2O8O | pdb_00002o8o

Crystal structure of Clostridium histolyticum colg collagenase collagen-binding domain 3B at 1.35 Angstrom resolution in presence of calcium

• PDB DOI: https://doi.org/10.2210/pdb2O8O/pdb

• Classification: HYDROLASE
• Organism(s): Hathewaya histolytica
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2006-12-12 Released: 2007-12-11 
• Deposition Author(s): Philominathan, S.T.L., Wilson, J.J., Matsushita, O., Sakon, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.35 Å
• R-Value Free: 
  0.210 (Depositor) 
• R-Value Work: 
  0.147 (Depositor), 0.150 (DCC) 
• R-Value Observed: 
  0.147 (Depositor) 

Literature

Induction of stable beta-sheet by Ca2+ in Clostridial collagen binding domain

Philominathan, S.T.L., Wilson, J.J., Matsushita, O., Sakon, J.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: light scattering, gel filtration

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Biological Assembly Evidence: light scattering, gel filtration

Macromolecule Content 

• Total Structure Weight: 27.81 kDa 
• Atom Count: 2,168 
• Modeled Residue Count: 224 
• Deposited Residue Count: 244 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Collagenase	A, B	122	Hathewaya histolytica	Mutation(s): 0  Gene Names: colG EC: 3.4.24.3
UniProt
Find proteins for Q9X721 (Hathewaya histolytica) Explore Q9X721  Go to UniProtKB:  Q9X721

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CA	C [auth A], D [auth A], F [auth B], G [auth B]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N
CL	E [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.35 Å
• R-Value Free:  0.210 (Depositor) 
• R-Value Work:  0.147 (Depositor), 0.150 (DCC) 
• R-Value Observed: 0.147 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 40.866	α = 90
b = 59.17	β = 100.77
c = 48.801	γ = 90

Software Package:

Software Name	Purpose
SHELX	model building
SHELXL-97	refinement
HKL-2000	data collection
HKL-2000	data reduction
HKL-2000	data scaling
SHELX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-12-11 
Deposition Author(s): Philominathan, S.T.L., Wilson, J.J., Matsushita, O., Sakon, J.

Revision History  

• Version 1.0: 2007-12-11
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-10-25
  Changes: Author supporting evidence
• Version 1.3: 2018-01-24
  Changes: Structure summary
• Version 1.4: 2023-12-27
  Changes: Data collection, Database references, Derived calculations