SMTL ID : 6ojc.1

A high-resolution crystal structure of NocB thioesterase domain from Nocardicin cluster

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.94 Å

Oligo State

monomer

Ligands

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

SO4.1: 1 residues within 4Å: Chain A: R.251 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.251 SO4.2: 4 residues within 4Å: Chain A: P.73, R.74, R.91, W.95 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.74, A:R.91 SO4.3: 4 residues within 4Å: Chain A: G.231, A.232, R.235, H.241 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.232 Salt bridges: A:H.241 SO4.4: 6 residues within 4Å: Chain A: S.132, D.133, R.196, A.252, L.253, G.255 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.255 Water bridges: A:D.133 Salt bridges: A:R.196 SO4.5: 3 residues within 4Å: Chain A: V.30, H.31, T.32 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.32 Water bridges: A:T.32 Salt bridges: A:H.31 SO4.6: 3 residues within 4Å: Chain A: R.208, D.209, R.212 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.209, A:R.212

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 8 residues within 4Å: Chain A: P.47, G.48, E.49, S.111, F.112, H.140, L.178, H.233 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:G.48, A:S.111, A:S.111, A:F.112, A:H.140, A:H.233 Water bridges: A:E.49

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Patel, K.D. et al., Structure of a bound peptide phosphonate reveals the mechanism of nocardicin bifunctional thioesterase epimerase-hydrolase half-reactions. Nat Commun (2019)

Release Date

2019-09-11

Peptides

NocB: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

NocB

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