4HU0 | pdb_00004hu0

Crystal Structure of a metagenome-derived cellulase Cel5A in complex with cellotetraose

• PDB DOI: https://doi.org/10.2210/pdb4HU0/pdb

• Classification: HYDROLASE
• Organism(s): uncultured bacterium
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2012-11-02 Released: 2012-12-05 
• Deposition Author(s): Zhuang, N., Lee, K.H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.38 Å
• R-Value Free: 
  0.188 (Depositor), 0.182 (DCC) 
• R-Value Work: 
  0.152 (Depositor), 0.151 (DCC) 
• R-Value Observed: 
  0.154 (Depositor) 

Literature

Crystal Structure of a metagenome-derived cellulase Cel5A in complex with cellotetraose

Zhuang, N., Lee, K.H.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 42.9 kDa 
• Atom Count: 3,070 
• Modeled Residue Count: 330 
• Deposited Residue Count: 359 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cellulase	A	359	uncultured bacterium	Mutation(s): 0  Gene Names: Cel5A

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-glucopyranose-(1-4)-beta-D-glucopyranose-(1-4)-beta-D-glucopyranose-(1-4)-beta-D-glucopyranose	B	4		N/A
Glycosylation Resources
GlyTouCan:  G00025MO GlyCosmos:  G00025MO GlyGen:  G00025MO

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	C [auth A], D [auth A], E [auth A], F [auth A], G [auth A], H [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Biologically Interesting Molecules (External Reference) 1 Unique

Entity ID: 2
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_900011	B	beta-cellotetraose	Oligosaccharide / Metabolism

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.38 Å
• R-Value Free:  0.188 (Depositor), 0.182 (DCC) 
• R-Value Work:  0.152 (Depositor), 0.151 (DCC) 
• R-Value Observed: 0.154 (Depositor) 

Space Group: P 2₁ 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 136.924	α = 90
b = 136.924	β = 90
c = 136.924	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-12-05 
Deposition Author(s): Zhuang, N., Lee, K.H.

Revision History  

• Version 1.0: 2012-12-05
  Type: Initial release
  
• Version 1.1: 2017-11-15
  Changes: Refinement description
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Database references, Derived calculations, Non-polymer description, Structure summary
• Version 2.1: 2024-11-06
  Changes: Data collection, Database references, Structure summary