SMTL ID : 1xmv.1

E. coli RecA in complex with MgADP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-hexamer

Ligands

24 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: T.77, D.148 Ligands: ADP.5 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:T.77, H2O.5, H2O.5, H2O.6, H2O.7 MG.2: 4 residues within 4Å: Chain A: E.22, K.27, I.30, M.31 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.22, A:K.27, A:I.30, H2O.4, H2O.7 MG.3: 4 residues within 4Å: Chain A: D.124 Chain F: A.223, S.224, K.254 No protein-ligand interaction detected (PLIP) MG.4: 1 residues within 4Å: Chain A: Q.24 No protein-ligand interaction detected (PLIP) MG.6: 3 residues within 4Å: Chain B: T.77, D.148 Ligands: ADP.10 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:T.77, H2O.12, H2O.12, H2O.14, H2O.15 MG.7: 4 residues within 4Å: Chain B: E.22, K.27, I.30, M.31 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.22, B:K.27, B:I.30, H2O.11, H2O.14 MG.8: 4 residues within 4Å: Chain B: D.124 Chain D: A.223, S.224, K.254 No protein-ligand interaction detected (PLIP) MG.9: 1 residues within 4Å: Chain B: Q.24 No protein-ligand interaction detected (PLIP) MG.11: 3 residues within 4Å: Chain C: T.77, D.148 Ligands: ADP.15 5 PLIP interactions: 1 interactions with chain C, 4 Ligand-Water interactions Metal complexes: C:T.77, H2O.20, H2O.20, H2O.21, H2O.22 MG.12: 4 residues within 4Å: Chain C: E.22, K.27, I.30, M.31 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:E.22, C:K.27, C:I.30, H2O.19, H2O.22 MG.13: 4 residues within 4Å: Chain C: D.124 Chain E: A.223, S.224, K.254 No protein-ligand interaction detected (PLIP) MG.14: 1 residues within 4Å: Chain C: Q.24 No protein-ligand interaction detected (PLIP) MG.16: 3 residues within 4Å: Chain D: T.77, D.148 Ligands: ADP.20 5 PLIP interactions: 1 interactions with chain D, 4 Ligand-Water interactions Metal complexes: D:T.77, H2O.27, H2O.28, H2O.29, H2O.30 MG.17: 4 residues within 4Å: Chain D: E.22, K.27, I.30, M.31 5 PLIP interactions: 3 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:E.22, D:K.27, D:I.30, H2O.26, H2O.29 MG.18: 4 residues within 4Å: Chain C: A.223, S.224, K.254 Chain D: D.124 No protein-ligand interaction detected (PLIP) MG.19: 1 residues within 4Å: Chain D: Q.24 No protein-ligand interaction detected (PLIP) MG.21: 3 residues within 4Å: Chain E: T.77, D.148 Ligands: ADP.25 5 PLIP interactions: 1 interactions with chain E, 4 Ligand-Water interactions Metal complexes: E:T.77, H2O.35, H2O.35, H2O.36, H2O.37 MG.22: 4 residues within 4Å: Chain E: E.22, K.27, I.30, M.31 5 PLIP interactions: 3 interactions with chain E, 2 Ligand-Water interactions Metal complexes: E:E.22, E:K.27, E:I.30, H2O.34, H2O.37 MG.23: 1 residues within 4Å: Chain E: D.124 No protein-ligand interaction detected (PLIP) MG.24: 1 residues within 4Å: Chain E: Q.24 No protein-ligand interaction detected (PLIP) MG.26: 3 residues within 4Å: Chain F: T.77, D.148 Ligands: ADP.30 5 PLIP interactions: 1 interactions with chain F, 4 Ligand-Water interactions Metal complexes: F:T.77, H2O.43, H2O.43, H2O.44, H2O.45 MG.27: 4 residues within 4Å: Chain F: E.22, K.27, I.30, M.31 5 PLIP interactions: 3 interactions with chain F, 2 Ligand-Water interactions Metal complexes: F:E.22, F:K.27, F:I.30, H2O.42, H2O.45 MG.28: 4 residues within 4Å: Chain B: A.223, S.224, K.254 Chain F: D.124 No protein-ligand interaction detected (PLIP) MG.29: 1 residues within 4Å: Chain F: Q.24 No protein-ligand interaction detected (PLIP)

