SMTL ID : 4urf.1

Molecular Genetic and Crystal Structural Analysis of 1-(4- Hydroxyphenyl)-Ethanol Dehydrogenase from Aromatoleum aromaticum EbN1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.10 Å

Oligo State

homo-tetramer

Ligands

4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.1: 26 residues within 4Å: Chain A: G.12, G.14, N.15, G.16, I.17, D.36, I.37, W.41, A.61, D.62, T.63, N.89, A.90, G.91, I.113, I.140, S.141, S.142, Y.155, K.159, P.185, A.186, F.187, I.188, T.190 Ligands: ACT.2 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:P.185 Hydrogen bonds: A:G.12, A:G.14, A:N.15, A:I.17, A:I.37, A:D.62, A:D.62, A:T.63, A:N.89, A:Y.155, A:K.159, A:I.188, A:T.190, A:T.190 Water bridges: A:G.18, A:N.89 NAD.10: 27 residues within 4Å: Chain B: G.12, G.14, N.15, G.16, I.17, D.36, I.37, W.41, A.61, D.62, T.63, N.89, A.90, G.91, I.92, I.113, I.140, S.141, S.142, Y.155, K.159, P.185, A.186, F.187, I.188, T.190 Ligands: ACT.11 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:P.185 Hydrogen bonds: B:G.12, B:G.14, B:I.17, B:I.37, B:D.62, B:T.63, B:N.89, B:K.159, B:I.188, B:T.190 Water bridges: B:G.18, B:N.89, B:T.190, B:T.190 NAD.16: 26 residues within 4Å: Chain C: G.12, G.14, N.15, G.16, I.17, D.36, I.37, W.41, A.61, D.62, T.63, N.89, A.90, G.91, I.113, I.140, S.141, S.142, Y.155, K.159, P.185, A.186, F.187, I.188, T.190 Ligands: ACT.17 16 PLIP interactions: 16 interactions with chain C Hydrophobic interactions: C:P.185 Hydrogen bonds: C:G.12, C:G.14, C:N.15, C:I.17, C:I.37, C:D.62, C:T.63, C:N.89, C:K.159, C:I.188, C:T.190, C:T.190, C:T.190 Water bridges: C:G.18, C:N.89 NAD.25: 27 residues within 4Å: Chain D: G.12, G.14, N.15, G.16, I.17, D.36, I.37, W.41, A.61, D.62, T.63, N.89, A.90, G.91, I.92, I.113, I.140, S.141, S.142, Y.155, K.159, P.185, A.186, F.187, I.188, T.190 Ligands: ACT.26 18 PLIP interactions: 18 interactions with chain D Hydrophobic interactions: D:P.185 Hydrogen bonds: D:G.12, D:G.14, D:I.17, D:I.37, D:D.62, D:D.62, D:T.63, D:N.89, D:Y.155, D:K.159, D:I.188, D:T.190, D:T.190 Water bridges: D:G.18, D:N.89, D:T.190, D:T.191

6 x ACT: ACETATE ION(Non-functional Binders)

ACT.2: 6 residues within 4Å: Chain A: S.142, I.143, Y.155, A.186, F.187 Ligands: NAD.1 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.143, A:F.187 Hydrogen bonds: A:S.142 Water bridges: A:Y.155 ACT.5: 4 residues within 4Å: Chain A: R.179, S.228, D.229, S.232 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.229 Salt bridges: A:R.179 ACT.11: 6 residues within 4Å: Chain B: S.142, I.143, Y.155, A.186, F.187 Ligands: NAD.10 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:I.143, B:F.187 Hydrogen bonds: B:S.142, B:S.142, B:Y.155 ACT.17: 6 residues within 4Å: Chain C: S.142, I.143, Y.155, A.186, F.187 Ligands: NAD.16 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:I.143, C:F.187 Hydrogen bonds: C:S.142, C:Y.155 ACT.20: 4 residues within 4Å: Chain C: R.179, S.228, D.229, S.232 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:D.229 Salt bridges: C:R.179 ACT.26: 6 residues within 4Å: Chain D: S.142, I.143, Y.155, A.186, F.187 Ligands: NAD.25 6 PLIP interactions: 6 interactions with chain D Hydrophobic interactions: D:I.143, D:F.187 Hydrogen bonds: D:S.142, D:S.142 Water bridges: D:Y.155, D:Y.155

