SMTL ID : 1g8k.6 (5 other biounits)

CRYSTAL STRUCTURE ANALYSIS OF ARSENITE OXIDASE FROM ALCALIGENES FAECALIS

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.64 Å

Oligo State

hetero-2-2-mer

Ligands

6 x HG: MERCURY (II) ION(Non-covalent)

HG.1: 5 residues within 4Å: Chain A: E.203, C.204, T.207, Y.383, Q.397 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:C.204 HG.2: 4 residues within 4Å: Chain A: P.732, C.735, K.736, V.740 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:V.740, H2O.2 HG.12: 3 residues within 4Å: Chain A: Y.236, R.822 Chain B: C.95 3 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: B:C.95, A:R.822, H2O.34 HG.14: 5 residues within 4Å: Chain C: E.203, C.204, T.207, Y.383, Q.397 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:C.204 HG.15: 4 residues within 4Å: Chain C: P.732, C.735, K.736, V.740 3 PLIP interactions: 1 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:V.740, H2O.42, H2O.69 HG.25: 4 residues within 4Å: Chain C: Y.236, P.282, R.822 Chain D: C.95 3 PLIP interactions: 1 interactions with chain D, 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: D:C.95, C:R.822, H2O.76

4 x CA: CALCIUM ION(Non-covalent)

CA.3: 1 residues within 4Å: Chain A: G.825 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:G.825, H2O.31, H2O.31, H2O.38, H2O.38 CA.4: 5 residues within 4Å: Chain A: Q.467, R.470, S.754, D.783 Chain C: D.129 5 PLIP interactions: 2 interactions with chain A, 1 interactions with chain C, 2 Ligand-Water interactions Metal complexes: A:S.754, A:D.783, C:D.129, H2O.31, H2O.73 CA.16: 1 residues within 4Å: Chain C: G.825 5 PLIP interactions: 1 interactions with chain C, 4 Ligand-Water interactions Metal complexes: C:G.825, H2O.73, H2O.73, H2O.73, H2O.79 CA.17: 6 residues within 4Å: Chain A: D.129, E.130 Chain C: Q.467, R.470, S.754, D.783 5 PLIP interactions: 2 interactions with chain C, 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: C:S.754, C:D.783, A:D.129, H2O.31, H2O.73

4 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.5: 34 residues within 4Å: Chain A: G.170, H.195, N.196, K.385, W.389, H.423, W.455, G.456, C.457, N.458, N.459, T.462, I.513, N.514, L.515, Y.516, T.518, A.530, A.531, H.532, D.563, N.700, R.702, Q.708, T.709, Y.711, F.774, Q.781, T.785, Y.797, K.798 Ligands: MGD.6, O.7, 4MO.8 22 PLIP interactions: 22 interactions with chain A Hydrogen bonds: A:G.170, A:W.389, A:N.458, A:N.458, A:N.459, A:T.462, A:T.462, A:I.513, A:I.513, A:N.514, A:L.515, A:N.700, A:R.702, A:R.702, A:Q.708, A:T.709, A:T.709, A:K.798 Water bridges: A:N.175, A:N.175, A:T.709 Salt bridges: A:D.563 MGD.6: 36 residues within 4Å: Chain A: C.24, R.101, G.232, N.233, N.234, E.237, S.238, Q.239, V.276, D.277, P.278, R.279, T.281, I.301, G.304, D.306, E.384, K.385, G.386, I.387, G.421, G.422, H.423, W.697, N.699, G.701, R.702, N.703, N.704, V.706, W.707, Q.708, K.798 Ligands: MGD.5, O.7, 4MO.8 28 PLIP interactions: 28 interactions with chain A Hydrogen bonds: A:R.101, A:G.232, A:N.233, A:N.234, A:E.237, A:S.238, A:S.238, A:S.238, A:Q.239, A:V.276, A:V.276, A:R.279, A:R.279, A:G.304, A:K.385, A:N.699, A:R.702, A:R.702, A:Q.708, A:Q.708 Water bridges: A:N.234, A:D.306, A:D.306, A:N.703, A:Y.796 Salt bridges: A:D.306, A:R.702, A:K.798 MGD.18: 34 residues within 4Å: Chain C: G.170, H.195, N.196, K.385, W.389, H.423, W.455, G.456, C.457, N.458, N.459, T.462, I.513, N.514, L.515, Y.516, T.518, A.530, A.531, H.532, D.563, N.700, R.702, Q.708, T.709, Y.711, F.774, Q.781, T.785, Y.797, K.798 Ligands: MGD.19, O.20, 4MO.21 22 PLIP interactions: 22 interactions with chain C Hydrogen bonds: C:G.170, C:W.389, C:N.458, C:N.458, C:N.459, C:T.462, C:T.462, C:I.513, C:I.513, C:N.514, C:L.515, C:N.700, C:R.702, C:R.702, C:Q.708, C:T.709, C:K.798 Water bridges: C:N.175, C:N.175, C:T.709, C:Y.797 Salt bridges: C:D.563 MGD.19: 36 residues within 4Å: Chain C: C.24, R.101, G.232, N.233, N.234, E.237, S.238, Q.239, V.276, D.277, P.278, R.279, T.281, I.301, G.304, D.306, E.384, K.385, G.386, I.387, G.421, G.422, H.423, W.697, N.699, G.701, R.702, N.703, N.704, V.706, W.707, Q.708, K.798 Ligands: MGD.18, O.20, 4MO.21 26 PLIP interactions: 26 interactions with chain C Hydrogen bonds: C:R.101, C:G.232, C:N.233, C:N.234, C:E.237, C:S.238, C:S.238, C:S.238, C:Q.239, C:V.276, C:V.276, C:R.279, C:R.279, C:G.304, C:K.385, C:N.699, C:R.702, C:R.702, C:Q.708, C:Q.708 Water bridges: C:N.234, C:N.703, C:Y.796 Salt bridges: C:D.306, C:R.702, C:K.798

