SMTL ID : 3etr.2 (2 other biounits)

Crystal structure of xanthine oxidase in complex with lumazine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

hetero-1-1-1-mer

Ligands

2 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 Chain C: L.174 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.112, A:C.115, A:C.147, A:C.149 FES.2: 10 residues within 4Å: Chain A: 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

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

FAD.3: 27 residues within 4Å: Chain A: E.44, G.45 Chain B: K.33, L.34, V.35, V.36, G.37, N.38, T.39, E.40, I.41, A.78, L.82, F.114, A.115, V.119, V.122, A.123, S.124, G.127, N.128, I.130, T.131, S.136, D.137, I.180, L.181 26 PLIP interactions: 26 interactions with chain B Hydrophobic interactions: B:A.115, B:V.119, B:V.119 Hydrogen bonds: B:L.34, B:L.34, B:V.36, B:G.37, B:N.38, B:T.39, B:E.40, B:I.41, B:A.115, B:S.124, B:N.128, B:D.137, B:D.137, B:L.181, B:L.181 Water bridges: B:T.39, B:E.40, B:T.131, B:R.203, B:K.210, B:K.210, B:K.210 pi-Stacking: B:F.114

1 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: 20 residues within 4Å: Chain A: Q.111, C.149 Chain C: G.226, G.227, F.228, G.229, R.342, M.468, G.469, Q.470, L.472, T.507, A.509, S.510, V.511, S.512, T.513, Q.624, E.691 Ligands: MOS.5 13 PLIP interactions: 12 interactions with chain C, 1 interactions with chain A Hydrogen bonds: C:G.227, C:F.228, C:M.468, C:Q.470, C:S.512, C:S.512, C:T.513, C:Q.624, C:Q.624, A:Q.111 Water bridges: C:R.342, C:R.342, C:T.513

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

MOS.5: 9 residues within 4Å: Chain C: Q.197, G.229, T.507, A.508, A.509, S.510, E.691 Ligands: MTE.4, LUZ.6 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:Q.197, C:G.229, C:A.509, C:S.510

1 x LUZ: pteridine-2,4(1H,3H)-dione(Non-covalent)

LUZ.6: 11 residues within 4Å: Chain C: E.232, L.303, S.306, R.310, F.344, F.439, T.440, V.441, L.444, A.509 Ligands: MOS.5 8 PLIP interactions: 8 interactions with chain C Hydrogen bonds: C:E.232, C:E.232, C:R.310, C:T.440, C:V.441 pi-Stacking: C:F.344, C:F.439, C:F.439

1 x CA: CALCIUM ION(Non-covalent)

CA.7: 5 residues within 4Å: Chain C: R.269, H.270, I.307, T.339, Q.348 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pauff, J.M. et al., Substrate Orientation and Catalysis at the Molybdenum Site in Xanthine Oxidase: CRYSTAL STRUCTURES IN COMPLEX WITH XANTHINE AND LUMAZINE. J.Biol.Chem. (2009)

Release Date

2009-01-27

Peptides

Xanthine dehydrogenase/oxidase: A
Xanthine dehydrogenase/oxidase: B
Xanthine dehydrogenase/oxidase: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Xanthine dehydrogenase/oxidase

Xanthine dehydrogenase/oxidase

Xanthine dehydrogenase/oxidase

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