2IH2
 
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8Q5O
 | | N-terminal domain of restriction endonuclease Eco15I with tetra-methylated target DNA. | | Descriptor: | CALCIUM ION, DNA (5'-D(*CP*TP*GP*(5CM)P*TP*GP*(5CM)P*TP*C)-3'), DNA (5'-D(*GP*AP*GP*(5CM)P*AP*GP*(5CM)P*AP*G)-3'), ... | | Authors: | Rafalski, D, Krakowska, K, Bochtler, M. | | Deposit date: | 2023-08-09 | | Release date: | 2024-07-17 | | Last modified: | 2024-09-04 | | Method: | X-RAY DIFFRACTION (2.33 Å) | | Cite: | Structural analysis of the BisI family of modification dependent restriction endonucleases.
Nucleic Acids Res., 52, 2024
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2IH5
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2RTU
 | | Solution structure of oxidized human HMGB1 A box | | Descriptor: | High mobility group protein B1 | | Authors: | Jing, W, Tochio, N, Tate, S. | | Deposit date: | 2013-09-12 | | Release date: | 2014-03-05 | | Last modified: | 2023-06-14 | | Method: | SOLUTION NMR | | Cite: | Redox-sensitive structural change in the A-domain of HMGB1 and its implication for the binding to cisplatin modified DNA.
Biochem.Biophys.Res.Commun., 441, 2013
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8JMK
 | | Structure of Helicobacter pylori Soj mutant, D41A bound to DNA | | Descriptor: | ADENOSINE-5'-TRIPHOSPHATE, DNA (5'-D(P*AP*GP*GP*GP*TP*GP*TP*TP*CP*CP*AP*CP*GP*TP*GP*AP*AP*AP*CP*AP*GP*GP*GP*A)-3'), DNA (5'-D(P*TP*CP*CP*CP*TP*GP*TP*TP*TP*CP*AP*CP*GP*TP*GP*GP*AP*AP*CP*AP*CP*CP*CP*T)-3'), ... | | Authors: | Wu, C.T, Chu, C.H, Sun, Y.J. | | Deposit date: | 2023-06-05 | | Release date: | 2024-05-29 | | Last modified: | 2024-07-24 | | Method: | X-RAY DIFFRACTION (2.7 Å) | | Cite: | Insights into the molecular mechanism of ParABS system in chromosome partition by HpParA and HpParB.
Nucleic Acids Res., 52, 2024
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8RPX
 | | NhoI restriction endonuclease in complex with quadruply methylated DNA target | | Descriptor: | 1,2-ETHANEDIOL, CALCIUM ION, DNA (5'-D(*CP*TP*GP*(5CM)P*AP*GP*(5CM)P*TP*C)-3'), ... | | Authors: | Rafalski, D, Krakowska, K, Gilski, M, Bochtler, M. | | Deposit date: | 2024-01-17 | | Release date: | 2024-07-17 | | Last modified: | 2024-09-04 | | Method: | X-RAY DIFFRACTION (1.81 Å) | | Cite: | Structural analysis of the BisI family of modification dependent restriction endonucleases.
Nucleic Acids Res., 52, 2024
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8HHM
 | | Cryo-EM structure of the Cas12m2-crRNA-target DNA ternary complex intermediate state | | Descriptor: | Cas12m2, DNA (36-MER), MAGNESIUM ION, ... | | Authors: | Omura, N.S, Nakagawa, R, Wu, Y.W, Sudfeld, C, Warren, V.R, Hirano, H, Kusakizako, T, Kise, Y, Lebbink, H.G.J, Itoh, Y, Oost, V.D.J, Nureki, O. | | Deposit date: | 2022-11-16 | | Release date: | 2023-04-12 | | Last modified: | 2024-05-22 | | Method: | ELECTRON MICROSCOPY (3.08 Å) | | Cite: | Mechanistic and evolutionary insights into a type V-M CRISPR-Cas effector enzyme.
Nat.Struct.Mol.Biol., 30, 2023
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2IH4
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4RSI
 | | Yeast Smc2-Smc4 hinge domain with extended coiled coils | | Descriptor: | PHOSPHATE ION, Structural maintenance of chromosomes protein 2, Structural maintenance of chromosomes protein 4 | | Authors: | Soh, Y.M, Shin, H.C, Oh, B.H. | | Deposit date: | 2014-11-08 | | Release date: | 2014-12-31 | | Last modified: | 2024-02-28 | | Method: | X-RAY DIFFRACTION (2.9 Å) | | Cite: | Molecular Basis for SMC Rod Formation and Its Dissolution upon DNA Binding.
