mithramycin dimer-DNA complex. Biochemistry, 32, 1993
6GDN	Holliday Junctions formed from Telomeric DNA 分子名称: MAGNESIUM ION, Telomere DNA (42-MER) 著者 Parkinson, G.N, Haider, S, Li, P, Khiali, S, Munnur, D, Ramanathan, A. 登録日 2018-04-24 公開日 2018-11-07 最終更新日 2024-01-17 実験手法 X-RAY DIFFRACTION (3 Å) 主引用文献 Holliday Junctions Formed from Human Telomeric DNA. J. Am. Chem. Soc., 140, 2018
5VVJ	Cas1-Cas2 bound to half-site intermediate 分子名称: CRISPR-associated endonuclease Cas1, CRISPR-associated endoribonuclease Cas2, DNA (112-MER), ... 著者 Wright, A.V, Knott, G.J, Doxzen, K.W, Doudna, J.A. 登録日 2017-05-19 公開日 2017-08-02 最終更新日 2023-10-04 実験手法 X-RAY DIFFRACTION (3.89 Å) 主引用文献 Structures of the CRISPR genome integration complex. Science, 357, 2017
5UUH	Bacillus cereus DNA glycosylase AlkD bound to a yatakemycin-adenine nucleobase adduct and DNA containing a fluorinated abasic site (9-mer product complex) 分子名称: CALCIUM ION, DNA (5'-D(*AP*GP*GP*CP*AP*(ORF)P*AP*GP*C)-3'), DNA (5'-D(*TP*GP*CP*TP*TP*TP*GP*CP*C)-3'), ... 著者 Mullins, E.A, Eichman, B.F. 登録日 2017-02-16 公開日 2017-07-19 最終更新日 2023-10-04 実験手法 X-RAY DIFFRACTION (1.569 Å) 主引用文献 Toxicity and repair of DNA adducts produced by the natural product yatakemycin. Nat. Chem. Biol., 13, 2017
3NT7	Crystal Structure of Vaccinia Virus Uracil DNA Glycosylase R187V Mutant 分子名称: GLYCEROL, SULFATE ION, Uracil-DNA glycosylase 著者 Chattopadhyay, D. 登録日 2010-07-02 公開日 2011-05-18 最終更新日 2023-09-06 実験手法 X-RAY DIFFRACTION (2.4 Å) 主引用文献 Vaccinia virus D4 mutants defective in processive DNA synthesis retain binding to A20 and DNA. J.Virol., 84, 2010
1CRX	CRE RECOMBINASE/DNA COMPLEX REACTION INTERMEDIATE I 分子名称: CRE RECOMBINASE, DNA (5'-D(*AP*TP*AP*TP*GP*CP*TP*AP*TP*AP*CP*GP*AP*AP*GP*TP*TP*AP*T)-3'), DNA (5'-D(*TP*AP*TP*AP*AP*CP*TP*TP*CP*GP*TP*AP*TP*AP*G)-3'), ... 著者 Guo, F, Gopaul, D.N, Van Duyne, G.D. 登録日 1997-07-02 公開日 1998-10-14 最終更新日 2011-07-13 実験手法 X-RAY DIFFRACTION (2.4 Å) 主引用文献 Structure of Cre recombinase complexed with DNA in a site-specific recombination synapse. Nature, 389, 1997
1MUG	G:T/U MISMATCH-SPECIFIC DNA GLYCOSYLASE FROM E.COLI 分子名称: PROTEIN (G:T/U SPECIFIC DNA GLYCOSYLASE), SULFATE ION 著者 Barrett, T.E, Savva, R, Panayotou, G, Brown, T, Barlow, T, Jiricny, J, Pearl, L.H. 登録日 1998-07-10 公開日 1998-07-15 最終更新日 2024-02-14 実験手法 X-RAY DIFFRACTION (1.8 Å) 主引用文献 Crystal structure of a G:T/U mismatch-specific DNA glycosylase: mismatch recognition by complementary-strand interactions. Cell(Cambridge,Mass.), 92, 1998
7UJZ	[T:Cd2+/Hg2+:T--pH 11] Metal-mediated DNA base pair in tensegrity triangle 分子名称: CADMIUM ION, DNA (5'-D(*GP*AP*GP*CP*AP*GP*CP*CP*TP*GP*TP*TP*TP*GP*GP*AP*CP*AP*TP*CP*A)-3'), DNA (5'-D(P*CP*CP*AP*TP*AP*CP*A)-3'), ... 著者 Lu, B, Vecchioni, S, Seeman, N.C, Sha, R, Ohayon, Y.P. 登録日 2022-03-31 公開日 2023-04-05 最終更新日 2023-08-30 実験手法 X-RAY DIFFRACTION (3.94 Å) 主引用文献 Heterobimetallic Base Pair Programming in Designer 3D DNA Crystals. J.Am.Chem.Soc., 145, 2023
