SMTL ID : 4xbv.1

R2-like ligand-binding oxidase with anaerobically reconstituted diiron cofactor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

6 x FE2: FE (II) ION(Non-covalent)

FE2.1: 8 residues within 4Å: Chain A: E.83, V.86, E.116, H.119, L.212, E.216 Ligands: FE2.2, PLM.4 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.83, A:E.116, A:H.119, A:E.216, H2O.2 FE2.2: 8 residues within 4Å: Chain A: F.112, E.116, Y.176, E.181, E.216, H.219 Ligands: FE2.1, PLM.4 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.116, A:E.181, A:E.216, A:E.216, A:H.219 FE2.3: 1 residues within 4Å: Chain A: H.144 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:H.144, H2O.4, H2O.4, H2O.4 FE2.5: 7 residues within 4Å: Chain B: F.112, E.116, E.181, E.216, H.219 Ligands: FE2.6, PLM.8 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:E.116, B:E.181, B:E.216, B:E.216, B:H.219 FE2.6: 9 residues within 4Å: Chain B: E.83, V.86, E.116, H.119, L.212, E.216, H.219 Ligands: FE2.5, PLM.8 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.83, B:E.116, B:H.119, B:E.216, H2O.9 FE2.7: 1 residues within 4Å: Chain B: H.144 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:H.144, H2O.8, H2O.8, H2O.9

2 x PLM: PALMITIC ACID(Non-covalent)

PLM.4: 29 residues within 4Å: Chain A: L.75, G.78, F.79, G.82, E.83, V.86, E.116, H.119, Y.145, F.149, Y.176, V.180, E.181, L.184, A.185, S.187, G.188, T.191, E.216, H.219, Y.255, V.256, L.259, T.260, Y.279, L.282, V.286 Ligands: FE2.1, FE2.2 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:L.75, A:F.79, A:F.79, A:V.86, A:F.149, A:E.181, A:A.185, A:Y.255, A:L.259, A:L.282, A:L.282 Salt bridges: A:H.119, A:H.219 PLM.8: 30 residues within 4Å: Chain B: L.75, G.78, F.79, G.82, E.83, V.86, E.116, H.119, Y.145, F.149, Y.176, V.180, E.181, L.184, A.185, S.187, G.188, Y.189, T.191, E.216, H.219, Y.255, V.256, L.259, T.260, Y.279, L.282, V.286 Ligands: FE2.5, FE2.6 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:F.79, B:F.79, B:F.149, B:V.180, B:E.181, B:L.184, B:A.185, B:Y.255, B:L.282, B:V.286 Salt bridges: B:H.119, B:H.219

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Griese, J.J. et al., Structural Basis for Oxygen Activation at a Heterodinuclear Manganese/Iron Cofactor. J.Biol.Chem. (2015)

Release Date

2015-09-09

Peptides

Ribonuleotide reductase small subunit: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Ribonuleotide reductase small subunit

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