Biological Assembly 1  

 3D View: Structure | Ligand Interaction

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 41770.57 
• Atom Count: 3084 
• Residue Count: 363 
• Unique protein chains: 1

1KWF

Atomic Resolution Structure of an Inverting Glycosidase in Complex with Substrate

• DOI: 10.2210/pdb1KWF/pdb

• Classification: HYDROLASE
• Organism(s): Hungateiclostridium thermocellum (strain ATCC 27405 / DSM 1237 / JCM 9322 / NBRC 103400 / NCIMB 10682 / NRRL B-4536 / VPI 7372)
• Expression System: Escherichia coli
• Mutation(s): 1 


• Deposited: 2002-01-29 Released: 2002-03-13 
• Deposition Author(s): Guerin, D.M.A., Lascombe, M.-B., Costabel, M., Souchon, H., Lamzin, V., Beguin, P., Alzari, P.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 0.94 Å
• R-Value Free: 0.113 

Literature

Atomic (0.94 A) resolution structure of an inverting glycosidase in complex with substrate.

Guerin, D.M., Lascombe, M.B., Costabel, M., Souchon, H., Lamzin, V., Beguin, P., Alzari, P.M.

(2002) J.Mol.Biol. 316: 1061-1069

• PubMed: 11884144 
• DOI: 10.1006/jmbi.2001.5404


• PubMed Abstract: 
  

The crystal structure of Clostridium thermocellum endoglucanase CelA in complex with cellopentaose has been determined at 0.94 A resolution. The oligosaccharide occupies six D-glucosyl-binding subsites, three on either side of the scissile glycosidic linkage. The substrate and product of the reaction occupy different positions at the reducing end of the cleft, where an extended array of hydrogen-bonding interactions with water molecules fosters the departure of the leaving group. Severe torsional strain upon the bound substrate forces a distorted boat(2,5) B conformation for the glucosyl residue bound at subsite -1, which facilitates the formation of an oxocarbenium ion intermediate and might favor the breakage of the sugar ring concomitant with catalysis.

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Related Citations: 

• Crystallization of a family 8 cellulase from Clostridium thermocellum
  Souchon, H.,Beguin, P.,Alzari, P.M.
  (1996) PROTEINS: STRUCT.,FUNCT.,GENET. 25: 134
• The crystal structure of endoglucanase CelA, a family 8 glycosyl hydrolase from Clostridium thermocellum.
  Alzari, P.M.,Souchon, H.,Dominguez, R.
  (1996) Structure 4: 265




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Organizational Affiliation: 

Unité de Biochimie Structurale, CNRS URA 2185, Institut Pasteur, 25 rue du Dr. Roux, 75724 Paris cédex 15, France.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Endoglucanase A	A	363	Hungateiclostridium thermocellum (strain ATCC 27405 / DSM 1237 / JCM 9322 / NBRC 103400 / NCIMB 10682 / NRRL B-4536 / VPI 7372)	Mutation(s): 1  Gene Names: celA EC: 3.2.1.4
Find proteins for A3DC29 (Hungateiclostridium thermocellum (strain ATCC 27405 / DSM 1237 / JCM 9322 / NBRC 103400 / NCIMB 10682 / NRRL B-4536 / VPI 7372)) Go to UniProtKB:  A3DC29

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
BGC	A	BETA-D-GLUCOSE C6 H12 O6 WQZGKKKJIJFFOK-VFUOTHLCSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 0.94 Å
• R-Value Free: 0.113 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 49.336	α = 90.00
b = 62.767	β = 90.00
c = 103.493	γ = 90.00

Software Package:

Software Name	Purpose
SCALEPACK	data scaling
SHELXL-97	refinement
DENZO	data reduction
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2002-01-29 
• Released Date: 2002-03-13 
• Deposition Author(s): Guerin, D.M.A., Lascombe, M.-B., Costabel, M., Souchon, H., Lamzin, V., Beguin, P., Alzari, P.M.

Revision History 

• Version 1.0: 2002-03-13
  Type: Initial release
• Version 1.1: 2008-01-08
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance