5XTU image
Deposition Date 2017-06-21
Release Date 2018-10-10
Last Version Date 2025-04-09
Entry Detail
PDB ID:
5XTU
Keywords:
Title:
Crystal Structure of GDSL Esterase of Photobacterium sp. J15
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
1.38 Å
R-Value Free:
0.17
R-Value Work:
0.15
R-Value Observed:
0.15
Space Group:
P 21 21 21
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:GDSL-family esterase
Chain IDs:A
Chain Length:360
Number of Molecules:1
Biological Source:Photobacterium sp. J15(2011)
Primary Citation
Crystallization and structure elucidation of GDSL esterase of Photobacterium sp. J15.
Int. J. Biol. Macromol. 119 1188 1194 (2018)
PMID: 30102982 DOI: 10.1016/j.ijbiomac.2018.08.022

Abstact

GDSL esterase J15 (EstJ15) is a member of Family II of lipolytic enzyme. The enzyme was further classified in subgroup SGNH hydrolase due to the presence of highly conserve motif, Ser-Gly-Asn-His in four conserved blocks I, II, III, and V, respectively. X-ray quality crystal of EstJ15 was obtained from optimized formulation containing 0.10 M ammonium sulphate, 0.15 M sodium cacodylate trihydrate pH 6.5, and 20% PEG 8000. The crystal structure of EstJ15 was solved at 1.38 Å with one molecule per asymmetric unit. The structure exhibits α/β hydrolase fold and shared low amino acid sequence identity of 23% with the passenger domain of the autotransporter EstA of Pseudomonas aeruginosa. The active site is located at the centre of the structure, formed a narrow tunnel that hinder long substrates to be catalysed which was proven by the protein-ligand docking analysis. This study facilitates the understanding of high substrate specificity of EstJ15 and provide insights on its catalytic mechanism.

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