SMTL ID : 2ewm.1

Crystal Structure of the (S)-Specific 1-Phenylethanol Dehydrogenase of the Denitrifying Bacterium Strain EbN1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-tetramer

Ligands

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

SO4.1: 9 residues within 4Å: Chain A: Y.144, W.145, R.166 Chain B: H.249 Chain C: Y.144, W.145, R.166 Chain D: H.249 Ligands: SO4.5 9 PLIP interactions: 1 interactions with chain D, 4 interactions with chain A, 4 interactions with chain C Hydrogen bonds: D:H.249, A:Y.144, C:Y.144 Water bridges: A:R.166, A:R.166, C:R.166, C:R.166 Salt bridges: A:R.166, C:R.166 SO4.3: 9 residues within 4Å: Chain A: H.249 Chain B: Y.144, W.145, R.166 Chain C: H.249 Chain D: Y.144, W.145, R.166 Ligands: SO4.7 4 PLIP interactions: 2 interactions with chain D, 2 interactions with chain B Hydrogen bonds: D:Y.144, B:Y.144 Salt bridges: D:R.166, B:R.166 SO4.5: 9 residues within 4Å: Chain A: Y.144, W.145, R.166 Chain B: H.249 Chain C: Y.144, W.145, R.166 Chain D: H.249 Ligands: SO4.1 9 PLIP interactions: 5 interactions with chain A, 3 interactions with chain C, 1 interactions with chain B Hydrogen bonds: A:Y.144, A:Y.144, B:H.249 Water bridges: A:R.166, A:R.166, C:R.166, C:R.166 Salt bridges: A:R.166, C:R.166 SO4.7: 9 residues within 4Å: Chain A: H.249 Chain B: Y.144, W.145, R.166 Chain C: H.249 Chain D: Y.144, W.145, R.166 Ligands: SO4.3 4 PLIP interactions: 1 interactions with chain D, 3 interactions with chain B Salt bridges: D:R.166, B:R.166 Hydrogen bonds: B:Y.144, B:Y.144

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

NAD.2: 27 residues within 4Å: Chain A: G.14, A.16, N.17, G.18, I.19, D.38, L.39, C.61, D.62, V.63, N.89, A.90, G.91, Y.93, I.112, L.139, T.140, S.141, Y.154, K.158, P.184, S.185, L.186, V.187, T.189, T.191, T.192 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:P.184 Hydrogen bonds: A:G.14, A:G.14, A:A.16, A:N.17, A:N.17, A:I.19, A:L.39, A:D.62, A:V.63, A:N.89, A:Y.93, A:Y.154, A:V.187, A:T.192, A:T.192 Water bridges: A:G.20, A:N.89, A:K.158 NAD.4: 26 residues within 4Å: Chain B: G.14, N.17, G.18, I.19, D.38, L.39, V.40, C.61, D.62, V.63, N.89, A.90, G.91, Y.93, I.112, T.140, S.141, Y.154, K.158, P.184, S.185, L.186, V.187, T.189, T.191, T.192 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:P.184 Hydrogen bonds: B:N.17, B:N.17, B:I.19, B:L.39, B:D.62, B:V.63, B:N.89, B:Y.93, B:Y.154, B:V.187, B:V.187, B:T.189, B:T.191 Water bridges: B:G.20, B:G.20, B:K.158 NAD.6: 27 residues within 4Å: Chain C: G.14, A.16, N.17, G.18, I.19, D.38, L.39, C.61, D.62, V.63, N.89, A.90, G.91, Y.93, I.112, L.139, T.140, S.141, Y.154, K.158, P.184, S.185, L.186, V.187, T.189, T.191, T.192 18 PLIP interactions: 18 interactions with chain C Hydrophobic interactions: C:P.184 Hydrogen bonds: C:G.14, C:G.14, C:A.16, C:N.17, C:N.17, C:I.19, C:L.39, C:D.62, C:V.63, C:N.89, C:V.187, C:T.189, C:T.192, C:T.192 Water bridges: C:G.20, C:N.89, C:K.158 NAD.8: 26 residues within 4Å: Chain D: G.14, N.17, G.18, I.19, D.38, L.39, V.40, C.61, D.62, V.63, N.89, A.90, G.91, Y.93, I.112, T.140, S.141, Y.154, K.158, P.184, S.185, L.186, V.187, T.189, T.191, T.192 13 PLIP interactions: 13 interactions with chain D Hydrophobic interactions: D:P.184 Hydrogen bonds: D:N.17, D:N.17, D:I.19, D:L.39, D:D.62, D:V.63, D:N.89, D:V.187, D:V.187 Water bridges: D:G.20, D:G.20, D:K.158

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hoeffken, H.W. et al., Crystal Structure and Enzyme kinetics of the (S)-Specific 1-Phenylethanol Dehydrogenase of the denitrifying bacterium Strain EbN1. Biochemistry (2006)

Release Date

2006-03-14

Peptides

(S)-1-Phenylethanol dehydrogenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

(S)-1-Phenylethanol dehydrogenase

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