Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 72.40 kDa 
• Atom Count: 5435 
• Modelled Residue Count: 629 
• Deposited Residue Count: 629 
• Unique protein chains: 1

1FBW

Crystal structure of the cellulase CEL48F from C. cellulolyticum in complex with cellohexaose

• PDB DOI: 10.2210/pdb1FBW/pdb

• Classification: HYDROLASE
• Organism(s): Ruminiclostridium cellulolyticum
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2000-07-17 Released: 2000-08-02 
• Deposition Author(s): Parsiegla, G., Reverbel-Leroy, C., Tardif, C., Belaich, J.P., Driguez, H., Haser, R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.196 
• R-Value Work: 0.161 

Literature

Crystal Structures of the Cellulase Cel48F in Complex with Inhibitors and Substrates Give Insights Into its Processive Action

Parsiegla, G., Reverbel-Leroy, C., Tardif, C., Belaich, J.P., Driguez, H., Haser, R.

(2000) Biochemistry 39: 11238-11246

• PubMed: 10985769 
• DOI: 10.1021/bi001139p
• Primary Citation of Related Structures:  
  1F9D, 1F9O, 1FAE, 1FBO, 1FBW


• PubMed Abstract: 
  

Cellulase Cel48F from Clostridium cellulolyticum was described as a processive endo-cellulase. The active site is composed of a 25 A long tunnel which is followed by an open cleft. During the processive action, the cellulose substrate has to slide through the tunnel to continuously supply the leaving group site with sugar residues after the catalytic cleavage. To study this processive action in the tunnel, the native catalytic module of Cel48F and the inactive mutant E55Q, have been cocrystallized with cellobiitol, two thio-oligosaccharide inhibitors (PIPS-IG3 and IG4) and the cello-oligosaccharides cellobiose, -tetraose and -hexaose. Seven sub-sites in the tunnel section of the active center could be identified and three of the four previously reported sub-sites in the open cleft section were reconfirmed. The sub-sites observed for the thio-oligosaccharide inhibitors and oligosaccharides, respectively, were located at two different positions in the tunnel corresponding to a shift in the chain direction of about a half sugar subunit. These two positions have different patterns of stacking interactions with aromatic residues present in the tunnel. Multiple patterns are not observed in nonprocessive endo-cellulases, where only one sugar position is favored by aromatic stacking. It is therefore proposed that the aromatic residues serve as lubricating agents to reduce the sliding barrier in the processive action.

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Related Citations: 

• The crystal structure of the processive endocellulase CelF of Clostridium cellulolyticum in complex with a thiooligosaccharide inhibitor at 2.0 A
  Parsiegla, G., Juy, M., Reverbel-Leroy, C., Tardif, C., Belaich, J.P., Driguez, H., Haser, R.
  (1998) EMBO J 17: 5551

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Organizational Affiliation: 

Institut de Biologie et Chimie des Protéines, Laboratoire de Bio-Cristallographie, Centre National de la Recherche Scientifique UMR 5086 and Université Claude Bernard Lyon I, 7 passage du Vercors, 69367 Lyon Cedex 07, France.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ENDO-1,4-BETA-GLUCANASE F	A	629	Ruminiclostridium cellulolyticum	Mutation(s): 1  EC: 3.2.1.4
UniProt
Find proteins for P37698 (Ruminiclostridium cellulolyticum (strain ATCC 35319 / DSM 5812 / JCM 6584 / H10)) Explore P37698  Go to UniProtKB:  P37698

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Chain Length	2D Diagram	Glycosylation
alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose	B	6		N/A
Glycosylation Resources
GlyTouCan:  G91368RN GlyCosmos:  G91368RN GlyGen:  G91368RN

Entity ID: 3
Molecule	Chains	Chain Length	2D Diagram	Glycosylation
alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose	C	3		N/A
Glycosylation Resources
GlyTouCan:  G96370VA GlyCosmos:  G96370VA GlyGen:  G96370VA

Small Molecules

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

Biologically Interesting Molecules (External Reference) 2 Unique

Entity ID: 2
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_900035	B	alpha-maltohexaose	Oligosaccharide / Substrate analog		Ligand Interaction

Entity ID: 3
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_900009	C	alpha-maltotriose	Oligosaccharide / Nutrient		Ligand Interaction

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.196 
• R-Value Work: 0.161 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 61.38	α = 90
b = 84.92	β = 90
c = 121.82	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALA	data scaling
X-PLOR	model building
X-PLOR	refinement
CCP4	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2000-07-17 
• Released Date: 2000-08-02 
Deposition Author(s): Parsiegla, G., Reverbel-Leroy, C., Tardif, C., Belaich, J.P., Driguez, H., Haser, R.

Revision History  

• Version 1.0: 2000-08-02
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary
• Version 2.1: 2021-11-03
  Changes: Database references, Structure summary