SMTL ID : 5lld.1

Flavodiiron core of Escherichia coli flavorubredoxin in the reduced form.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

homo-tetramer

Ligands

8 x FE: FE (III) ION(Non-covalent)

FE.1: 6 residues within 4Å: Chain A: D.83, H.84, D.166, H.227 Ligands: FE.2, OXY.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.83, A:H.84, A:D.166, A:H.227 FE.2: 6 residues within 4Å: Chain A: H.79, E.81, H.147, D.166 Ligands: FE.1, OXY.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.79, A:E.81, A:H.147, A:D.166 FE.5: 6 residues within 4Å: Chain B: D.83, H.84, D.166, H.227 Ligands: FE.6, OXY.7 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.83, B:H.84, B:D.166, B:H.227 FE.6: 6 residues within 4Å: Chain B: H.79, E.81, H.147, D.166 Ligands: FE.5, OXY.7 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.79, B:E.81, B:H.147, B:D.166 FE.9: 6 residues within 4Å: Chain C: D.83, H.84, D.166, H.227 Ligands: FE.10, OXY.11 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:D.83, C:H.84, C:D.166, C:H.227 FE.10: 6 residues within 4Å: Chain C: H.79, E.81, H.147, D.166 Ligands: FE.9, OXY.11 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:H.79, C:E.81, C:H.147, C:D.166 FE.13: 6 residues within 4Å: Chain D: D.83, H.84, D.166, H.227 Ligands: FE.14, OXY.15 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:D.83, D:H.84, D:D.166, D:H.227 FE.14: 6 residues within 4Å: Chain D: H.79, E.81, H.147, D.166 Ligands: FE.13, OXY.15 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:H.79, D:E.81, D:H.147, D:D.166

4 x OXY: OXYGEN MOLECULE(Non-covalent)

OXY.3: 7 residues within 4Å: Chain A: H.23, D.83, D.166, Y.194, H.227 Ligands: FE.1, FE.2 No protein-ligand interaction detected (PLIP) OXY.7: 7 residues within 4Å: Chain B: H.23, D.83, D.166, Y.194, H.227 Ligands: FE.5, FE.6 No protein-ligand interaction detected (PLIP) OXY.11: 7 residues within 4Å: Chain C: H.23, D.83, D.166, Y.194, H.227 Ligands: FE.9, FE.10 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:Y.194 OXY.15: 7 residues within 4Å: Chain D: H.23, D.83, D.166, Y.194, H.227 Ligands: FE.13, FE.14 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:Y.194

4 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.4: 20 residues within 4Å: Chain A: T.260, M.261, S.262, N.263, N.264, T.265, S.313, T.314, M.315, N.316, N.317, S.345, H.346, G.347, W.348, S.349, G.350, W.375 Chain D: H.23, W.148 21 PLIP interactions: 21 interactions with chain A Hydrogen bonds: A:T.260, A:M.261, A:S.262, A:N.264, A:N.264, A:T.265, A:S.313, A:S.313, A:T.314, A:T.314, A:N.316, A:N.317, A:H.346, A:G.347, A:W.348, A:S.349, A:S.349, A:G.350, A:W.375 pi-Stacking: A:W.348, A:W.348 FMN.8: 20 residues within 4Å: Chain B: T.260, M.261, S.262, N.263, N.264, T.265, S.313, T.314, M.315, N.316, N.317, S.345, H.346, G.347, W.348, S.349, G.350, W.375 Chain C: H.23, W.148 21 PLIP interactions: 21 interactions with chain B Hydrogen bonds: B:T.260, B:M.261, B:S.262, B:N.264, B:N.264, B:T.265, B:S.313, B:S.313, B:T.314, B:T.314, B:N.316, B:N.317, B:H.346, B:G.347, B:W.348, B:S.349, B:S.349, B:G.350, B:W.375 pi-Stacking: B:W.348, B:W.348 FMN.12: 20 residues within 4Å: Chain B: H.23, W.148 Chain C: T.260, M.261, S.262, N.263, N.264, T.265, S.313, T.314, M.315, N.316, N.317, S.345, H.346, G.347, W.348, S.349, G.350, W.375 21 PLIP interactions: 21 interactions with chain C Hydrogen bonds: C:M.261, C:S.262, C:N.264, C:N.264, C:T.265, C:T.265, C:S.313, C:S.313, C:T.314, C:T.314, C:N.316, C:N.317, C:H.346, C:G.347, C:W.348, C:S.349, C:S.349, C:G.350, C:W.375 pi-Stacking: C:W.348, C:W.348 FMN.16: 20 residues within 4Å: Chain A: H.23, W.148 Chain D: T.260, M.261, S.262, N.263, N.264, T.265, S.313, T.314, M.315, N.316, N.317, S.345, H.346, G.347, W.348, S.349, G.350, W.375 21 PLIP interactions: 21 interactions with chain D Hydrogen bonds: D:M.261, D:S.262, D:N.264, D:N.264, D:T.265, D:T.265, D:S.313, D:S.313, D:T.314, D:T.314, D:N.316, D:N.317, D:H.346, D:G.347, D:W.348, D:S.349, D:S.349, D:G.350, D:W.375 pi-Stacking: D:W.348, D:W.348

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Romao, C.V. et al., Structure of Escherichia coli Flavodiiron Nitric Oxide Reductase. J.Mol.Biol. (2016)

Release Date

2016-10-19

Peptides

Anaerobic nitric oxide reductase flavorubredoxin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Anaerobic nitric oxide reductase flavorubredoxin

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