Macromolecule Content

• Total Structure Weight: 7938.93 
• Atom Count: 552 
• Residue Count: 71 
• Unique protein chains: 1

1DAV

SOLUTION STRUCTURE OF THE TYPE I DOCKERIN DOMAIN FROM THE CLOSTRIDIUM THERMOCELLUM CELLULOSOME (20 STRUCTURES)

• DOI: 10.2210/pdb1DAV/pdb

• Classification: HYDROLASE
• Organism(s): Clostridium thermocellum
• Expression System: Escherichia coli
• Mutation(s): 1 


• Deposited: 1999-10-31 Released: 2001-04-04 
• Deposition Author(s): Lytle, B.L., Volkman, B.F., Westler, W.M., Heckman, M.P., Wu, J.H.D.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: target function 

Literature

Solution structure of a type I dockerin domain, a novel prokaryotic, extracellular calcium-binding domain.

Lytle, B.L., Volkman, B.F., Westler, W.M., Heckman, M.P., Wu, J.H.D.

(2001) J.Mol.Biol. 307: 745-753

• PubMed: 11273698 
• DOI: 10.1006/jmbi.2001.4522
• Primary Citation of Related Structures:  
  1DAQ


• PubMed Abstract: 
  

The type I dockerin domain is responsible for incorporating its associated glycosyl hydrolase into the bacterial cellulosome, a multienzyme cellulolytic complex, via its interaction with a receptor domain (cohesin domain) of the cellulosomal scaffolding subunit. The highly conserved dockerin domain is characterized by two Ca(2+)-binding sites with sequence similarity to the EF-hand motif. Here, we present the three-dimensional solution structure of the 69 residue dockerin domain of Clostridium thermocellum cellobiohydrolase CelS. Torsion angle dynamics calculations utilizing a total of 728 NOE-derived distance constraints and 79 torsion angle restraints yielded an ensemble of 20 structures with an average backbone r.m.s.d. for residues 5 to 29 and 32 to 66 of 0.54 A from the mean structure. The structure consists of two Ca(2+)-binding loop-helix motifs connected by a linker; the E helices entering each loop of the classical EF-hand motif are absent from the dockerin domain. Each dockerin Ca(2+)-binding subdomain is stabilized by a cluster of buried hydrophobic side-chains. Structural comparisons reveal that, in its non-complexed state, the dockerin fold displays a dramatic departure from that of Ca(2+)-bound EF-hand domains. A putative cohesin-binding surface, comprised of conserved hydrophobic and basic residues, is proposed, providing new insight into cellulosome assembly.

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Related Citations: 

• Involvement of Both Dockerin Subdomains in Assembly of the Clostridium thermocellum Cellulosome
  Lytle, B.,Wu, J.H.D.
  (1998) J.Bacteriol. 180: 6581
• Secondary Structure and Calcium-induced Folding of the Clostridium thermocellum Dockerin Domain Determined by NMR Spectroscopy
  Lytle, B.L.,Volkman, B.F.,Westler, W.M.,Wu, J.H.D.
  (2000) ARCH.BIOCHEM.BIOPHYS. 379: 237




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Organizational Affiliation: 

Department of Chemical Engineering, University of Rochester, NY 14627-0166, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
ENDOGLUCANASE SS	A	71	Clostridium thermocellum	Mutation(s): 1  Gene Names: celS EC: 3.2.1.176
Find proteins for P0C2S5 (Clostridium thermocellum) Go to UniProtKB:  P0C2S5

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
CA	A	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: target function 
• Olderado: 1DAV Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1999-10-31 
• Released Date: 2001-04-04 
• Deposition Author(s): Lytle, B.L., Volkman, B.F., Westler, W.M., Heckman, M.P., Wu, J.H.D.

Revision History 

• Version 1.0: 2001-04-04
  Type: Initial release
• Version 1.1: 2008-04-27
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance