SMTL ID : 4k4c.1 (1 other biounit)

X-ray crystal structure of E. coli YbdB complexed with phenacyl-CoA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-dimer

Ligands

2 x 0FQ: phenacyl coenzyme A(Non-covalent)

0FQ.1: 17 residues within 4Å: Chain A: Q.48, P.49, F.50, L.53, H.54, G.55, H.89, H.90, R.91, P.92 Chain B: E.63, S.67, M.68, V.81, G.82, T.83, L.136 15 PLIP interactions: 9 interactions with chain A, 6 interactions with chain B Hydrophobic interactions: A:Q.48, A:F.50, A:H.89, B:V.81, B:V.81, B:T.83, B:L.136 Hydrogen bonds: A:G.55, A:H.89, A:H.90, B:G.82, B:G.82 Water bridges: A:V.93 Salt bridges: A:R.91 pi-Stacking: A:H.54 0FQ.2: 19 residues within 4Å: Chain A: E.63, T.64, S.67, M.68, V.81, G.82, T.83, L.136 Chain B: Q.48, P.49, F.50, L.52, L.53, H.54, G.55, H.89, H.90, R.91, P.92 17 PLIP interactions: 11 interactions with chain B, 6 interactions with chain A Hydrophobic interactions: B:Q.48, B:P.49, B:F.50, A:V.81, A:T.83, A:L.136 Hydrogen bonds: B:G.55, B:H.89, B:H.90, B:R.91, B:R.91, A:E.63, A:G.82, A:G.82 Water bridges: B:V.93 Salt bridges: B:R.91 pi-Stacking: B:H.54

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wu, R. et al., Structure and Catalysis in the Escherichia coli Hotdog-fold Thioesterase Paralogs YdiI and YbdB. Biochemistry (2014)

Release Date

2014-07-30

Peptides

Proofreading thioesterase EntH: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
D

Proofreading thioesterase EntH

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