SMTL ID : 3b6m.1

WrbA from Escherichia coli, second crystal form

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-tetramer

Ligands

4 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 20 residues within 4Å: Chain A: S.10, M.11, Y.12, G.13, H.14, I.15, P.77, T.78, R.79, F.80, G.81, S.113, T.114, G.115, T.116, G.117, G.118 Chain C: D.92, H.133 Ligands: 144.2 18 PLIP interactions: 18 interactions with chain A Hydrophobic interactions: A:F.80, A:F.80 Hydrogen bonds: A:M.11, A:Y.12, A:G.13, A:H.14, A:I.15, A:T.78, A:T.78, A:F.80, A:G.81, A:S.113, A:S.113, A:G.115, A:T.116, A:G.117, A:G.118 Salt bridges: A:H.14 FMN.4: 20 residues within 4Å: Chain B: S.10, M.11, Y.12, G.13, H.14, I.15, P.77, T.78, R.79, F.80, G.81, S.113, T.114, G.115, T.116, G.117, G.118 Chain D: D.92, H.133 Ligands: 144.5 19 PLIP interactions: 19 interactions with chain B Hydrophobic interactions: B:F.80 Hydrogen bonds: B:M.11, B:Y.12, B:G.13, B:H.14, B:I.15, B:T.78, B:T.78, B:F.80, B:G.81, B:S.113, B:S.113, B:G.115, B:T.116, B:G.117, B:G.118, B:G.118 Water bridges: B:R.79 Salt bridges: B:H.14 FMN.6: 20 residues within 4Å: Chain A: D.92, H.133 Chain C: S.10, M.11, Y.12, G.13, H.14, I.15, P.77, T.78, R.79, F.80, G.81, S.113, T.114, G.115, T.116, G.117, G.118 Ligands: 144.7 18 PLIP interactions: 18 interactions with chain C Hydrophobic interactions: C:F.80, C:F.80 Hydrogen bonds: C:M.11, C:Y.12, C:G.13, C:H.14, C:I.15, C:T.78, C:T.78, C:F.80, C:G.81, C:S.113, C:S.113, C:G.115, C:T.116, C:G.117, C:G.118 Salt bridges: C:H.14 FMN.9: 20 residues within 4Å: Chain B: D.92, H.133 Chain D: S.10, M.11, Y.12, G.13, H.14, I.15, P.77, T.78, R.79, F.80, G.81, S.113, T.114, G.115, T.116, G.117, G.118 Ligands: 144.10 19 PLIP interactions: 19 interactions with chain D Hydrophobic interactions: D:F.80 Hydrogen bonds: D:M.11, D:Y.12, D:G.13, D:H.14, D:I.15, D:T.78, D:T.78, D:F.80, D:G.81, D:S.113, D:S.113, D:G.115, D:T.116, D:G.117, D:G.118, D:G.118 Water bridges: D:R.79 Salt bridges: D:H.14

4 x 144: TRIS-HYDROXYMETHYL-METHYL-AMMONIUM(Non-covalent)

144.2: 9 residues within 4Å: Chain A: F.80, T.116, G.118 Chain C: W.98, H.133 Chain D: G.142, Y.143, P.159 Ligands: FMN.1 3 PLIP interactions: 1 interactions with chain C, 2 interactions with chain A Hydrogen bonds: C:H.133, A:G.118, A:G.118 144.5: 9 residues within 4Å: Chain B: T.116, G.118 Chain C: G.142, Y.143, Q.146, P.159 Chain D: W.98, H.133 Ligands: FMN.4 3 PLIP interactions: 1 interactions with chain D, 2 interactions with chain B Hydrogen bonds: D:H.133, B:G.118, B:G.118 144.7: 9 residues within 4Å: Chain A: W.98, H.133 Chain B: G.142, Y.143, P.159 Chain C: F.80, T.116, G.118 Ligands: FMN.6 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain C Hydrogen bonds: A:H.133, C:G.118, C:G.118 144.10: 9 residues within 4Å: Chain A: G.142, Y.143, Q.146, P.159 Chain B: W.98, H.133 Chain D: T.116, G.118 Ligands: FMN.9 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain B Hydrogen bonds: D:T.116, D:G.118, D:G.118, B:H.133

2 x 15P: POLYETHYLENE GLYCOL (N=34)(Non-functional Binders)

15P.3: 8 residues within 4Å: Chain A: Y.188, G.191, L.192, V.194, K.195 Chain B: G.105, L.196, N.197 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.195 Water bridges: A:G.191 15P.8: 8 residues within 4Å: Chain C: Y.188, G.191, L.192, V.194, K.195 Chain D: G.105, L.196, N.197 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:K.195 Water bridges: C:G.191

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Andrade, S.L. et al., Crystal structure of the NADH:quinone oxidoreductase WrbA from Escherichia coli. J.Bacteriol. (2007)

Release Date

2007-12-11

Peptides

Flavoprotein wrbA: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Flavoprotein wrbA

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