2VI0

Lichenase CtLic26 in complex with a thio-oligosaccharide

• PDB DOI: https://doi.org/10.2210/pdb2VI0/pdb

• Classification: HYDROLASE
• Organism(s): Acetivibrio thermocellus
• Expression System: Escherichia coli BL21
• Mutation(s): Yes 
• Membrane Protein: Yes  OPM


• Deposited: 2007-11-26 Released: 2009-03-10 
• Deposition Author(s): Money, V.A., Ducros, V.M., Davies, G.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.51 Å
• R-Value Free: 0.189 
• R-Value Work: 0.153 
• R-Value Observed: 0.154 

Starting Model: experimental

Literature

Probing the beta-1,3:1,4 glucanase, CtLic26A, with a thio-oligosaccharide and enzyme variants.

Money, V.A., Cartmell, A., Guerreiro, C.I., Ducros, V.M., Fontes, C.M., Gilbert, H.J., Davies, G.J.

(2008) Org Biomol Chem 6: 851-853

• PubMed: 18292875 
• DOI: https://doi.org/10.1039/b719288f
• Primary Citation of Related Structures:  
  2VI0


• PubMed Abstract: 
  

  The substrate binding regions of a beta-1,3:1,4 glucanase are revealed through structural analysis with a thio-oligosaccharide and kinetics of enzyme variants.

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Organizational Affiliation: 

Structural Biology Laboratory, Department of Chemistry, The University of York, Heslington, York, U.K.YO10 5YW.

Biological Assembly 1  

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

Biological assembly 1 generated by PQS (software)

Macromolecule Content

• Total Structure Weight: 32.76 kDa 
• Atom Count: 2,770 
• Modelled Residue Count: 275 
• Deposited Residue Count: 282 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Endoglucanase H	A	282	Acetivibrio thermocellus	Mutation(s): 1  Gene Names: celH, Cthe_1472 EC: 3.2.1.4 Membrane Entity: Yes
UniProt
Find proteins for P16218 (Acetivibrio thermocellus (strain ATCC 27405 / DSM 1237 / JCM 9322 / NBRC 103400 / NCIMB 10682 / NRRL B-4536 / VPI 7372)) Explore P16218  Go to UniProtKB:  P16218

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-glucopyranose-(1-4)-beta-D-glucopyranose	B	2		N/A
Glycosylation Resources
GlyTouCan:  G84824ZO GlyCosmos:  G84824ZO

Entity ID: 3
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
4-thio-beta-D-glucopyranose-(1-4)-methyl beta-D-glucopyranoside	C	2		N/A
Glycosylation Resources
GlyTouCan:  G70586RP GlyCosmos:  G70586RP

Biologically Interesting Molecules (External Reference) 1 Unique

Entity ID: 2
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_900005	B	beta-cellobiose	Oligosaccharide / Metabolism

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.51 Å
• R-Value Free: 0.189 
• R-Value Work: 0.153 
• R-Value Observed: 0.154 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 49.578	α = 90
b = 62.648	β = 90
c = 79.067	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALA	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-03-10 
Deposition Author(s): Money, V.A., Ducros, V.M., Davies, G.J.

Revision History  

• Version 1.0: 2009-03-10
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2018-09-19
  Changes: Data collection, Database references, Source and taxonomy, Structure summary
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Derived calculations, Non-polymer description, Other, Structure summary
• Version 2.1: 2023-12-13
  Changes: Data collection, Database references, Refinement description, Structure summary