8BZQ | pdb_00008bzq

Beta-1,4-D-endoglucanase Cel45A from Gloeophyllum trabeum

• PDB DOI: https://doi.org/10.2210/pdb8BZQ/pdb

• Classification: HYDROLASE
• Organism(s): Gloeophyllum trabeum ATCC 11539
• Expression System: Aspergillus nidulans
• Mutation(s): No 


• Deposited: 2022-12-15 Released: 2023-11-22 
• Deposition Author(s): Okmane, L., Fitkin, L., Stahlberg, J.
• Funding Organization(s): Other government

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.30 Å
• R-Value Free: 
  0.183 (Depositor), 0.184 (DCC) 
• R-Value Work: 
  0.166 (Depositor), 0.166 (DCC) 
• R-Value Observed: 
  0.166 (Depositor) 

Starting Model: experimental

Literature

The first crystal structure of a family 45 glycoside hydrolase from a brown-rot fungus, Gloeophyllum trabeum GtCel45A.

Okmane, L., Fitkin, L., Sandgren, M., Stahlberg, J.

(2024) FEBS Open Bio 14: 505-514

• PubMed: 38311343 
• DOI: https://doi.org/10.1002/2211-5463.13774
• Primary Citation Related Structures: 
  8BZQ


• PubMed Abstract: 
  

  Here we describe the first crystal structure of a beta-1,4-endoglucanase from a brown-rot fungus, Gloeophyllum trabeum GtCel45A, which belongs to subfamily C of glycoside hydrolase family 45 (GH45). GtCel45A is ~ 18 kDa in size and the crystal structure contains 179 amino acids. The structure is refined at 1.30 Å resolution and R _free 0.18. The enzyme consists of a single catalytic module folded into a six-stranded double-psi beta-barrel domain surrounded by long loops. GtCel45A is very similar in sequence (82% identity) and structure to PcCel45A from the white-rot fungus Phanerochaete chrysosporium. Surprisingly though, initial hydrolysis of barley beta-glucan was almost twice as fast in GtCel45A as compared to PcCel45A.

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Organizational Affiliation: 
• Department of Molecular Sciences, Swedish University of Agricultural Sciences, Uppsala, Sweden.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 18.39 kDa 
• Atom Count: 1,481 
• Modeled Residue Count: 179 
• Deposited Residue Count: 183 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Endoglucanase V-like protein	A	183	Gloeophyllum trabeum ATCC 11539	Mutation(s): 0  Gene Names: GLOTRDRAFT_59933
UniProt
Find proteins for S7QB86 (Gloeophyllum trabeum (strain ATCC 11539 / FP-39264 / Madison 617)) Explore S7QB86  Go to UniProtKB:  S7QB86

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.30 Å
• R-Value Free:  0.183 (Depositor), 0.184 (DCC) 
• R-Value Work:  0.166 (Depositor), 0.166 (DCC) 
• R-Value Observed: 0.166 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 28.97	α = 90
b = 48.41	β = 92.207
c = 45.79	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
PHENIX	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2023-11-22 
Deposition Author(s): Okmane, L., Fitkin, L., Stahlberg, J.

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Funding Organization	Location	Grant Number
Other government	Sweden	2017-01130

Revision History  

• Version 1.0: 2023-11-22
  Type: Initial release
  
• Version 1.1: 2024-02-14
  Changes: Database references
• Version 1.2: 2024-03-13
  Changes: Database references
• Version 1.3: 2024-10-23
  Changes: Structure summary