4FUS image
Entry Detail
PDB ID:
4FUS
Keywords:
Title:
The X-ray structure of Hahella chejuensis family 48 glycosyl hydrolase
Biological Source:
Source Organism:
Host Organism:
PDB Version:
Deposition Date:
2012-06-28
Release Date:
2012-10-17
Method Details:
Experimental Method:
Resolution:
1.75 Å
R-Value Free:
0.20
R-Value Work:
0.15
R-Value Observed:
0.15
Space Group:
P 1 21 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:RTX toxins and related Ca2+-binding protein
Chain IDs:A
Chain Length:695
Number of Molecules:1
Biological Source:Hahella chejuensis
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
OHI A HIS 3-(2-OXO-2H-IMIDAZOL-4-YL)-L-ALANINE
Peptide-like Molecules
PRD_900005
Primary Citation
Sequence, structure, and evolution of cellulases in glycoside hydrolase family 48.
J.Biol.Chem. 287 41068 41077 (2012)
PMID: 23055526 DOI: 10.1074/jbc.M112.405720

Abstact

Currently, the cost of cellulase enzymes remains a key economic impediment to commercialization of biofuels. Enzymes from glycoside hydrolase family 48 (GH48) are a critical component of numerous natural lignocellulose-degrading systems. Although computational mining of large genomic data sets is a promising new approach for identifying novel cellulolytic activities, current computational methods are unable to distinguish between cellulases and enzymes with different substrate specificities that belong to the same protein family. We show that by using a robust computational approach supported by experimental studies, cellulases and non-cellulases can be effectively identified within a given protein family. Phylogenetic analysis of GH48 showed non-monophyletic distribution, an indication of horizontal gene transfer. Enzymatic function of GH48 proteins coded by horizontally transferred genes was verified experimentally, which confirmed that these proteins are cellulases. Computational and structural studies of GH48 enzymes identified structural elements that define cellulases and can be used to computationally distinguish them from non-cellulases. We propose that the structural element that can be used for in silico discrimination between cellulases and non-cellulases belonging to GH48 is an ω-loop located on the surface of the molecule and characterized by highly conserved rare amino acids. These markers were used to screen metagenomics data for "true" cellulases.

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Primary Citation of related structures