6 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.5: 16 residues within 4Å: Chain A: P.71, E.72, S.73, S.74, G.75, K.76, T.77, T.78, D.104, Y.107, Q.198, S.244, I.266, Y.268, G.269 Ligands: MG.1 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:S.73, A:S.73, A:S.74, A:G.75, A:K.76, A:T.77, A:T.78, A:T.78, A:D.104, A:D.104, A:S.244, A:G.269 Salt bridges: A:K.76 pi-Stacking: A:Y.107, A:Y.107 ADP.10: 16 residues within 4Å: Chain B: P.71, E.72, S.73, S.74, G.75, K.76, T.77, T.78, D.104, Y.107, Q.198, S.244, I.266, Y.268, G.269 Ligands: MG.6 15 PLIP interactions: 15 interactions with chain B Hydrogen bonds: B:S.73, B:S.73, B:S.74, B:G.75, B:K.76, B:T.77, B:T.78, B:T.78, B:D.104, B:D.104, B:S.244, B:G.269 Salt bridges: B:K.76 pi-Stacking: B:Y.107, B:Y.107 ADP.15: 16 residues within 4Å: Chain C: P.71, E.72, S.73, S.74, G.75, K.76, T.77, T.78, D.104, Y.107, Q.198, S.244, I.266, Y.268, G.269 Ligands: MG.11 15 PLIP interactions: 15 interactions with chain C Hydrogen bonds: C:S.73, C:S.73, C:S.74, C:G.75, C:K.76, C:T.77, C:T.78, C:T.78, C:D.104, C:D.104, C:S.244, C:G.269 Salt bridges: C:K.76 pi-Stacking: C:Y.107, C:Y.107 ADP.20: 16 residues within 4Å: Chain D: P.71, E.72, S.73, S.74, G.75, K.76, T.77, T.78, D.104, Y.107, Q.198, S.244, I.266, Y.268, G.269 Ligands: MG.16 15 PLIP interactions: 15 interactions with chain D Hydrogen bonds: D:S.73, D:S.73, D:S.74, D:G.75, D:K.76, D:T.77, D:T.78, D:T.78, D:D.104, D:D.104, D:S.244, D:G.269 Salt bridges: D:K.76 pi-Stacking: D:Y.107, D:Y.107 ADP.25: 16 residues within 4Å: Chain E: P.71, E.72, S.73, S.74, G.75, K.76, T.77, T.78, D.104, Y.107, Q.198, S.244, I.266, Y.268, G.269 Ligands: MG.21 15 PLIP interactions: 15 interactions with chain E Hydrogen bonds: E:S.73, E:S.73, E:S.74, E:G.75, E:K.76, E:T.77, E:T.78, E:T.78, E:D.104, E:D.104, E:S.244, E:G.269 Salt bridges: E:K.76 pi-Stacking: E:Y.107, E:Y.107 ADP.30: 16 residues within 4Å: Chain F: P.71, E.72, S.73, S.74, G.75, K.76, T.77, T.78, D.104, Y.107, Q.198, S.244, I.266, Y.268, G.269 Ligands: MG.26 15 PLIP interactions: 15 interactions with chain F Hydrogen bonds: F:S.73, F:S.73, F:S.74, F:G.75, F:K.76, F:T.77, F:T.78, F:T.78, F:D.104, F:D.104, F:S.244, F:G.269 Salt bridges: F:K.76 pi-Stacking: F:Y.107, F:Y.107

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xing, X. et al., Crystal Structures of Escherichia coli RecA in Complex with MgADP and MnAMP-PNP(,). Biochemistry (2004)

Release Date

2005-01-04

Peptides

RecA protein: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

RecA protein

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