2 x O: OXYGEN ATOM(Non-covalent)

O.7: 7 residues within 4Å: Chain A: N.196, E.203, K.385, R.419 Ligands: MGD.5, MGD.6, 4MO.8 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.196, A:K.385, A:R.419 Water bridges: A:R.419, A:H.423, A:H.423 O.20: 6 residues within 4Å: Chain C: N.196, E.203, K.385 Ligands: MGD.18, MGD.19, 4MO.21 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:N.196, C:K.385, C:R.419 Water bridges: C:H.195, C:H.423

2 x 4MO: MOLYBDENUM(IV) ION(Non-covalent)

4MO.8: 6 residues within 4Å: Chain A: N.196, K.385, R.702 Ligands: MGD.5, MGD.6, O.7 No protein-ligand interaction detected (PLIP) 4MO.21: 6 residues within 4Å: Chain C: N.196, K.385, R.702 Ligands: MGD.18, MGD.19, O.20 No protein-ligand interaction detected (PLIP)

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

F3S.9: 12 residues within 4Å: Chain A: C.21, F.23, C.24, V.26, G.27, C.28, Y.30, S.99, R.101, G.102, T.240, N.241 3 PLIP interactions: 3 interactions with chain A, Metal complexes: A:C.21, A:C.24, A:C.28 F3S.22: 11 residues within 4Å: Chain C: C.21, F.23, C.24, G.27, C.28, Y.30, S.99, R.101, G.102, T.240, N.241 3 PLIP interactions: 3 interactions with chain C, Metal complexes: C:C.21, C:C.24, C:C.28

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

EDO.10: 8 residues within 4Å: Chain A: V.92, V.93, A.218, Y.219, E.220, H.246, E.544, R.546 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:V.92, A:Y.219, A:E.220, A:R.546 EDO.11: 6 residues within 4Å: Chain A: D.88, A.90, S.636, G.637, N.638, N.639 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.638, A:N.638, A:N.639, A:N.639 Water bridges: A:H.31 EDO.23: 8 residues within 4Å: Chain C: V.92, V.93, A.218, Y.219, E.220, H.246, E.544, R.546 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:V.92, C:Y.219, C:E.220, C:R.546 EDO.24: 6 residues within 4Å: Chain C: D.88, A.90, S.636, G.637, N.638, N.639 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:N.638, C:N.638, C:N.639, C:N.639 Water bridges: C:N.18, C:H.31

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

FES.13: 10 residues within 4Å: Chain B: C.60, H.62, M.63, G.64, C.65, C.78, C.80, H.81, F.82, T.83 4 PLIP interactions: 4 interactions with chain B, Metal complexes: B:C.60, B:H.62, B:C.78, B:H.81 FES.26: 10 residues within 4Å: Chain D: C.60, H.62, M.63, G.64, C.65, C.78, C.80, H.81, F.82, T.83 4 PLIP interactions: 4 interactions with chain D, Metal complexes: D:C.60, D:H.62, D:C.78, D:H.81

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ellis, P.J. et al., Crystal structure of the 100 kDa arsenite oxidase from Alcaligenes faecalis in two crystal forms at 1.64 A and 2.03 A. Structure (2001)

Release Date

2000-12-13

Peptides

ARSENITE OXIDASE: AC
ARSENITE OXIDASE: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

B
B

D
D

ARSENITE OXIDASE

ARSENITE OXIDASE

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