SMTL ID : 8sf6.2 (2 other biounits)

Promiscuous amino acid gamma synthase from Caldicellulosiruptor hydrothermalis in closed conformation

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-tetramer

Ligands

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

MES.1: 13 residues within 4Å: Chain A: Y.112, N.159, K.209, A.367, N.368, V.369, T.383, R.403 Chain D: F.48, Y.57, R.59, I.60, R.268 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain D Hydrogen bonds: A:Y.112, A:N.159, A:V.369, D:R.268 Salt bridges: A:R.403 Water bridges: D:R.59 MES.4: 13 residues within 4Å: Chain B: Y.112, N.159, K.209, A.367, N.368, V.369, T.383, R.403 Chain C: F.48, Y.57, R.59, I.60, R.268 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:N.159, B:V.369, C:R.268 Salt bridges: B:R.403 Water bridges: C:R.59 MES.8: 13 residues within 4Å: Chain B: F.48, Y.57, R.59, I.60, R.268 Chain C: Y.112, N.159, K.209, A.367, N.368, V.369, T.383, R.403 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain C Hydrogen bonds: B:R.268, C:Y.112, C:N.159 Water bridges: B:R.59 Salt bridges: C:R.403 MES.11: 13 residues within 4Å: Chain A: F.48, Y.57, R.59, I.60, R.268 Chain D: Y.112, N.159, K.209, A.367, N.368, V.369, T.383, R.403 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain D Hydrogen bonds: A:R.268, D:N.159 Water bridges: A:R.59 Salt bridges: D:R.403

7 x NA: SODIUM ION(Non-functional Binders)

NA.2: 3 residues within 4Å: Chain A: N.358 Chain D: E.39, T.40 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.358 NA.3: 3 residues within 4Å: Chain A: E.39, T.40 Chain D: N.358 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.358 NA.6: 4 residues within 4Å: Chain B: E.39, T.40 Chain C: N.358 Ligands: NA.10 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C Hydrogen bonds: B:E.39, C:N.358 NA.7: 3 residues within 4Å: Chain B: N.358 Chain C: E.39, T.40 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.358 NA.9: 2 residues within 4Å: Chain C: H.310, V.313 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:H.310, C:V.313 Water bridges: C:H.310 NA.10: 1 residues within 4Å: Ligands: NA.6 No protein-ligand interaction detected (PLIP) NA.14: 2 residues within 4Å: Chain D: H.310, V.313 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:V.313, D:V.313

1 x AE3: 2-(2-ETHOXYETHOXY)ETHANOL(Non-covalent)

AE3.5: 6 residues within 4Å: Chain B: L.50, E.252, F.253, A.260, R.263, L.264 No protein-ligand interaction detected (PLIP)

2 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.12: 9 residues within 4Å: Chain D: K.227, F.228, E.229, K.251, E.252, F.253, G.254, N.255 Ligands: 1PE.13 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:K.227, D:N.255 1PE.13: 9 residues within 4Å: Chain D: L.50, K.52, A.53, E.252, F.253, A.260, R.263, L.264 Ligands: 1PE.12 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:E.252 Water bridges: D:R.263

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zmich, A. et al., Multiplexed Assessment of Promiscuous Non-Canonical Amino Acid Synthase Activity in a Pyridoxal Phosphate-Dependent Protein Family. Acs Catalysis (2023)

Release Date

2023-12-27

Peptides

O-acetylhomoserine/O-acetylserine sulfhydrylase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
D

C
G

D
H

O-acetylhomoserine/O-acetylserine sulfhydrylase

Related Entries With Identical Sequence