SMTL ID : 6nbb.1

Horse liver alcohol dehydrogenase determined using single-particle cryo-EM at 200 keV

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

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

NAD.1: 27 residues within 4Å: Chain A: C.46, R.47, S.48, H.51, F.93, C.174, T.178, G.199, L.200, G.201, G.202, V.203, V.222, D.223, I.224, K.228, V.268, I.269, R.271, T.274, V.292, G.293, V.294, A.317, I.318, F.319, R.369 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:T.178, A:V.203 Hydrogen bonds: A:H.51, A:T.178, A:L.200, A:G.201, A:G.202, A:V.203, A:I.224, A:I.269, A:V.292, A:V.294, A:F.319 Salt bridges: A:R.47, A:K.228, A:R.369 NAD.4: 27 residues within 4Å: Chain B: C.46, R.47, S.48, H.51, C.174, T.178, G.199, L.200, G.201, G.202, V.203, V.222, D.223, I.224, K.228, V.268, I.269, R.271, T.274, V.292, G.293, V.294, A.317, I.318, F.319, R.369 Ligands: ZN.5 18 PLIP interactions: 18 interactions with chain B Hydrophobic interactions: B:T.178, B:V.203 Hydrogen bonds: B:H.51, B:T.178, B:L.200, B:G.201, B:G.202, B:V.203, B:G.204, B:I.224, B:I.269, B:R.271, B:V.292, B:V.294, B:F.319 Salt bridges: B:R.47, B:K.228, B:R.369

4 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: C.46, H.67, E.68, C.174 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:C.46, A:H.67, A:C.174 ZN.3: 4 residues within 4Å: Chain A: C.97, C.100, C.103, C.111 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.97, A:C.100, A:C.103, A:C.111 ZN.5: 5 residues within 4Å: Chain B: C.46, H.67, E.68, C.174 Ligands: NAD.4 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:C.46, B:H.67, B:C.174 ZN.6: 5 residues within 4Å: Chain B: C.97, G.98, C.100, C.103, C.111 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.97, B:C.100, B:C.103, B:C.111

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Herzik Jr., M.A. et al., High-resolution structure determination of sub-100 kDa complexes using conventional cryo-EM. Nat Commun (2019)

Release Date

2019-03-13

Peptides

Alcohol dehydrogenase E chain: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Alcohol dehydrogenase E chain

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