SMTL ID : 6scg.1

Structure of AdhE form 1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

homo-dimer

Ligands

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

NAD.1: 19 residues within 4Å: Chain A: D.39, F.41, L.42, A.70, D.71, G.97, G.98, S.99, P.100, D.102, T.149, T.150, T.153, V.162, L.190, M.194, P.195, L.198, H.279 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:D.39, A:A.70, A:A.70, A:D.71, A:G.97, A:G.98, A:S.99, A:S.99, A:T.149, A:T.150, A:T.150 Water bridges: A:D.39, A:F.41, A:T.153, A:H.279 NAD.6: 21 residues within 4Å: Chain B: D.39, F.41, L.42, D.71, G.97, G.98, S.99, P.100, D.102, T.149, T.150, T.153, S.155, F.160, A.161, V.162, L.190, M.194, P.195, L.198, H.289 14 PLIP interactions: 14 interactions with chain B Hydrogen bonds: B:D.39, B:G.97, B:G.98, B:S.99, B:S.99, B:T.149, B:T.150, B:H.289 Water bridges: B:D.39, B:D.39, B:F.41, B:Y.47, B:Y.47, B:T.153

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

SO4.2: 5 residues within 4Å: Chain A: R.124, R.129, R.131, I.132, Y.133 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:I.132, A:Y.133 Salt bridges: A:R.124, A:R.129 SO4.3: 4 residues within 4Å: Chain A: R.78, T.116, H.117, F.118 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:F.118 Water bridges: A:R.78, A:E.119 Salt bridges: A:R.78, A:H.117 SO4.8: 3 residues within 4Å: Chain B: R.78, H.117, F.118 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:F.118 Water bridges: B:R.78, B:R.78, B:E.119 Salt bridges: B:R.78, B:H.117

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

EDO.4: 7 residues within 4Å: Chain A: H.31, D.90, G.139, V.140, K.141, A.142, K.143 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.139 Water bridges: A:H.31, A:D.90

2 x FE: FE (III) ION(Non-covalent)

FE.5: 5 residues within 4Å: Chain A: D.205, H.209, H.275, H.289, N.293 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.205, A:H.209, A:H.275, A:H.289, H2O.1, H2O.9 FE.9: 5 residues within 4Å: Chain B: D.205, H.209, H.275, H.289, N.293 6 PLIP interactions: 4 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.205, B:H.209, B:H.275, B:H.289, H2O.12, H2O.22

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.7: 3 residues within 4Å: Chain B: F.43, D.49, K.56 3 PLIP interactions: 3 interactions with chain B Water bridges: B:N.44 Salt bridges: B:D.49, B:K.56

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Azmi, L. et al., High-resolution structure of the alcohol dehydrogenase domain of the bifunctional bacterial enzyme AdhE. Acta Crystallogr.,Sect.F (2020)

Release Date

2020-08-26

Peptides

Aldehyde-alcohol dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Aldehyde-alcohol dehydrogenase

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