SMTL ID : 3gwn.1

Crystal structure of the FAD binding domain from mimivirus sulfhydryl oxidase R596

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.78 Å

Oligo State

homo-dimer

Ligands

2 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.1: 19 residues within 4Å: Chain A: T.6, W.9, G.10, T.11, W.14, H.18, L.47, C.52, Y.56, Y.83, H.86, N.87, V.89, N.90, K.92, L.93, Y.97, L.99, V.104 23 PLIP interactions: 23 interactions with chain A Hydrophobic interactions: A:W.9, A:W.14, A:W.14, A:W.14, A:L.47, A:Y.56 Hydrogen bonds: A:W.14, A:Y.83, A:H.86, A:N.90, A:Y.97, A:Y.97 Water bridges: A:T.6, A:T.6, A:T.6, A:T.11, A:T.11, A:Y.97, A:K.107, A:Y.108 Salt bridges: A:H.86 pi-Stacking: A:H.86, A:H.86 FAD.5: 20 residues within 4Å: Chain B: T.6, W.9, G.10, T.11, G.13, W.14, H.18, L.47, C.52, S.55, Y.56, Y.83, H.86, N.87, V.89, N.90, L.93, Y.97, L.99, V.104 18 PLIP interactions: 18 interactions with chain B Hydrophobic interactions: B:W.9, B:W.14, B:W.14, B:Y.56 Hydrogen bonds: B:W.14, B:S.55, B:Y.83, B:N.90 Water bridges: B:T.6, B:T.11, B:T.11, B:T.11, B:L.51, B:L.99, B:K.107 Salt bridges: B:H.86 pi-Stacking: B:H.86, B:H.86

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 2 residues within 4Å: Chain A: T.29, S.30 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.30 Water bridges: A:D.31 SO4.3: 2 residues within 4Å: Chain A: R.34, R.35 5 PLIP interactions: 1 interactions with chain B, 4 interactions with chain A Water bridges: B:D.45, A:R.35, A:N.38 Salt bridges: A:R.34, A:R.35 SO4.6: 3 residues within 4Å: Chain B: S.100, Y.101, E.102 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:S.100, B:S.100, B:Y.101, B:E.102, B:E.102, B:E.102

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 7 residues within 4Å: Chain A: D.45, R.53 Chain B: G.23, P.25, D.32, R.35, Y.36 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain B Water bridges: A:N.2, A:R.53 Hydrogen bonds: B:G.23, B:R.35, B:Y.36

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hakim, M. et al., Dimer interface migration in a viral sulfhydryl oxidase. J.Mol.Biol. (2009)

Release Date

2009-07-07

Peptides

Probable FAD-linked sulfhydryl oxidase R596: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Probable FAD-linked sulfhydryl oxidase R596