159D	SIDE BY SIDE BINDING OF TWO DISTAMYCIN A DRUGS IN THE MINOR GROOVE OF AN ALTERNATING B-DNA DUPLEX 分子名称: DISTAMYCIN A, DNA (5'-D(*IP*CP*IP*CP*IP*CP*IP*C)-3'), MAGNESIUM ION 著者 Chen, X, Ramakrishnan, B, Rao, S.T, Sundaralingam, M. 登録日 1994-02-10 公開日 1995-02-07 最終更新日 2024-02-07 実験手法 X-RAY DIFFRACTION (1.8 Å) 主引用文献 Binding of two distamycin A molecules in the minor groove of an alternating B-DNA duplex. Nat.Struct.Biol., 1, 1994
1SSP	WILD-TYPE URACIL-DNA GLYCOSYLASE BOUND TO URACIL-CONTAINING DNA 分子名称: 5'-D(*AP*AP*AP*GP*AP*TP*AP*AP*CP*AP*G)-3', 5'-D(*CP*TP*GP*TP*(D1P)P*AP*TP*CP*TP*T)-3', URACIL, ... 著者 Parikh, S.S, Mol, C.D, Slupphaug, G, Bharati, S, Krokan, H.E, Tainer, J.A. 登録日 1999-04-28 公開日 1999-05-06 最終更新日 2023-08-02 実験手法 X-RAY DIFFRACTION (1.9 Å) 主引用文献 Base excision repair initiation revealed by crystal structures and binding kinetics of human uracil-DNA glycosylase with DNA. EMBO J., 17, 1998
5V9X	Structure of Mycobacterium smegmatis helicase Lhr bound to ssDNA and AMP-PNP 分子名称: ATP-dependent DNA helicase, DI(HYDROXYETHYL)ETHER, GLYCEROL, ... 著者 Ordonez, H, Jacewicz, A, Ferrao, R, Shuman, S. 登録日 2017-03-23 公開日 2017-12-06 最終更新日 2024-03-06 実験手法 X-RAY DIFFRACTION (2.797 Å) 主引用文献 Structure of mycobacterial 3'-to-5' RNA:DNA helicase Lhr bound to a ssDNA tracking strand highlights distinctive features of a novel family of bacterial helicases. Nucleic Acids Res., 46, 2018
4LIL	Crystal structure of the catalytic subunit of human primase bound to UTP and Mn 分子名称: DNA primase small subunit, MANGANESE (II) ION, URIDINE 5'-TRIPHOSPHATE, ... 著者 Vaithiyalingam, S, Eichman, B.F, Chazin, W.J. 登録日 2013-07-02 公開日 2013-12-11 最終更新日 2024-02-28 実験手法 X-RAY DIFFRACTION (2.6 Å) 主引用文献 Insights into Eukaryotic Primer Synthesis from Structures of the p48 Subunit of Human DNA Primase. J.Mol.Biol., 426, 2014
6IFM	Crystal structure of DNA bound VapBC from Salmonella typhimurium 分子名称: Antitoxin VapB, DNA backward (27-MER), DNA forward (27-MER), ... 著者 Park, D.W, Lee, B.J. 登録日 2018-09-20 公開日 2020-01-29 最終更新日 2024-03-27 実験手法 X-RAY DIFFRACTION (2.804 Å) 主引用文献 Crystal structure of proteolyzed VapBC and DNA-bound VapBC from Salmonella enterica Typhimurium LT2 and VapC as a putative Ca2+-dependent ribonuclease. Faseb J., 34, 2020
199D	Solution structure of the monoalkylated mitomycin c-DNA complex 分子名称: CARBAMIC ACID 2,6-DIAMINO-5-METHYL-4,7-DIOXO-2,3,4,7-TETRAHYDRO-1H-3A-AZA-CYCLOPENTA[A]INDEN-8-YLMETHYL ESTER, DNA (5'-D(*(DI)P*CP*AP*CP*GP*TP*CP*(DI)P*T)-3'), DNA (5'-D(*AP*CP*GP*AP*CP*GP*TP*GP*C)-3') 著者 Sastry, M, Fiala, R, Lipman, R, Tomasz, M, Patel, D.J. 登録日 1994-12-01 公開日 1995-02-07 最終更新日 2024-03-13 実験手法 SOLUTION NMR 主引用文献 Solution structure of the monoalkylated mitomycin C-DNA complex. J.Mol.Biol., 247, 1995
7V59	Cryo-EM structure of spyCas9-sgRNA-DNA dimer 分子名称: CRISPR-associated endonuclease Cas9/Csn1, DNA (49-MER), RNA (115-MER) 著者 Liu, J, Deng, P. 登録日 2021-08-16 公開日 2022-08-17 最終更新日 2024-06-12 実験手法 ELECTRON MICROSCOPY (5.26 Å) 主引用文献 Nonspecific interactions between SpCas9 and dsDNA sites located downstream of the PAM mediate facilitated diffusion to accelerate target search. Chem Sci, 12, 2021

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