Mol.Cell, 57, 2015
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2VKC
 | | Solution structure of the B3BP Smr domain | | Descriptor: | NEDD4-BINDING PROTEIN 2 | | Authors: | Diercks, T, Ab, E, Daniels, M.A, deJong, R.N, Besseling, R, Kaptein, R, Folkers, G.E. | | Deposit date: | 2007-12-18 | | Release date: | 2008-10-14 | | Last modified: | 2024-05-15 | | Method: | SOLUTION NMR | | Cite: | Solution Structure and Characterization of the DNA- Binding Activity of the B3BP-Smr Domain.
J.Mol.Biol., 383, 2008
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7MWI
 | | Crystal structure of human BAZ2A | | Descriptor: | Bromodomain adjacent to zinc finger domain protein 2A, UNKNOWN ATOM OR ION | | Authors: | Liu, K, Dong, A, Li, Y, Loppnau, P, Edwards, A.M, Arrowsmith, C.H, Min, J, Structural Genomics Consortium (SGC) | | Deposit date: | 2021-05-17 | | Release date: | 2021-12-29 | | Last modified: | 2023-10-18 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Structural basis of the TAM domain of BAZ2A in binding to DNA or RNA independent of methylation status.
J.Biol.Chem., 297, 2021
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6BZG
 | | Structure of S. cerevisiae Zip2:Spo16 complex, P212121 form | | Descriptor: | HEXAETHYLENE GLYCOL, Protein ZIP2, SULFATE ION, ... | | Authors: | Arora, K, Corbett, K.D. | | Deposit date: | 2017-12-23 | | Release date: | 2018-02-14 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (2.13 Å) | | Cite: | The conserved XPF:ERCC1-like Zip2:Spo16 complex controls meiotic crossover formation through structure-specific DNA binding.
Nucleic Acids Res., 47, 2019
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4RSJ
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8T5Y
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8SUA
 | | Structure of M. baixiangningiae DarR-ligand complex | | Descriptor: | 3-azanyl-3-(hydroxymethyl)-1,5,7,11-tetraoxa-6$l^{4}-boraspiro[5.5]undecan-9-ol, DarR | | Authors: | Schumacher, M.A. | | Deposit date: | 2023-05-11 | | Release date: | 2023-11-01 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (1.6 Å) | | Cite: | Structures of the DarR transcription regulator reveal unique modes of second messenger and DNA binding.
Nat Commun, 14, 2023
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6C5D
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5FQ5
 | | Crystal structure of Cas9-sgRNA-DNA complex solved by native SAD phasing | | Descriptor: | CRISPR-ASSOCIATED ENDONUCLEASE CAS9/CSN1, MAGNESIUM ION, NON-TARGET DNA STRAND, ... | | Authors: | Olieric, V, Weinert, T, Finke, A, Anders, C, Jinek, M, Wang, M. | | Deposit date: | 2015-12-07 | | Release date: | 2016-03-23 | | Last modified: | 2024-05-08 | | Method: | X-RAY DIFFRACTION (2.136 Å) | | Cite: | Data-Collection Strategy for Challenging Native Sad Phasing.
Acta Crystallogr.,Sect.D, 72, 2016
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5VMV
 | | Kaiso (ZBTB33) zinc finger DNA binding domain in complex with its double CpG-methylated DNA consensus binding site | | Descriptor: | CHLORIDE ION, DNA (5'-D(*TP*GP*CP*TP*TP*CP*TP*(5CM)P*GP*(5CM)P*GP*AP*GP*AP*AP*GP*CP*A)-3'), Transcriptional regulator Kaiso, ... | | Authors: | Nikolova, E.N, Stanfield, R.L, Martinez-Yamout, M.A, Dyson, H.J, Wright, P.E. | | Deposit date: | 2017-04-28 | | Release date: | 2018-04-04 | | Last modified: | 2023-10-04 | | Method: | X-RAY DIFFRACTION (2.313 Å) | | Cite: | CH···O Hydrogen Bonds Mediate Highly Specific Recognition of Methylated CpG Sites by the Zinc Finger Protein Kaiso.
