8C10

Biochemical and structural characterisation of an alkaline family GH5 cellulase from a shipworm symbiont

• PDB DOI: https://doi.org/10.2210/pdb8C10/pdb

• Classification: HYDROLASE
• Organism(s): Teredinibacter waterburyi
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2022-12-19 Released: 2023-04-19 
• Deposition Author(s): Leiros, I., Vaaje-Kolstad, G.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.00 Å
• R-Value Free: 0.133 
• R-Value Work: 0.112 
• R-Value Observed: 0.113 

Literature

Biochemical and structural characterisation of a family GH5 cellulase from endosymbiont of shipworm P. megotara.

Junghare, M., Manavalan, T., Fredriksen, L., Leiros, I., Altermark, B., Eijsink, V.G.H., Vaaje-Kolstad, G.

(2023) Biotechnol Biofuels Bioprod 16: 61-61

• PubMed: 37016457 
• DOI: https://doi.org/10.1186/s13068-023-02307-1
• Primary Citation of Related Structures:  
  8C10


• PubMed Abstract: 
  

  Cellulases play a key role in the enzymatic conversion of plant cell-wall polysaccharides into simple and economically relevant sugars. Thus, the discovery of novel cellulases from exotic biological niches is of great interest as they may present properties that are valuable in the biorefining of lignocellulosic biomass.

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Organizational Affiliation: 

Department of Chemistry, Biotechnology and Food Science, Norwegian University of Life Sciences, 1432, Ås, Norway. [e-mail].

Biological Assembly 1  

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

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

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 35.61 kDa 
• Atom Count: 2,799 
• Modelled Residue Count: 297 
• Deposited Residue Count: 321 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GH5 Cellulase	A	321	Teredinibacter waterburyi	Mutation(s): 0

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
TRS (Subject of Investigation/LOI)	D [auth A]	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C4 H12 N O3 LENZDBCJOHFCAS-UHFFFAOYSA-O
EDO (Subject of Investigation/LOI)	E [auth A], F [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
K (Subject of Investigation/LOI)	G [auth A]	POTASSIUM ION K NPYPAHLBTDXSSS-UHFFFAOYSA-N
MG (Subject of Investigation/LOI)	B [auth A], C [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.00 Å
• R-Value Free: 0.133 
• R-Value Work: 0.112 
• R-Value Observed: 0.113 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 45.041	α = 90
b = 68.426	β = 90
c = 87.188	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling
MOLREP	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-04-19 
Deposition Author(s): Leiros, I., Vaaje-Kolstad, G.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2023-04-19
  Type: Initial release