SMTL ID : 5m4b.1

Alpha-amino epsilon-caprolactam racemase D210A mutant in complex with PLP and geminal diamine intermediate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-dimer

Ligands

2 x 7F7: [6-methyl-5-oxidanyl-4-[(~{E})-[(3~{R})-2-oxidanylideneazepan-3-yl]iminomethyl]pyridin-3-yl]methyl dihydrogen phosphate(Covalent)

7F7.1: 16 residues within 4Å: Chain A: L.23, W.53, S.113, G.114, S.115, Y.141, H.142, E.209, D.242, V.244, K.245, K.271, W.440 Chain B: L.82, Q.298, T.299 13 PLIP interactions: 11 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:L.23, A:Y.141, A:Y.141, A:E.209, A:V.244, B:L.82 Hydrogen bonds: A:G.114, A:S.115, A:K.271, B:T.299 Water bridges: A:E.209, A:S.213 Salt bridges: A:K.271 7F7.3: 16 residues within 4Å: Chain A: L.82, Q.298, T.299 Chain B: L.23, W.53, S.113, G.114, S.115, Y.141, H.142, E.209, D.242, V.244, K.245, K.271, W.440 14 PLIP interactions: 3 interactions with chain A, 11 interactions with chain B Hydrophobic interactions: A:L.82, B:L.23, B:Y.141, B:Y.141, B:E.209, B:V.244 Hydrogen bonds: A:T.299, A:T.299, B:G.114, B:S.115, B:K.271 Water bridges: B:E.209, B:S.213 Salt bridges: B:K.271

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

EDO.2: 3 residues within 4Å: Chain A: R.37, D.410, H.414 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.37 Water bridges: A:E.411 EDO.4: 3 residues within 4Å: Chain B: R.37, D.410, H.414 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.37

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Frese, A. et al., Snapshots of the Catalytic Cycle of the Industrial Enzyme alpha-Amino-epsilon-Caprolactam Racemase (ACLR) Observed Using X-ray Crystallography. Acs Catalysis (2017)

Release Date

2017-04-19

Peptides

Aminotransferase class-III: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Aminotransferase class-III