SMTL ID : 3l66.1

Xenobiotic Reductase A - C25A Variant with Coumarin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.28 Å

Oligo State

homo-dimer

Ligands

12 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 6 residues within 4Å: Chain A: Y.336, V.344, K.346, A.347, S.348, E.360 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:V.344, A:K.346, A:A.347, A:S.348 Water bridges: A:L.359 Salt bridges: A:K.346 SO4.2: 2 residues within 4Å: Chain A: Y.8, R.18 5 PLIP interactions: 5 interactions with chain A Water bridges: A:R.18, A:R.18, A:D.320, A:D.320 Salt bridges: A:R.18 SO4.3: 4 residues within 4Å: Chain A: R.291, K.295, L.296, P.297 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.291 Water bridges: A:K.256, A:R.291 Salt bridges: A:R.291 SO4.4: 4 residues within 4Å: Chain A: W.278, G.279, P.280, W.302 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.302 Water bridges: A:G.279 SO4.5: 3 residues within 4Å: Chain A: D.205, R.209, R.254 5 PLIP interactions: 5 interactions with chain A Water bridges: A:R.209, A:R.254, A:R.254 Salt bridges: A:R.209, A:R.254 SO4.6: 3 residues within 4Å: Chain A: P.68, R.111, R.125 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.111 Salt bridges: A:R.111, A:R.125 SO4.13: 6 residues within 4Å: Chain B: Y.336, V.344, K.346, A.347, S.348, E.360 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:V.344, B:K.346, B:A.347, B:S.348 Water bridges: B:L.359 Salt bridges: B:K.346 SO4.14: 2 residues within 4Å: Chain B: Y.8, R.18 5 PLIP interactions: 5 interactions with chain B Water bridges: B:R.18, B:R.18, B:D.320, B:D.320 Salt bridges: B:R.18 SO4.15: 4 residues within 4Å: Chain B: R.291, K.295, L.296, P.297 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.291 Water bridges: B:K.256, B:R.291 Salt bridges: B:R.291 SO4.16: 4 residues within 4Å: Chain B: W.278, G.279, P.280, W.302 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:W.302 Water bridges: B:G.279 SO4.17: 3 residues within 4Å: Chain B: D.205, R.209, R.254 5 PLIP interactions: 5 interactions with chain B Water bridges: B:R.209, B:R.254, B:R.254 Salt bridges: B:R.209, B:R.254 SO4.18: 3 residues within 4Å: Chain B: P.68, R.111, R.125 3 PLIP interactions: 3 interactions with chain B Water bridges: B:R.111 Salt bridges: B:R.111, B:R.125

4 x BU3: (R,R)-2,3-BUTANEDIOL(Non-covalent)

BU3.7: 9 residues within 4Å: Chain A: F.189, S.190, E.191, H.192, R.207, R.240, Q.243, T.244, E.247 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.189, A:T.244, A:E.247 Hydrogen bonds: A:S.190, A:E.191, A:E.191, A:R.240, A:R.240 Water bridges: A:H.192 BU3.12: 9 residues within 4Å: Chain A: V.13, T.14, L.15, K.90, G.93, S.94, V.95, P.96, E.173 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.95 Hydrogen bonds: A:E.173 BU3.19: 9 residues within 4Å: Chain B: F.189, S.190, E.191, H.192, R.207, R.240, Q.243, T.244, E.247 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:F.189, B:T.244, B:E.247 Hydrogen bonds: B:S.190, B:E.191, B:E.191, B:R.240, B:R.240 Water bridges: B:H.192 BU3.24: 9 residues within 4Å: Chain B: V.13, T.14, L.15, K.90, G.93, S.94, V.95, P.96, E.173 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:V.95 Hydrogen bonds: B:E.173

6 x COU: COUMARIN(Non-covalent)

COU.8: 10 residues within 4Å: Chain A: A.25, Y.27, A.57, I.66, P.112, H.178, H.181, Y.183 Chain B: W.358 Ligands: FMN.11 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:W.358, A:I.66 Salt bridges: A:H.178, A:H.181 COU.9: 7 residues within 4Å: Chain A: R.326, A.327, A.330 Chain B: Y.336, K.340, W.358, L.359 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:R.326, A:A.330, B:L.359 COU.10: 7 residues within 4Å: Chain A: M.28, D.36, W.37 Chain B: R.47, A.91, A.92, P.352 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B pi-Stacking: A:W.37, A:W.37 Hydrophobic interactions: B:A.91, B:P.352 COU.20: 10 residues within 4Å: Chain A: W.358 Chain B: A.25, Y.27, A.57, I.66, P.112, H.178, H.181, Y.183 Ligands: FMN.23 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:I.66, A:W.358 Salt bridges: B:H.178, B:H.181 COU.21: 7 residues within 4Å: Chain A: Y.336, K.340, W.358, L.359 Chain B: R.326, A.327, A.330 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:R.326, B:A.330, A:L.359 COU.22: 7 residues within 4Å: Chain A: R.47, A.91, A.92, P.352 Chain B: M.28, D.36, W.37 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:A.91, A:P.352 pi-Stacking: B:W.37, B:W.37

2 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.11: 22 residues within 4Å: Chain A: P.22, P.23, M.24, A.25, Q.26, Y.27, E.56, A.57, Q.99, H.178, H.181, R.231, A.301, W.302, G.303, F.304, V.324, G.325, R.326, L.329 Chain B: W.358 Ligands: COU.8 23 PLIP interactions: 22 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:M.24, A:R.326, A:L.329, B:W.358 Hydrogen bonds: A:A.25, A:A.57, A:Q.99, A:Q.99, A:H.178, A:H.181, A:R.231, A:R.231, A:W.302, A:G.303, A:G.325, A:R.326, A:R.326 Water bridges: A:F.304, A:G.305, A:G.305, A:R.326, A:R.326 Salt bridges: A:R.326 FMN.23: 22 residues within 4Å: Chain A: W.358 Chain B: P.22, P.23, M.24, A.25, Q.26, Y.27, E.56, A.57, Q.99, H.178, H.181, R.231, A.301, W.302, G.303, F.304, V.324, G.325, R.326, L.329 Ligands: COU.20 23 PLIP interactions: 22 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:M.24, B:R.326, B:L.329, A:W.358 Hydrogen bonds: B:A.25, B:A.57, B:Q.99, B:Q.99, B:H.178, B:H.181, B:R.231, B:R.231, B:W.302, B:G.303, B:G.325, B:R.326, B:R.326 Water bridges: B:F.304, B:G.305, B:G.305, B:R.326, B:R.326 Salt bridges: B:R.326

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Spiegelhauer, O. et al., Cysteine as a modulator residue in the active site of xenobiotic reductase A: a structural, thermodynamic and kinetic study. J.Mol.Biol. (2010)

Release Date

2010-03-23

Peptides

Xenobiotic reductase A: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Xenobiotic reductase A

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