SMTL ID : 8eiw.1

Cobalt(II)-substituted Horse Liver Alcohol Dehydrogenase in Complex with NADH and N-Cyclohexylformamide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

homo-dimer

Ligands

2 x CO: COBALT (II) ION(Non-covalent)

CO.1: 5 residues within 4Å: Chain A: C.49, H.70, C.177 Ligands: NAI.3, CXF.4 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:C.49, A:H.70, A:C.177 CO.5: 5 residues within 4Å: Chain B: C.49, H.70, C.177 Ligands: NAI.7, CXF.8 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:C.49, B:H.70, B:C.177

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 6 residues within 4Å: Chain A: C.100, G.101, C.103, C.106, C.114, L.115 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.100, A:C.103, A:C.106, A:C.114 ZN.6: 5 residues within 4Å: Chain B: C.100, G.101, C.103, C.106, C.114 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.100, B:C.103, B:C.106, B:C.114

2 x NAI: 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE(Non-covalent)

NAI.3: 29 residues within 4Å: Chain A: C.49, R.50, S.51, H.54, C.177, T.181, G.202, L.203, G.204, G.205, V.206, D.226, I.227, N.228, K.231, V.271, I.272, G.273, R.274, V.295, G.296, V.297, A.320, I.321, F.322, L.365, R.372 Ligands: CO.1, CXF.4 23 PLIP interactions: 23 interactions with chain A Hydrophobic interactions: A:T.181, A:V.206 Hydrogen bonds: A:R.50, A:H.54, A:L.203, A:G.204, A:G.205, A:V.206, A:I.227, A:I.272, A:R.274, A:V.295, A:V.297, A:F.322 Water bridges: A:G.207, A:K.231, A:R.274, A:R.274, A:G.323, A:R.372, A:R.372 Salt bridges: A:R.50, A:R.372 NAI.7: 28 residues within 4Å: Chain B: C.49, R.50, S.51, H.54, C.177, T.181, G.202, L.203, G.204, G.205, V.206, D.226, I.227, N.228, K.231, V.271, I.272, R.274, V.295, G.296, V.297, A.320, I.321, F.322, L.365, R.372 Ligands: CO.5, CXF.8 26 PLIP interactions: 26 interactions with chain B Hydrophobic interactions: B:T.181, B:V.206 Hydrogen bonds: B:R.50, B:H.54, B:T.181, B:L.203, B:G.204, B:G.205, B:V.206, B:I.227, B:I.272, B:R.274, B:V.295, B:V.297, B:F.322 Water bridges: B:G.207, B:K.231, B:K.231, B:R.274, B:G.323, B:L.365, B:S.370, B:R.372, B:R.372 Salt bridges: B:R.50, B:R.372

2 x CXF: CYCLOHEXYLFORMAMIDE(Non-covalent)

CXF.4: 13 residues within 4Å: Chain A: C.49, S.51, L.60, H.70, F.96, L.119, L.144, C.177, V.297, I.321 Chain B: L.312 Ligands: CO.1, NAI.3 8 PLIP interactions: 7 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:L.60, A:F.96, A:L.119, A:L.119, A:V.297, A:I.321, B:L.312 Hydrogen bonds: A:S.51 CXF.8: 13 residues within 4Å: Chain A: L.312 Chain B: C.49, S.51, L.60, H.70, F.96, L.119, L.144, C.177, V.297, I.321 Ligands: CO.5, NAI.7 8 PLIP interactions: 1 interactions with chain A, 7 interactions with chain B Hydrophobic interactions: A:L.312, B:L.60, B:F.96, B:L.119, B:L.119, B:V.297, B:I.321 Hydrogen bonds: B:S.51

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zheng, C. et al., Enhanced active-site electric field accelerates enzyme catalysis. Nat.Chem. (2023)

Release Date

2023-02-01

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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