SMTL ID : 2zfa.2 (2 other biounits)

Structure of Lactate Oxidase at pH4.5 from AEROCOCCUS VIRIDANS

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.81 Å

Oligo State

homo-tetramer

Ligands

4 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 23 residues within 4Å: Chain A: Y.40, I.41, A.92, P.93, I.94, A.95, S.122, Q.144, Y.146, T.172, K.241, S.263, H.265, G.266, R.268, D.296, S.297, G.298, V.299, R.300, G.319, R.320 Ligands: EDO.2 26 PLIP interactions: 26 interactions with chain A Hydrophobic interactions: A:Y.40, A:I.94, A:I.94, A:R.320 Hydrogen bonds: A:P.93, A:A.95, A:S.122, A:Q.144, A:Q.144, A:Y.146, A:T.172, A:K.241, A:K.241, A:S.263, A:G.298, A:V.299, A:R.320 Water bridges: A:G.266, A:R.268, A:R.268, A:S.297, A:S.297, A:R.300, A:R.320 Salt bridges: A:R.300, A:R.320 FMN.3: 23 residues within 4Å: Chain B: Y.40, I.41, A.92, P.93, I.94, A.95, S.122, Q.144, Y.146, T.172, K.241, S.263, H.265, G.266, R.268, D.296, S.297, G.298, V.299, R.300, G.319, R.320 Ligands: EDO.4 26 PLIP interactions: 26 interactions with chain B Hydrophobic interactions: B:Y.40, B:I.94, B:I.94, B:R.320 Hydrogen bonds: B:P.93, B:A.95, B:S.122, B:Q.144, B:Q.144, B:Y.146, B:T.172, B:K.241, B:K.241, B:S.263, B:G.298, B:V.299, B:R.320 Water bridges: B:G.266, B:R.268, B:R.268, B:S.297, B:S.297, B:R.300, B:R.320 Salt bridges: B:R.300, B:R.320 FMN.5: 23 residues within 4Å: Chain C: Y.40, I.41, A.92, P.93, I.94, A.95, S.122, Q.144, Y.146, T.172, K.241, S.263, H.265, G.266, R.268, D.296, S.297, G.298, V.299, R.300, G.319, R.320 Ligands: EDO.6 26 PLIP interactions: 26 interactions with chain C Hydrophobic interactions: C:Y.40, C:I.94, C:I.94, C:R.320 Hydrogen bonds: C:P.93, C:A.95, C:S.122, C:Q.144, C:Q.144, C:Y.146, C:T.172, C:K.241, C:K.241, C:S.263, C:G.298, C:V.299, C:R.320 Water bridges: C:G.266, C:R.268, C:R.268, C:S.297, C:S.297, C:R.300, C:R.320 Salt bridges: C:R.300, C:R.320 FMN.7: 23 residues within 4Å: Chain D: Y.40, I.41, A.92, P.93, I.94, A.95, S.122, Q.144, Y.146, T.172, K.241, S.263, H.265, G.266, R.268, D.296, S.297, G.298, V.299, R.300, G.319, R.320 Ligands: EDO.8 26 PLIP interactions: 26 interactions with chain D Hydrophobic interactions: D:Y.40, D:I.94, D:I.94, D:R.320 Hydrogen bonds: D:P.93, D:A.95, D:S.122, D:Q.144, D:Q.144, D:Y.146, D:T.172, D:K.241, D:K.241, D:S.263, D:G.298, D:V.299, D:R.320 Water bridges: D:G.266, D:R.268, D:R.268, D:S.297, D:S.297, D:R.300, D:R.320 Salt bridges: D:R.300, D:R.320

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 7 residues within 4Å: Chain A: Y.146, T.172, D.174, T.176, H.265, Q.269 Ligands: FMN.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.174, A:Q.269 Water bridges: A:R.268 EDO.4: 7 residues within 4Å: Chain B: Y.146, T.172, D.174, T.176, H.265, Q.269 Ligands: FMN.3 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.174, B:Q.269 Water bridges: B:R.268 EDO.6: 7 residues within 4Å: Chain C: Y.146, T.172, D.174, T.176, H.265, Q.269 Ligands: FMN.5 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:D.174, C:Q.269 Water bridges: C:R.268 EDO.8: 7 residues within 4Å: Chain D: Y.146, T.172, D.174, T.176, H.265, Q.269 Ligands: FMN.7 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:D.174, D:Q.269 Water bridges: D:R.268

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Furuichi, M. et al., X-ray structures of Aerococcus viridans lactate oxidase and its complex with D-lactate at pH 4.5 show an alpha-hydroxyacid oxidation mechanism. J.Mol.Biol. (2008)

Release Date

2008-04-22

Peptides

Lactate oxidase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Lactate oxidase

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