SMTL ID : 1fiq.1

CRYSTAL STRUCTURE OF XANTHINE OXIDASE FROM BOVINE MILK

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

hetero-2-2-2-mer

Ligands

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

FES.1: 8 residues within 4Å: Chain A: Q.112, C.113, G.114, C.116, C.148, R.149, C.150 Chain C: L.175 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.113, A:C.116, A:C.148, A:C.150 FES.2: 10 residues within 4Å: Chain A: G.42, C.43, G.44, G.46, G.47, C.48, G.49, C.51, N.71, C.73 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.43, A:C.48, A:C.51, A:C.73 FES.8: 8 residues within 4Å: Chain D: Q.112, C.113, G.114, C.116, C.148, R.149, C.150 Chain F: L.175 4 PLIP interactions: 4 interactions with chain D, Metal complexes: D:C.113, D:C.116, D:C.148, D:C.150 FES.9: 10 residues within 4Å: Chain D: G.42, C.43, G.44, G.46, G.47, C.48, G.49, C.51, N.71, C.73 4 PLIP interactions: 4 interactions with chain D, Metal complexes: D:C.43, D:C.48, D:C.51, D:C.73

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

FAD.3: 31 residues within 4Å: Chain A: E.45, G.46, G.47, L.74 Chain B: K.37, L.38, V.39, V.40, G.41, N.42, T.43, E.44, I.45, L.68, A.82, F.118, A.119, V.123, V.126, A.127, S.128, G.131, N.132, I.134, T.135, S.140, D.141, L.142, L.179, I.184, L.185 29 PLIP interactions: 28 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:A.119, B:V.123, B:V.123, A:L.74 Hydrogen bonds: B:L.38, B:L.38, B:L.38, B:V.40, B:G.41, B:N.42, B:T.43, B:E.44, B:E.44, B:I.45, B:A.119, B:S.128, B:T.135, B:D.141, B:D.141, B:D.141, B:L.142, B:L.185, B:L.185 Water bridges: B:S.128, B:T.135, B:K.214, B:K.214, B:K.214 pi-Stacking: B:F.118 FAD.10: 31 residues within 4Å: Chain D: E.45, G.46, G.47, L.74 Chain E: K.37, L.38, V.39, V.40, G.41, N.42, T.43, E.44, I.45, L.68, A.82, F.118, A.119, V.123, V.126, A.127, S.128, G.131, N.132, I.134, T.135, S.140, D.141, L.142, L.179, I.184, L.185 29 PLIP interactions: 28 interactions with chain E, 1 interactions with chain D Hydrophobic interactions: E:A.119, E:V.123, E:V.123, D:L.74 Hydrogen bonds: E:L.38, E:L.38, E:L.38, E:V.40, E:G.41, E:N.42, E:T.43, E:T.43, E:E.44, E:E.44, E:E.44, E:I.45, E:A.119, E:S.128, E:D.141, E:D.141, E:L.142, E:L.185, E:L.185 Water bridges: E:S.128, E:T.135, E:K.214, E:K.214, E:K.214 pi-Stacking: E:F.118

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.4: 19 residues within 4Å: Chain A: Q.112, C.150 Chain C: G.227, G.228, F.229, G.230, R.343, M.469, G.470, Q.471, A.509, A.510, S.511, V.512, S.513, Q.625, G.691, E.692 Ligands: MOS.5 13 PLIP interactions: 12 interactions with chain C, 1 interactions with chain A Hydrogen bonds: C:G.228, C:F.229, C:M.469, C:Q.471, C:S.513, C:S.513, C:S.513, C:T.514, C:Q.625, C:Q.625, A:Q.112 Water bridges: C:R.343, C:G.691 MTE.11: 19 residues within 4Å: Chain D: Q.112, C.150 Chain F: G.227, G.228, F.229, G.230, R.343, M.469, G.470, Q.471, A.509, A.510, S.511, V.512, S.513, Q.625, G.691, E.692 Ligands: MOS.12 15 PLIP interactions: 14 interactions with chain F, 1 interactions with chain D Hydrogen bonds: F:G.228, F:F.229, F:M.469, F:Q.471, F:S.513, F:S.513, F:S.513, F:T.514, F:Q.625, F:Q.625, D:Q.112 Water bridges: F:R.343, F:T.514, F:T.514, F:G.691

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

MOS.5: 13 residues within 4Å: Chain C: Q.198, F.229, G.230, E.233, A.341, F.342, R.343, T.508, A.509, A.510, E.692 Ligands: MTE.4, SAL.6 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:A.510, C:E.692 MOS.12: 13 residues within 4Å: Chain F: Q.198, F.229, G.230, E.233, A.341, F.342, R.343, T.508, A.509, A.510, E.692 Ligands: MTE.11, SAL.13 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:A.510

2 x SAL: 2-HYDROXYBENZOIC ACID(Non-covalent)

SAL.6: 11 residues within 4Å: Chain C: E.233, L.304, R.311, F.345, S.439, F.440, T.441, V.442, L.445, A.510 Ligands: MOS.5 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:L.304, C:L.445 Hydrogen bonds: C:T.441, C:T.441, C:V.442 Salt bridges: C:R.311 pi-Stacking: C:F.345, C:F.440 SAL.13: 11 residues within 4Å: Chain F: E.233, L.304, R.311, F.345, S.439, F.440, T.441, V.442, L.445, A.510 Ligands: MOS.12 8 PLIP interactions: 8 interactions with chain F Hydrophobic interactions: F:L.304, F:L.445 Hydrogen bonds: F:T.441, F:T.441, F:V.442 Salt bridges: F:R.311 pi-Stacking: F:F.345, F:F.440

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 10 residues within 4Å: Chain C: R.270, H.271, I.308, T.340, A.341, F.342, G.344, F.345, G.346, Q.349 7 PLIP interactions: 7 interactions with chain C Hydrogen bonds: C:R.270, C:R.270, C:H.271, C:F.342, C:F.342, C:G.346, C:Q.349 GOL.14: 10 residues within 4Å: Chain F: R.270, H.271, I.308, T.340, A.341, F.342, G.344, F.345, G.346, Q.349 7 PLIP interactions: 7 interactions with chain F Hydrogen bonds: F:R.270, F:R.270, F:H.271, F:F.342, F:F.342, F:G.346, F:Q.349

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Enroth, C. et al., Crystal structures of bovine milk xanthine dehydrogenase and xanthine oxidase: structure-based mechanism of conversion. Proc.Natl.Acad.Sci.USA (2000)

Release Date

2000-10-04

Peptides

XANTHINE OXIDASE: AD
XANTHINE OXIDASE: BE
XANTHINE OXIDASE: CF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

D
A

B
B

E
B

C
C

F
C

XANTHINE OXIDASE

XANTHINE OXIDASE

XANTHINE OXIDASE

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