SMTL ID : 1n5x.1

Xanthine Dehydrogenase from Bovine Milk with Inhibitor TEI-6720 Bound

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-dimer

Ligands

4 x FES: FE2/S2 (INORGANIC) CLUSTER(Non-covalent)

FES.1: 8 residues within 4Å: Chain A: Q.111, C.112, G.113, C.115, C.147, R.148, C.149, L.743 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.112, A:C.115, A:C.147, A:C.149 FES.2: 11 residues within 4Å: Chain A: L.40, G.41, C.42, G.43, G.45, G.46, C.47, G.48, C.50, N.70, C.72 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.42, A:C.47, A:C.50, A:C.72 FES.7: 8 residues within 4Å: Chain B: Q.111, C.112, G.113, C.115, C.147, R.148, C.149, L.743 4 PLIP interactions: 4 interactions with chain B, Metal complexes: B:C.112, B:C.115, B:C.147, B:C.149 FES.8: 11 residues within 4Å: Chain B: L.40, G.41, C.42, G.43, G.45, G.46, C.47, G.48, C.50, N.70, C.72 4 PLIP interactions: 4 interactions with chain B, Metal complexes: B:C.42, B:C.47, B:C.50, B:C.72

2 x MTE: PHOSPHONIC ACIDMONO-(2-AMINO-5,6-DIMERCAPTO-4-OXO-3,7,8A,9,10,10A-HEXAHYDRO-4H-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-7-YLMETHYL)ESTER(Non-covalent)

MTE.3: 21 residues within 4Å: Chain A: Q.111, C.149, G.795, G.796, F.797, G.798, R.911, M.1037, G.1038, Q.1039, T.1076, A.1077, A.1078, S.1079, V.1080, S.1081, T.1082, Q.1193, G.1259, E.1260 Ligands: MOS.4 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:Q.111, A:G.796, A:F.797, A:M.1037, A:Q.1039, A:S.1081, A:S.1081, A:T.1082, A:Q.1193, A:Q.1193 MTE.9: 21 residues within 4Å: Chain B: Q.111, C.149, G.795, G.796, F.797, G.798, R.911, M.1037, G.1038, Q.1039, T.1076, A.1077, A.1078, S.1079, V.1080, S.1081, T.1082, Q.1193, G.1259, E.1260 Ligands: MOS.10 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:Q.111, B:G.796, B:F.797, B:M.1037, B:Q.1039, B:S.1081, B:S.1081, B:T.1082, B:T.1082, B:Q.1193, B:Q.1193

2 x MOS: DIOXOTHIOMOLYBDENUM(VI) ION(Non-covalent)

MOS.4: 11 residues within 4Å: Chain A: Q.766, F.797, G.798, E.801, F.910, R.911, A.1077, A.1078, E.1260 Ligands: MTE.3, TEI.6 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:F.797, A:E.801, A:A.1078, A:E.1260 MOS.10: 11 residues within 4Å: Chain B: Q.766, F.797, G.798, E.801, F.910, R.911, A.1077, A.1078, E.1260 Ligands: MTE.9, TEI.12 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.801, B:A.1078

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

FAD.5: 31 residues within 4Å: Chain A: E.44, G.45, G.46, L.73, K.255, L.256, V.257, V.258, G.259, N.260, T.261, E.262, I.263, A.300, W.335, F.336, A.337, V.341, A.345, S.346, G.349, N.350, I.352, T.353, S.358, D.359, I.402, L.403, K.421, D.428, D.429 26 PLIP interactions: 26 interactions with chain A Hydrophobic interactions: A:L.73, A:A.337, A:V.341 Hydrogen bonds: A:K.255, A:L.256, A:L.256, A:L.256, A:V.258, A:G.259, A:N.260, A:T.261, A:T.261, A:E.262, A:E.262, A:I.263, A:A.337, A:S.346, A:N.350, A:T.353, A:D.359, A:D.359, A:D.359, A:L.403, A:L.403, A:K.421 pi-Stacking: A:F.336 FAD.11: 31 residues within 4Å: Chain B: E.44, G.45, G.46, L.73, K.255, L.256, V.257, V.258, G.259, N.260, T.261, E.262, I.263, A.300, W.335, F.336, A.337, V.341, A.345, S.346, G.349, N.350, I.352, T.353, S.358, D.359, I.402, L.403, K.421, D.428, D.429 25 PLIP interactions: 25 interactions with chain B Hydrophobic interactions: B:L.73, B:A.337, B:V.341 Hydrogen bonds: B:K.255, B:L.256, B:L.256, B:L.256, B:V.258, B:G.259, B:N.260, B:T.261, B:E.262, B:E.262, B:E.262, B:I.263, B:A.337, B:S.346, B:N.350, B:T.353, B:D.359, B:D.359, B:L.403, B:L.403, B:K.421 pi-Stacking: B:F.336

2 x TEI: 2-(3-CYANO-4-ISOBUTOXY-PHENYL)-4-METHYL-5-THIAZOLE-CARBOXYLIC ACID(Non-covalent)

TEI.6: 17 residues within 4Å: Chain A: L.647, N.767, K.770, E.801, L.872, S.875, R.879, F.913, S.1007, F.1008, T.1009, V.1010, L.1013, P.1075, A.1077, A.1078 Ligands: MOS.4 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:L.647, A:L.647, A:L.872, A:F.913, A:V.1010, A:L.1013, A:A.1077 Hydrogen bonds: A:N.767, A:K.770, A:T.1009, A:T.1009 Salt bridges: A:R.879 pi-Stacking: A:F.1008 TEI.12: 17 residues within 4Å: Chain B: L.647, N.767, K.770, E.801, L.872, S.875, R.879, F.913, S.1007, F.1008, T.1009, V.1010, L.1013, P.1075, A.1077, A.1078 Ligands: MOS.10 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:L.647, B:L.647, B:L.872, B:F.913, B:V.1010, B:L.1013, B:A.1077 Hydrogen bonds: B:N.767, B:K.770, B:T.1009, B:T.1009 Salt bridges: B:R.879 pi-Stacking: B:F.1008

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Okamoto, K. et al., An Extremely Potent Inhibitor of Xanthine Oxidoreductase: Crystal Structure of the Enzyme-Inhibitor Complex and Mechanism of Inhibition. J.BIOL.CHEM. (2003)

Release Date

2003-03-18

Peptides

Xanthine Dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Xanthine Dehydrogenase