SMTL ID : 1jqc.1

Mn substituted Ribonucleotide reductase R2 from E. Coli oxidized by hydrogen peroxide and hydroxylamine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.61 Å

Oligo State

homo-dimer

Ligands

4 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 5 residues within 4Å: Chain A: D.84, E.115, H.118, E.238 Ligands: MN.2 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.84, A:E.115, A:H.118, A:E.238, H2O.8 MN.2: 6 residues within 4Å: Chain A: W.111, E.115, E.204, E.238, H.241 Ligands: MN.1 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.115, A:E.204, A:E.238, A:H.241, H2O.3 MN.8: 5 residues within 4Å: Chain B: D.84, E.115, H.118, E.238 Ligands: MN.9 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.84, B:D.84, B:E.115, B:H.118, H2O.19 MN.9: 6 residues within 4Å: Chain B: W.111, E.115, E.204, E.238, H.241 Ligands: MN.8 6 PLIP interactions: 5 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.115, B:E.204, B:E.238, B:E.238, B:H.241, H2O.17

13 x HG: MERCURY (II) ION(Non-covalent)

HG.3: 5 residues within 4Å: Chain A: Y.156, Y.157, C.196, V.200 Ligands: HG.5 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:C.196 HG.4: 5 residues within 4Å: Chain A: Y.194, M.198, A.265, K.269, C.272 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:Y.194, A:C.272, H2O.7 HG.5: 6 residues within 4Å: Chain A: L.95, Y.157, C.196, L.197, V.200 Ligands: HG.3 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:C.196 HG.6: 5 residues within 4Å: Chain A: V.210, A.213, C.214, L.299, L.304 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:V.210, A:C.214 HG.7: 4 residues within 4Å: Chain A: K.284, C.305, Q.306, E.309 No protein-ligand interaction detected (PLIP) HG.10: 5 residues within 4Å: Chain B: Y.157, C.196, L.197, V.200 Ligands: HG.12 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:C.196 HG.11: 4 residues within 4Å: Chain B: Y.194, L.195, C.268, C.272 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:C.268, B:C.272, H2O.15 HG.12: 5 residues within 4Å: Chain B: Y.156, Y.157, C.196, V.200 Ligands: HG.10 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:C.196, H2O.16 HG.13: 5 residues within 4Å: Chain B: I.72, C.214, F.218, M.296, L.299 No protein-ligand interaction detected (PLIP) HG.14: 4 residues within 4Å: Chain B: M.198, C.272, L.275, F.276 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:C.272 HG.15: 3 residues within 4Å: Chain B: K.284, C.305, E.309 No protein-ligand interaction detected (PLIP) HG.16: 5 residues within 4Å: Chain B: N.76, V.210, C.214, W.286, L.304 3 PLIP interactions: 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:C.214, H2O.17, H2O.28 HG.17: 5 residues within 4Å: Chain B: Y.194, M.198, A.265, C.272, L.321 3 PLIP interactions: 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:Y.194, H2O.15, H2O.27

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hogbom, M. et al., Crystal structures of oxidized dinuclear manganese centres in Mn-substituted class I ribonucleotide reductase from Escherichia coli: carboxylate shifts with implications for O2 activation and radical generation. J.Biol.Inorg.Chem. (2001)

Release Date

2001-08-22

Peptides

Protein R2 of ribonucleotide reductase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protein R2 of ribonucleotide reductase

Related Entries With Identical Sequence