Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Protein Workshop | Ligand Explorer

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

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

Macromolecule Content

• Total Structure Weight: 19195.54 
• Atom Count: 1353 
• Residue Count: 155 
• Unique protein chains: 1

1GUI

CBM4 structure and function

• DOI: 10.2210/pdb1GUI/pdb

• Classification: CARBOHYDRATE BINDING MODULE
• Organism(s): Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)
• Expression System: Escherichia coli BL21


• Deposited: 2002-01-27 Released: 2002-09-26 
• Deposition Author(s): Nurizzo, D., Notenboom, V., Davies, G.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.9 Å
• R-Value Free: 0.197 
• R-Value Work: 0.172 

Literature

Differential Oligosaccharide Recognition by Evolutionarily-Related Beta-1,4 and Beta-1,3 Glucan-Binding Modules

Boraston, A.B., Nurizzo, D., Notenboom, V., Ducros, V., Rose, D.R., Kilburn, D.G., Davies, G.J.

(2002) J.Mol.Biol. 319: 1143

• PubMed: 12079353 
• DOI: 10.1016/S0022-2836(02)00374-1
• Primary Citation of Related Structures:  
  1GU3


• PubMed Abstract: 
  

Enzymes active on complex carbohydrate polymers frequently have modular structures in which a catalytic domain is appended to one or more carbohydrate-binding modules (CBMs). Although CBMs have been classified into a number of families based upon sequence, many closely related CBMs are specific for different polysaccharides. In order to provide a structural rationale for the recognition of different polysaccharides by CBMs displaying a conserved fold, we have studied the thermodynamics of binding and three-dimensional structures of the related family 4 CBMs from Cellulomonas fimi Cel9B and Thermotoga maritima Lam16A in complex with their ligands, beta-1,4 and beta-1,3 linked gluco-oligosaccharides, respectively. These two CBMs use a structurally conserved constellation of aromatic and polar amino acid side-chains that interact with sugars in two of the five binding subsites. Differences in the length and conformation of loops in non-conserved regions create binding-site topographies that complement the known solution conformations of their respective ligands. Thermodynamics interpreted in the light of structural information highlights the differential role of water in the interaction of these CBMs with their respective oligosaccharide ligands.

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Organizational Affiliation: 

Protein Engineering Network of Centres of Excellence, Edmonton, Alberta, Canada T6G 2S2.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
LAMINARINASE 16A	A	155	Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)	Mutation(s): 0
Find proteins for Q9WXN1 (Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)) Go to UniProtKB:  Q9WXN1

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
GOL	A	GLYCEROL GLYCERIN; PROPANE-1,2,3-TRIOL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
CA	A	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N
BGC	A	BETA-D-GLUCOSE C6 H12 O6 WQZGKKKJIJFFOK-VFUOTHLCSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.9 Å
• R-Value Free: 0.197 
• R-Value Work: 0.172 
• Space Group: P 3₂ 2 1

Unit Cell:

Length (Å)	Angle (°)
a = 105.117	α = 90.00
b = 105.117	β = 90.00
c = 49.636	γ = 120.00

Software Package:

Software Name	Purpose
DENZO	data reduction
BEAST	phasing
SCALEPACK	data scaling
REFMAC	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2002-01-27 
• Released Date: 2002-09-26 
• Deposition Author(s): Nurizzo, D., Notenboom, V., Davies, G.J.

Revision History 

• Version 1.0: 2002-09-26
  Type: Initial release
• Version 1.1: 2011-07-13
  Type: Advisory, Version format compliance