5D4Y image
Deposition Date 2015-08-10
Release Date 2016-02-24
Last Version Date 2024-03-20
Entry Detail
PDB ID:
5D4Y
Keywords:
Title:
A psychrophilic glycoside hydrolase family 10 endo-beta-1,4-xylanase
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
2.50 Å
R-Value Free:
0.28
R-Value Work:
0.19
R-Value Observed:
0.19
Space Group:
P 1 21 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:xylanase
Chain IDs:A, B
Chain Length:355
Number of Molecules:2
Biological Source:environmental samples
Peptide-like Molecules
PRD_900116
Primary Citation
Structural insight into potential cold adaptation mechanism through a psychrophilic glycoside hydrolase family 10 endo-beta-1,4-xylanase.
J.Struct.Biol. 193 206 211 (2016)
PMID: 26719223 DOI: 10.1016/j.jsb.2015.12.010

Abstact

The cold-adapted xylanases can catalyze at low temperature and hold great potential in food industry applications. Here we describe the first crystal structure of a cold-adapted glycoside hydrolase (GH) family 10 xylanase XynGR40 and its complex with xylobiose at 2.15 and 2.50Å resolution. The enzyme folds into a typical GH10 (β/α)8 TIM-barrel, with E132 and E243 serving as the catalytic residues. The xylobiose was observed to occupy the -1 and -2 subsites. Structural comparison with a thermophilic GH10 xylanase highlighting various parameters that may explain the cold adaptation features were analyzed. Synergistic effects of the increased exposure of hydrophobic residues, the higher flexibility of substrate-binding residues, more flexible loops, and the ratios of special amino acid residues, may result in the cold adaptation of XynGR40.

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Primary Citation of related structures
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