SMTL ID : 8am3.1

Cyclohexanone dehydrogenase (CDH) from Alicycliphilus denitrificans K601 - wildtype

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.86 Å

Oligo State

homo-dimer

Ligands

2 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.1: 37 residues within 4Å: Chain A: V.74, G.75, G.77, C.78, A.79, L.97, E.98, K.99, G.104, G.105, T.106, T.107, K.109, S.110, A.111, F.112, W.113, H.245, R.246, V.247, G.282, S.283, G.284, C.305, T.309, N.310, D.313, S.349, F.352, L.530, G.559, N.560, G.574, A.575, T.576, L.577, M.580 32 PLIP interactions: 32 interactions with chain A Hydrophobic interactions: A:F.352, A:L.530 Hydrogen bonds: A:G.77, A:A.79, A:K.99, A:K.99, A:G.104, A:T.106, A:T.107, A:T.107, A:A.111, A:W.113, A:W.113, A:V.247, A:V.247, A:T.309, A:N.310, A:D.313, A:N.560, A:N.560, A:G.574, A:T.576, A:T.576, A:L.577 Water bridges: A:G.80, A:G.105, A:G.285, A:E.311, A:D.531, A:C.561, A:A.575, A:A.575 FAD.5: 38 residues within 4Å: Chain B: V.74, G.75, S.76, G.77, C.78, A.79, L.97, E.98, K.99, G.104, G.105, T.106, T.107, K.109, S.110, A.111, F.112, W.113, H.245, R.246, V.247, G.282, S.283, G.284, C.305, T.309, N.310, D.313, S.349, F.352, L.530, G.559, N.560, G.574, A.575, T.576, L.577, M.580 31 PLIP interactions: 31 interactions with chain B Hydrophobic interactions: B:F.352, B:L.530 Hydrogen bonds: B:G.77, B:A.79, B:K.99, B:G.104, B:T.106, B:T.106, B:T.107, B:T.107, B:A.111, B:W.113, B:W.113, B:V.247, B:V.247, B:T.309, B:T.309, B:N.310, B:N.560, B:N.560, B:Y.570, B:G.574, B:T.576, B:L.577 Water bridges: B:G.80, B:K.99, B:G.105, B:G.284, B:G.285, B:G.285, B:E.311

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 3 residues within 4Å: Chain A: D.436, N.463, R.467 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.467, A:R.467 Water bridges: A:N.463, A:A.464

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

SO4.3: 4 residues within 4Å: Chain A: E.68, Y.69, S.93, R.276 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.93 Water bridges: A:S.93 Salt bridges: A:R.276 SO4.4: 2 residues within 4Å: Chain A: H.409, K.501 3 PLIP interactions: 3 interactions with chain A Water bridges: A:D.408 Salt bridges: A:H.409, A:K.501 SO4.6: 4 residues within 4Å: Chain B: E.68, Y.69, S.93, R.276 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.93 Salt bridges: B:R.276

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Singh, W. et al., Rational design of a cyclohexanone dehydrogenase for enhanced alpha , beta-desaturation and substrate specificity. Chem Sci (2024)

Release Date

2024-02-14

Peptides

Fumarate reductase/succinate dehydrogenase flavoprotein domain protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

B
BBB

Fumarate reductase/succinate dehydrogenase flavoprotein domain protein