SMTL ID : 1gqh.2 (1 other biounit)

Quercetin 2,3-dioxygenase in complex with the inhibitor kojic acid

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.15 Å

Oligo State

homo-dimer

Ligands

1 x NAG- NAG- MAN: alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-MAN.1: 7 residues within 4Å: Chain A: V.190, N.191 Chain B: Q.83, R.186, T.187, D.188, T.189 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.189, B:T.189

1 x NAG- NAG- MAN- MAN: alpha-D-mannopyranose-(1-3)-alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-MAN-MAN.2: 7 residues within 4Å: Chain A: Q.83, T.184, T.187, D.188, T.189 Chain B: V.190, N.191 1 PLIP interactions: 1 interactions with chain A Water bridges: A:P.185, A:P.185 Hydrogen bonds: A:T.189

2 x KOJ: 5-HYDROXY-2-(HYDROXYMETHYL)-4H-PYRAN-4-ONE(Non-covalent)

KOJ.3: 11 residues within 4Å: Chain A: Y.35, T.53, H.66, H.68, E.73, F.75, H.112, F.114, M.123, F.136 Ligands: CU.4 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.114 Hydrogen bonds: A:T.53 Water bridges: A:T.53 pi-Stacking: A:F.75 KOJ.9: 14 residues within 4Å: Chain B: Y.35, M.51, T.53, V.63, H.66, H.68, E.73, F.75, H.112, F.114, M.123, F.132, F.136 Ligands: CU.10 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:F.114 Hydrogen bonds: B:T.53, B:T.53 pi-Stacking: B:F.75

2 x CU: COPPER (II) ION(Non-covalent)

CU.4: 5 residues within 4Å: Chain A: H.66, H.68, E.73, H.112 Ligands: KOJ.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.66, A:H.68, A:E.73, A:H.112 CU.10: 5 residues within 4Å: Chain B: H.66, H.68, E.73, H.112 Ligands: KOJ.9 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.66, B:H.68, B:E.73, B:H.112

7 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.5: 2 residues within 4Å: Chain A: R.108, N.109 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.109 Water bridges: A:Q.69 NAG.6: 4 residues within 4Å: Chain A: N.248, G.272, S.325, G.326 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.248 Water bridges: A:P.271, A:A.273, A:A.273, A:S.325, A:S.327 NAG.7: 3 residues within 4Å: Chain A: N.142, A.143, T.144 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.142, A:T.144 NAG.8: 1 residues within 4Å: Chain A: N.90 No protein-ligand interaction detected (PLIP) NAG.11: 3 residues within 4Å: Chain B: Q.69, R.108, N.109 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.109 NAG.12: 4 residues within 4Å: Chain B: N.248, G.272, S.325, G.326 2 PLIP interactions: 2 interactions with chain B Water bridges: B:A.273, B:S.325 NAG.13: 3 residues within 4Å: Chain B: R.26, Y.137, N.142 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.142 Water bridges: B:Y.137

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Steiner, R.A. et al., Functional Analysis of the Copper-Dependent Quercetin 2,3-Dioxygenase.1.Ligand-Induced Coordination Changes Probed by X-Ray Crystallography: Inhibition, Ordering Effect and Mechanistic Insights. Biochemistry (2002)

Release Date

2002-06-21

Peptides

QUERCETIN 2,3-DIOXYGENASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

QUERCETIN 2,3-DIOXYGENASE

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