6 x 1PS: 3-PYRIDINIUM-1-YLPROPANE-1-SULFONATE(Non-covalent)

1PS.3: 4 residues within 4Å: Chain A: I.92, S.93, G.94, R.109 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.93, A:G.94 Salt bridges: A:R.109 1PS.4: 6 residues within 4Å: Chain A: E.95, T.97, E.101, T.103, A.105, Q.106 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:T.97 Hydrogen bonds: A:T.103 Water bridges: A:E.95 1PS.12: 6 residues within 4Å: Chain A: G.174, S.175, G.177 Chain B: L.210, R.211, R.212 3 PLIP interactions: 3 interactions with chain B Water bridges: B:R.212, B:R.212 Salt bridges: B:R.212 1PS.18: 4 residues within 4Å: Chain C: I.92, S.93, G.94, R.109 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:S.93, C:G.94 Salt bridges: C:R.109 1PS.19: 6 residues within 4Å: Chain C: E.95, T.97, E.101, T.103, A.105, Q.106 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:T.97 Water bridges: C:E.95, C:E.95 1PS.27: 6 residues within 4Å: Chain C: G.174, S.175, G.177 Chain D: L.210, R.211, R.212 3 PLIP interactions: 3 interactions with chain D Water bridges: D:R.212, D:R.212 Salt bridges: D:R.212

10 x MG: MAGNESIUM ION(Non-covalent)

MG.6: 3 residues within 4Å: Chain A: R.248 Chain C: R.248 Ligands: MG.21 No protein-ligand interaction detected (PLIP) MG.7: 1 residues within 4Å: Chain A: E.131 6 PLIP interactions: 1 interactions with chain A, 5 Ligand-Water interactions Metal complexes: A:E.131, H2O.5, H2O.7, H2O.7, H2O.7, H2O.11 MG.8: 2 residues within 4Å: Chain A: S.237, Y.238 No protein-ligand interaction detected (PLIP) MG.9: 1 residues within 4Å: Chain A: W.41 No protein-ligand interaction detected (PLIP) MG.15: 3 residues within 4Å: Chain B: R.248 Chain D: R.248 Ligands: MG.30 No protein-ligand interaction detected (PLIP) MG.21: 3 residues within 4Å: Chain A: R.248 Chain C: R.248 Ligands: MG.6 No protein-ligand interaction detected (PLIP) MG.22: 1 residues within 4Å: Chain C: E.131 6 PLIP interactions: 1 interactions with chain C, 5 Ligand-Water interactions Metal complexes: C:E.131, H2O.24, H2O.26, H2O.26, H2O.26, H2O.30 MG.23: 2 residues within 4Å: Chain C: S.237, Y.238 No protein-ligand interaction detected (PLIP) MG.24: 1 residues within 4Å: Chain C: W.41 No protein-ligand interaction detected (PLIP) MG.30: 3 residues within 4Å: Chain B: R.248 Chain D: R.248 Ligands: MG.15 No protein-ligand interaction detected (PLIP)

4 x BCT: BICARBONATE ION(Non-functional Binders)

BCT.13: 4 residues within 4Å: Chain B: I.92, S.93, G.94, R.109 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.94, B:R.109, B:R.109 BCT.14: 3 residues within 4Å: Chain B: R.179, S.228, D.229 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.179, B:R.179 Water bridges: B:A.136 BCT.28: 4 residues within 4Å: Chain D: I.92, S.93, G.94, R.109 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:G.94, D:R.109, D:R.109 BCT.29: 3 residues within 4Å: Chain D: R.179, S.228, D.229 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:R.179, D:R.179 Water bridges: D:A.136

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Busing, I. et al., Molecular Genetic and Crystal Structural Analysis of 1-(4-Hydroxyphenyl)-Ethanol Dehydrogenase from 'Aromatoleum Aromaticum' Ebn1. J.Mol.Microbiol.Biotechnol. (2015)

Release Date

2015-07-08

Peptides

CYCLOHEXANOL DEHYDROGENASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

CYCLOHEXANOL DEHYDROGENASE

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