SMTL ID : 8cff.1 (3 other biounits)

Crystal structure of arsenite oxidase from Alcaligenes faecalis (Af Aio) bound to arsenite

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.57 Å

Oligo State

hetero-1-1-mer

Ligands

2 x MGD: 2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE GUANOSINE DINUCLEOTIDE(Non-covalent)

MGD.1: 34 residues within 4Å: Chain A: G.168, H.193, N.194, K.383, W.387, H.421, W.453, G.454, C.455, N.456, N.457, T.460, I.511, N.512, L.513, Y.514, T.516, A.528, A.529, H.530, D.561, N.698, R.700, Q.706, T.707, Y.709, F.772, Q.779, T.783, Y.795, K.796 Ligands: MGD.2, MO.3, AST.7 23 PLIP interactions: 23 interactions with chain A Hydrogen bonds: A:G.168, A:N.456, A:N.456, A:N.457, A:T.460, A:T.460, A:I.511, A:N.512, A:L.513, A:N.698, A:N.698, A:R.700, A:R.700, A:Q.706, A:T.707, A:K.796 Water bridges: A:N.173, A:N.173, A:T.707, A:Y.709, A:Y.709 Salt bridges: A:D.561 pi-Stacking: A:Y.795 MGD.2: 36 residues within 4Å: Chain A: C.22, R.99, G.230, N.231, N.232, E.235, S.236, Q.237, V.274, D.275, P.276, R.277, T.279, I.299, G.302, D.304, E.382, K.383, G.384, I.385, G.419, G.420, H.421, W.695, N.697, G.699, R.700, N.701, N.702, V.704, W.705, Q.706, K.796 Ligands: MGD.1, MO.3, AST.7 26 PLIP interactions: 26 interactions with chain A Hydrogen bonds: A:G.230, A:N.231, A:N.232, A:E.235, A:S.236, A:S.236, A:S.236, A:Q.237, A:V.274, A:R.277, A:R.277, A:G.302, A:K.383, A:N.697, A:R.700, A:R.700, A:V.704, A:Q.706, A:Q.706 Water bridges: A:N.232, A:D.304, A:D.304, A:N.701 Salt bridges: A:D.304, A:R.700, A:K.796

1 x MO: MOLYBDENUM ATOM(Non-covalent)

MO.3: 6 residues within 4Å: Chain A: N.194, K.383, R.700 Ligands: MGD.1, MGD.2, AST.7 Ligand excluded by PLIP

1 x F3S: FE3-S4 CLUSTER(Non-covalent)

F3S.4: 11 residues within 4Å: Chain A: C.19, F.21, C.22, G.25, C.26, Y.28, S.97, R.99, G.100, T.238, N.239 3 PLIP interactions: 3 interactions with chain A, Metal complexes: A:C.19, A:C.22, A:C.26

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.5: 9 residues within 4Å: Chain A: D.163, R.195, Y.198, N.199, S.200, R.206, E.423, Y.425, Q.618 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:D.163, A:R.195, A:R.206, A:R.206 Water bridges: A:D.163, A:D.163, A:E.201, A:R.417, A:E.423, A:Y.425

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 8 residues within 4Å: Chain A: V.90, V.91, A.216, Y.217, E.218, H.244, E.542, R.544 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:V.90, A:Y.217, A:E.218, A:E.542, A:R.544

1 x AST: ARSENITE(Non-covalent)

AST.7: 10 residues within 4Å: Chain A: H.164, H.193, N.194, E.201, K.383, R.417, H.421 Ligands: MGD.1, MGD.2, MO.3 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:N.194, A:E.201, A:K.383, A:R.417, A:R.417, A:H.421 Water bridges: A:D.163, A:R.195, A:G.420, A:Q.422

7 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.8: 2 residues within 4Å: Chain A: S.634 Ligands: EDO.9 2 PLIP interactions: 2 interactions with chain A Water bridges: A:D.86, A:D.86 EDO.9: 6 residues within 4Å: Chain A: D.86, S.634, G.635, N.636, N.637 Ligands: EDO.8 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.86, A:S.634, A:N.636, A:N.636, A:N.637 EDO.11: 5 residues within 4Å: Chain A: D.152, Q.155, K.446, G.447, R.448 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.152, A:G.447 EDO.12: 4 residues within 4Å: Chain A: R.206, G.211, Y.659, D.665 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.206, A:D.665 Water bridges: A:G.211, A:E.212 EDO.14: 4 residues within 4Å: Chain A: R.286, H.287, G.290, N.291 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.287, A:N.291 Water bridges: A:D.292 EDO.15: 5 residues within 4Å: Chain A: D.390, Y.392, V.393, D.788, R.789 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.789, A:R.789 Water bridges: A:N.679 EDO.16: 6 residues within 4Å: Chain A: E.703, M.717, R.720 Chain B: Q.93, M.94, N.102 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:M.94, B:M.94, B:N.102

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.10: 4 residues within 4Å: Chain A: D.135, H.136, A.139, T.490 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.490 PEG.17: 6 residues within 4Å: Chain A: L.59, S.93, G.94, L.95 Chain B: M.64, H.82 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:H.82 Water bridges: A:L.59

1 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.13: 5 residues within 4Å: Chain A: E.212, L.213, M.539, R.543, Q.618 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.213 Hydrogen bonds: A:Q.618 Water bridges: A:R.206

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

FES.18: 10 residues within 4Å: Chain B: C.61, H.63, M.64, G.65, C.66, C.79, C.81, H.82, F.83, T.84 4 PLIP interactions: 4 interactions with chain B, Metal complexes: B:C.61, B:H.63, B:C.79, B:H.82

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Engrola, F. et al., Arsenite oxidase in complex with antimonite and arsenite oxyanions: Insights into the catalytic mechanism. J.Biol.Chem. (2023)

Release Date

2023-07-12

Peptides

Arsenite oxidase subunit AioA: A
Arsenite oxidase subunit AioB: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Arsenite oxidase subunit AioA

Arsenite oxidase subunit AioB

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