SMTL ID : 1rm6.1

Structure of 4-hydroxybenzoyl-CoA reductase from Thauera aromatica

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

hetero-2-2-2-mer

Ligands

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 5 residues within 4Å: Chain A: R.285, G.361, T.362, V.363, D.364 Ligand excluded by PLIP CL.11: 5 residues within 4Å: Chain D: R.285, G.361, T.362, V.363, D.364 Ligand excluded by PLIP

2 x NA: SODIUM ION(Non-functional Binders)

NA.2: 3 residues within 4Å: Chain A: E.63, L.65, V.68 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:V.68, A:V.68 Water bridges: A:G.67 NA.13: 3 residues within 4Å: Chain D: E.63, L.65, V.68 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:E.63 Water bridges: D:G.67

2 x PCD: (MOLYBDOPTERIN-CYTOSINE DINUCLEOTIDE-S,S)-DIOXO-AQUA-MOLYBDENUM(V)(Non-covalent)

PCD.3: 36 residues within 4Å: Chain A: Q.214, G.243, G.244, F.245, G.246, T.249, M.357, R.358, I.481, G.482, Q.483, G.484, S.485, S.520, Y.521, S.522, S.523, R.524, V.525, T.526, V.650, K.652, A.653, L.654, N.655, A.658, V.659, Q.662, A.721, K.722, E.723, A.724, S.725, E.726 Chain C: Q.99, C.137 27 PLIP interactions: 26 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: A:T.526, A:A.724 Hydrogen bonds: A:Q.214, A:G.244, A:F.245, A:G.482, A:Q.483, A:G.484, A:S.522, A:V.525, A:T.526, A:T.526, A:K.652, A:L.654, A:N.655, A:Q.662, A:Q.662, A:K.722, A:A.724, A:S.725, A:E.726 Water bridges: A:R.358, A:H.360, A:G.484, A:T.526, A:F.527, C:Q.99 PCD.15: 36 residues within 4Å: Chain D: Q.214, G.243, G.244, F.245, G.246, T.249, M.357, R.358, I.481, G.482, Q.483, G.484, S.485, S.520, Y.521, S.522, S.523, R.524, V.525, T.526, V.650, K.652, A.653, L.654, N.655, A.658, V.659, Q.662, A.721, K.722, E.723, A.724, S.725, E.726 Chain F: Q.99, C.137 26 PLIP interactions: 26 interactions with chain D Hydrophobic interactions: D:T.526, D:A.724 Hydrogen bonds: D:Q.214, D:G.244, D:F.245, D:G.482, D:Q.483, D:G.484, D:S.522, D:V.525, D:T.526, D:T.526, D:K.652, D:L.654, D:N.655, D:Q.662, D:Q.662, D:K.722, D:A.724, D:S.725, D:E.726 Water bridges: D:T.249, D:R.358, D:H.360, D:G.484, D:T.526

4 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.4: 9 residues within 4Å: Chain A: T.450, P.451, H.453, W.454, T.455, G.456, H.459, Q.605, K.608 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.455, A:G.456 Water bridges: A:E.457, A:D.607, A:I.610 EPE.5: 5 residues within 4Å: Chain A: F.170, A.171, A.173, D.174, I.176 2 PLIP interactions: 2 interactions with chain A Water bridges: A:A.171, A:A.171 EPE.6: 6 residues within 4Å: Chain A: E.660, Q.664, I.705, E.706, V.707 Chain C: K.145 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:Q.664, A:I.705, A:V.707, C:K.145 Water bridges: A:E.660 EPE.16: 5 residues within 4Å: Chain D: R.53, K.97, I.145, A.146, D.149 5 PLIP interactions: 5 interactions with chain D Water bridges: D:K.97 Salt bridges: D:R.53, D:K.97, D:D.149, D:D.149

