2OY4

Uninhibited human MMP-8

• PDB DOI: https://doi.org/10.2210/pdb2OY4/pdb

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


• Deposited: 2007-02-21 Released: 2007-03-06 
• Deposition Author(s): Calderone, V., Bertini, I., Fragai, M., Luchinat, C., Maletta, M., Yeo, K.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.293 
• R-Value Work: 0.225 
• R-Value Observed: 0.231 

Starting Model: experimental

Literature

Snapshots of the reaction mechanism of matrix metalloproteinases.

Bertini, I., Calderone, V., Fragai, M., Luchinat, C., Maletta, M., Yeo, K.J.

(2006) Angew Chem Int Ed Engl 45: 7952-7955

• PubMed: 17096442 
• DOI: https://doi.org/10.1002/anie.200603100
• Primary Citation of Related Structures:  
  2OXU, 2OXW, 2OXZ, 2OY2, 2OY4

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Organizational Affiliation: 

Magnetic Resonance Center (CERM), University of Florence, Via L. Sacconi 6, 50019 Sesto Fiorentino, Italy. [e-mail]

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 35.65 kDa 
• Atom Count: 2,785 
• Modelled Residue Count: 314 
• Deposited Residue Count: 316 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Neutrophil collagenase	A, B [auth F]	158	Homo sapiens	Mutation(s): 0  Gene Names: MMP8, CLG1 EC: 3.4.24.34
UniProt & NIH Common Fund Data Resources
Find proteins for P22894 (Homo sapiens) Explore P22894  Go to UniProtKB:  P22894
PHAROS:  P22894 GTEx:  ENSG00000118113

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	E [auth A], F [auth A], I [auth F], J [auth F]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
CA	C [auth A], D [auth A], G [auth F], H [auth F]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.293 
• R-Value Work: 0.225 
• R-Value Observed: 0.231 
• Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 33.294	α = 77.73
b = 47.11	β = 80.04
c = 61.325	γ = 77.01

Software Package:

Software Name	Purpose
REFMAC	refinement
ADSC	data collection
MOSFLM	data reduction
CCP4	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-03-06 
Deposition Author(s): Calderone, V., Bertini, I., Fragai, M., Luchinat, C., Maletta, M., Yeo, K.J.

Revision History  

• Version 1.0: 2007-03-06
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2023-08-30
  Changes: Data collection, Database references, Derived calculations, Refinement description