SMTL ID : 4dy4.1

High resolution structure of E.coli WrbA with FMN

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.20 Å

Oligo State

homo-tetramer

Ligands

4 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 20 residues within 4Å: Chain A: S.9, M.10, Y.11, G.12, H.13, I.14, P.76, T.77, R.78, F.79, G.80, S.112, T.113, G.114, T.115, G.116, G.117 Chain B: D.91, H.132 Chain D: Y.142 20 PLIP interactions: 19 interactions with chain A, 1 interactions with chain D Hydrophobic interactions: A:F.79, A:F.79 Hydrogen bonds: A:M.10, A:Y.11, A:G.12, A:H.13, A:I.14, A:T.77, A:T.77, A:F.79, A:G.80, A:S.112, A:S.112, A:G.114, A:T.115, A:G.116, A:G.117, A:G.117, D:Y.142 Salt bridges: A:H.13 FMN.4: 20 residues within 4Å: Chain A: D.91, H.132 Chain B: S.9, M.10, Y.11, G.12, H.13, I.14, P.76, T.77, R.78, F.79, G.80, S.112, T.113, G.114, T.115, G.116, G.117 Ligands: PEG.3 20 PLIP interactions: 18 interactions with chain B, 2 interactions with chain C Hydrophobic interactions: B:F.79 Hydrogen bonds: B:M.10, B:Y.11, B:G.12, B:H.13, B:I.14, B:T.77, B:T.77, B:F.79, B:G.80, B:S.112, B:G.114, B:G.116, B:G.117, B:G.117 Water bridges: B:T.113, C:Y.142, C:Y.142 Salt bridges: B:H.13 pi-Stacking: B:F.79 FMN.6: 20 residues within 4Å: Chain B: Y.142 Chain C: S.9, M.10, Y.11, G.12, H.13, I.14, P.76, T.77, R.78, F.79, G.80, S.112, T.113, G.114, T.115, G.116, G.117 Chain D: D.91, H.132 20 PLIP interactions: 20 interactions with chain C Hydrophobic interactions: C:F.79, C:F.79 Hydrogen bonds: C:M.10, C:Y.11, C:G.12, C:H.13, C:I.14, C:T.77, C:T.77, C:F.79, C:G.80, C:S.112, C:S.112, C:G.114, C:T.115, C:G.116, C:G.117, C:G.117 Water bridges: C:T.115 Salt bridges: C:H.13 FMN.9: 20 residues within 4Å: Chain C: D.91, H.132 Chain D: S.9, M.10, Y.11, G.12, H.13, I.14, P.76, T.77, R.78, F.79, G.80, S.112, T.113, G.114, T.115, G.116, G.117 Ligands: PEG.8 18 PLIP interactions: 18 interactions with chain D Hydrophobic interactions: D:F.79 Hydrogen bonds: D:M.10, D:Y.11, D:G.12, D:H.13, D:I.14, D:T.77, D:T.77, D:F.79, D:G.80, D:S.112, D:T.113, D:G.114, D:G.116, D:G.117, D:G.117 Salt bridges: D:H.13 pi-Stacking: D:F.79

6 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.2: 7 residues within 4Å: Chain A: L.96, W.97, G.100, A.101, L.102, Y.103, H.133 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:G.100, A:L.102, A:H.133 Water bridges: C:Y.142 PEG.3: 3 residues within 4Å: Chain A: W.97 Chain B: F.79 Ligands: FMN.4 1 PLIP interactions: 1 interactions with chain A Water bridges: A:W.97 PEG.5: 3 residues within 4Å: Chain B: P.39, V.59, T.61 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:V.59 PEG.7: 7 residues within 4Å: Chain C: L.96, W.97, G.100, A.101, L.102, Y.103, H.133 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain C Water bridges: A:Y.142 Hydrogen bonds: C:G.100, C:L.102, C:H.133 PEG.8: 3 residues within 4Å: Chain C: W.97 Chain D: F.79 Ligands: FMN.9 1 PLIP interactions: 1 interactions with chain C Water bridges: C:W.97 PEG.10: 3 residues within 4Å: Chain D: P.39, V.59, T.61 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:V.59

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kishko, I. et al., High resolution structure of E.coli WrbA with FMN. To be Published

Release Date

2013-03-06

Peptides

Flavoprotein wrbA: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

C
A

D
C

Flavoprotein wrbA

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