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

FAD.7: 33 residues within 4Å: Chain B: P.29, L.30, G.31, A.32, G.33, T.34, D.35, L.36, L.53, A.74, L.78, V.101, A.102, A.110, T.111, G.113, G.114, N.115, C.117, Q.118, H.160, G.161, D.162, L.201, L.206, L.207, K.224, V.231, D.232, F.233 Chain C: G.43, G.44, E.45 28 PLIP interactions: 1 interactions with chain C, 27 interactions with chain B Hydrophobic interactions: C:E.45, B:V.231, B:F.233, B:F.233 Hydrogen bonds: B:P.29, B:G.31, B:A.32, B:G.33, B:T.34, B:T.34, B:T.34, B:D.35, B:L.36, B:A.102, B:T.111, B:N.115, B:Q.118, B:D.162, B:D.162, B:L.207, B:L.207, B:K.224 Water bridges: B:T.111, B:G.113, B:D.119 pi-Stacking: B:F.233, B:F.233 pi-Cation interactions: B:H.106 FAD.17: 31 residues within 4Å: Chain E: P.29, L.30, G.31, A.32, G.33, T.34, D.35, L.36, L.53, A.74, L.78, V.101, A.102, A.110, T.111, G.113, G.114, N.115, C.117, Q.118, H.160, G.161, D.162, L.201, L.206, L.207, K.224, V.231, D.232, F.233 Chain F: G.44 28 PLIP interactions: 28 interactions with chain E Hydrophobic interactions: E:A.102, E:V.231, E:F.233, E:F.233 Hydrogen bonds: E:P.29, E:G.31, E:A.32, E:G.33, E:G.33, E:T.34, E:T.34, E:D.35, E:L.36, E:A.102, E:T.111, E:N.115, E:Q.118, E:D.162, E:D.162, E:D.162, E:L.207, E:L.207, E:K.224 Water bridges: E:T.111, E:G.113, E:D.119 pi-Stacking: E:F.233 pi-Cation interactions: E:H.106

2 x SF4: IRON/SULFUR CLUSTER(Non-covalent)

SF4.8: 11 residues within 4Å: Chain B: C.122, F.124, Y.125, C.138, K.140, C.146, H.147, V.148, C.155, Y.156, A.157 4 PLIP interactions: 4 interactions with chain B, Metal complexes: B:C.122, B:C.138, B:C.146, B:C.155 SF4.18: 11 residues within 4Å: Chain E: C.122, F.124, Y.125, C.138, L.139, K.140, C.146, H.147, C.155, Y.156, A.157 4 PLIP interactions: 4 interactions with chain E, Metal complexes: E:C.122, E:C.138, E:C.146, E:C.155

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

FES.9: 8 residues within 4Å: Chain A: M.191 Chain C: Q.99, C.100, G.101, C.103, C.135, R.136, C.137 4 PLIP interactions: 4 interactions with chain C, Metal complexes: C:C.100, C:C.103, C:C.135, C:C.137 FES.10: 9 residues within 4Å: Chain C: Q.39, G.40, C.41, G.44, E.45, C.46, G.47, C.49, C.61 4 PLIP interactions: 4 interactions with chain C, Metal complexes: C:C.41, C:C.46, C:C.49, C:C.61 FES.19: 8 residues within 4Å: Chain D: M.191 Chain F: Q.99, C.100, G.101, C.103, C.135, R.136, C.137 4 PLIP interactions: 4 interactions with chain F, Metal complexes: F:C.100, F:C.103, F:C.135, F:C.137 FES.20: 9 residues within 4Å: Chain F: Q.39, G.40, C.41, G.44, E.45, C.46, G.47, C.49, C.61 4 PLIP interactions: 4 interactions with chain F, Metal complexes: F:C.41, F:C.46, F:C.49, F:C.61

1 x K: POTASSIUM ION(Non-covalent)

K.12: 4 residues within 4Å: Chain D: K.141, A.142, A.144, P.152 5 PLIP interactions: 2 interactions with chain D, 3 Ligand-Water interactions Metal complexes: D:A.144, D:P.152, H2O.49, H2O.57, H2O.63

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

SO4.14: 5 residues within 4Å: Chain D: A.32, D.33, I.34, R.270 Chain F: R.29 6 PLIP interactions: 4 interactions with chain D, 2 interactions with chain F Hydrogen bonds: D:I.34, F:R.29 Water bridges: D:A.36, D:R.270, F:E.30 Salt bridges: D:R.270

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Unciuleac, M. et al., Structure of a Xanthine Oxidase-Related 4-Hydroxybenzoyl-CoA Reductase with an Additional [4Fe-4S] Cluster and an Inverted Electron Flow. Structure (2004)

Release Date

2004-12-21

Peptides

4-hydroxybenzoyl-CoA reductase alpha subunit: AD
4-hydroxybenzoyl-CoA reductase beta subunit: BE
4-hydroxybenzoyl-CoA reductase gamma subunit: CF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

D
D

B
B

E
E

C
C

F
F

4-hydroxybenzoyl-CoA reductase alpha subunit

4-hydroxybenzoyl-CoA reductase beta subunit

4-hydroxybenzoyl-CoA reductase gamma subunit

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