SMTL ID : 1al8.1

THREE-DIMENSIONAL STRUCTURE OF GLYCOLATE OXIDASE WITH BOUND ACTIVE-SITE INHIBITORS

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-tetramer

Ligands

4 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 23 residues within 4Å: Chain A: Y.24, Y.25, A.76, P.77, T.78, A.79, S.106, Q.127, Y.129, T.155, K.230, S.252, H.254, G.255, R.257, D.285, G.286, G.287, R.289, I.307, G.308, R.309 Ligands: DHP.2 24 PLIP interactions: 24 interactions with chain A Hydrophobic interactions: A:Y.25, A:R.309 Hydrogen bonds: A:P.77, A:A.79, A:S.106, A:Q.127, A:Y.129, A:T.155, A:K.230, A:K.230, A:S.252, A:G.255, A:G.286, A:G.287, A:G.308, A:R.309 Water bridges: A:N.38, A:N.253, A:H.254, A:V.288, A:R.289, A:R.309 Salt bridges: A:R.289, A:R.309 FMN.3: 23 residues within 4Å: Chain B: Y.24, Y.25, A.76, P.77, T.78, A.79, S.106, Q.127, Y.129, T.155, K.230, S.252, H.254, G.255, R.257, D.285, G.286, G.287, R.289, I.307, G.308, R.309 Ligands: DHP.4 24 PLIP interactions: 24 interactions with chain B Hydrophobic interactions: B:Y.25, B:R.309 Hydrogen bonds: B:P.77, B:A.79, B:S.106, B:Q.127, B:Y.129, B:T.155, B:K.230, B:K.230, B:S.252, B:G.255, B:G.286, B:G.287, B:G.308, B:R.309 Water bridges: B:N.38, B:N.253, B:H.254, B:V.288, B:R.289, B:R.309 Salt bridges: B:R.289, B:R.309 FMN.5: 23 residues within 4Å: Chain C: Y.24, Y.25, A.76, P.77, T.78, A.79, S.106, Q.127, Y.129, T.155, K.230, S.252, H.254, G.255, R.257, D.285, G.286, G.287, R.289, I.307, G.308, R.309 Ligands: DHP.6 24 PLIP interactions: 24 interactions with chain C Hydrophobic interactions: C:Y.25, C:R.309 Hydrogen bonds: C:P.77, C:A.79, C:S.106, C:Q.127, C:Y.129, C:T.155, C:K.230, C:K.230, C:S.252, C:G.255, C:G.286, C:G.287, C:G.308, C:R.309 Water bridges: C:N.38, C:N.253, C:H.254, C:V.288, C:R.289, C:R.309 Salt bridges: C:R.289, C:R.309 FMN.7: 23 residues within 4Å: Chain D: Y.24, Y.25, A.76, P.77, T.78, A.79, S.106, Q.127, Y.129, T.155, K.230, S.252, H.254, G.255, R.257, D.285, G.286, G.287, R.289, I.307, G.308, R.309 Ligands: DHP.8 24 PLIP interactions: 24 interactions with chain D Hydrophobic interactions: D:Y.25, D:R.309 Hydrogen bonds: D:P.77, D:A.79, D:S.106, D:Q.127, D:Y.129, D:T.155, D:K.230, D:K.230, D:S.252, D:G.255, D:G.286, D:G.287, D:G.308, D:R.309 Water bridges: D:N.38, D:N.253, D:H.254, D:V.288, D:R.289, D:R.309 Salt bridges: D:R.289, D:R.309

4 x DHP: 3-DECYL-2,5-DIOXO-4-HYDROXY-3-PYRROLINE(Non-covalent)

DHP.2: 12 residues within 4Å: Chain A: M.20, Y.24, A.79, M.83, W.108, Y.129, P.159, I.168, F.172, H.254, R.257 Ligands: FMN.1 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:Y.24, A:A.79, A:I.168, A:F.172, A:F.172 Hydrogen bonds: A:Y.129, A:H.254, A:R.257, A:R.257 DHP.4: 12 residues within 4Å: Chain B: M.20, Y.24, A.79, M.83, W.108, Y.129, P.159, I.168, F.172, H.254, R.257 Ligands: FMN.3 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:Y.24, B:A.79, B:I.168, B:F.172, B:F.172 Hydrogen bonds: B:Y.129, B:H.254, B:R.257, B:R.257 DHP.6: 12 residues within 4Å: Chain C: M.20, Y.24, A.79, M.83, W.108, Y.129, P.159, I.168, F.172, H.254, R.257 Ligands: FMN.5 9 PLIP interactions: 9 interactions with chain C Hydrophobic interactions: C:Y.24, C:A.79, C:I.168, C:F.172, C:F.172 Hydrogen bonds: C:Y.129, C:H.254, C:R.257, C:R.257 DHP.8: 12 residues within 4Å: Chain D: M.20, Y.24, A.79, M.83, W.108, Y.129, P.159, I.168, F.172, H.254, R.257 Ligands: FMN.7 9 PLIP interactions: 9 interactions with chain D Hydrophobic interactions: D:Y.24, D:A.79, D:I.168, D:F.172, D:F.172 Hydrogen bonds: D:Y.129, D:H.254, D:R.257, D:R.257

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Stenberg, K. et al., Three-dimensional structures of glycolate oxidase with bound active-site inhibitors. Protein Sci. (1997)

Release Date

1997-09-17

Peptides

GLYCOLATE OXIDASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

GLYCOLATE OXIDASE

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