Biochemistry, 57, 2018
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4TZ0
 | | DEAD-box helicase Mss116 bound to ssRNA and GDP-BeF | | Descriptor: | ATP-dependent RNA helicase MSS116, mitochondrial, BERYLLIUM TRIFLUORIDE ION, ... | | Authors: | Mallam, A.L, Sidote, D.J, Lambowitz, A.M. | | Deposit date: | 2014-07-09 | | Release date: | 2014-12-31 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (2.35 Å) | | Cite: | Molecular insights into RNA and DNA helicase evolution from the determinants of specificity for a DEAD-box RNA helicase.
Elife, 3, 2014
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4TYY
 | | DEAD-box helicase Mss116 bound to ssRNA and CDP-BeF | | Descriptor: | ATP-dependent RNA helicase MSS116, mitochondrial, BERYLLIUM TRIFLUORIDE ION, ... | | Authors: | Mallam, A.L, Sidote, D.J, Lambowitz, A.M. | | Deposit date: | 2014-07-09 | | Release date: | 2014-12-31 | | Last modified: | 2023-09-27 | | Method: | X-RAY DIFFRACTION (2.74 Å) | | Cite: | Molecular insights into RNA and DNA helicase evolution from the determinants of specificity for a DEAD-box RNA helicase.
Elife, 3, 2014
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4TYW
 | | DEAD-box helicase Mss116 bound to ssRNA and ADP-BeF | | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, ATP-dependent RNA helicase MSS116, mitochondrial, ... | | Authors: | Mallam, A.L, Sidote, D.J, Lambowitz, A.M. | | Deposit date: | 2014-07-09 | | Release date: | 2014-12-31 | | Last modified: | 2023-09-27 | | Method: | X-RAY DIFFRACTION (2.197 Å) | | Cite: | Molecular insights into RNA and DNA helicase evolution from the determinants of specificity for a DEAD-box RNA helicase.
Elife, 3, 2014
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4TZ6
 | | DEAD-box helicase Mss116 bound to ssRNA and UDP-BeF | | Descriptor: | ATP-dependent RNA helicase MSS116, mitochondrial, BERYLLIUM TRIFLUORIDE ION, ... | | Authors: | Mallam, A.L, Sidote, D.J, Lambowitz, A.M. | | Deposit date: | 2014-07-09 | | Release date: | 2015-01-28 | | Last modified: | 2023-09-27 | | Method: | X-RAY DIFFRACTION (3.209 Å) | | Cite: | Molecular insights into RNA and DNA helicase evolution from the determinants of specificity for a DEAD-box RNA helicase.
Elife, 3, 2014
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8P9O
 | | PCNA from Chaetomium thermophilum in complex with PolD3 peptide | | Descriptor: | Proliferating cell nuclear antigen, Synthetic peptide corresponding to amino acids 437 to 451 of PolD3 from Chaetomium thermophilum | | Authors: | Alphey, M.S, Wolford, C.B, MacNeill, S.A. | | Deposit date: | 2023-06-06 | | Release date: | 2023-12-13 | | Last modified: | 2024-01-24 | | Method: | X-RAY DIFFRACTION (2.45 Å) | | Cite: | Canonical binding of Chaetomium thermophilum DNA polymerase delta / zeta subunit PolD3 and flap endonuclease Fen1 to PCNA.
Front Mol Biosci, 10, 2023
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6TNG
 | | Structure of FANCD2 in complex with FANCI | | Descriptor: | Fanconi anemia complementation group I, Uncharacterized protein | | Authors: | Alcon, P, Shakeel, S, Passmore, L.A. | | Deposit date: | 2019-12-07 | | Release date: | 2020-02-19 | | Last modified: | 2024-05-22 | | Method: | ELECTRON MICROSCOPY (4.1 Å) | | Cite: | FANCD2-FANCI is a clamp stabilized on DNA by monoubiquitination of FANCD2 during DNA repair.
Nat.Struct.Mol.Biol., 27, 2020
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6BHV
 | | Human PARP-1 bound to NAD+ analog benzamide adenine dinucleotide (BAD) | | Descriptor: | Poly [ADP-ribose] polymerase 1, [(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl [(2R,3S,4R,5S)-5-(3-carbamoylphenyl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl dihydrogen diphosphate (non-preferred name) | | Authors: | Pascal, J.M, Langelier, M.F. | | Deposit date: | 2017-10-31 | | Release date: | 2018-02-28 | | Last modified: | 2023-10-04 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | NAD+analog reveals PARP-1 substrate-blocking mechanism and allosteric communication from catalytic center to DNA-binding domains.
Nat Commun, 9, 2018
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