2OY4	Hydrolase	date	Feb 21, 2007
title	Uninhibited Human Mmp-8
authors	V.Calderone, I.Bertini, M.Fragai, C.Luchinat, M.Maletta, K.J.Yeo
compound		source
Molecule: Neutrophil Collagenase Chain: A, F Fragment: Catalytic Domain Synonym: Matrix Metalloproteinase-8, Mmp-8, Pmnl Collagenas Cl; Ec: 3.4.24.34 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Mmp8, Clg1 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21de3 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet21
symmetry	Space Group: P 1	R_factor 0.225 R_Free 0.293
crystal cell	length a length b length c angle alpha angle beta angle gamma 33.294 47.110 61.325 77.73 80.04 77.01
method	X-Ray Diffraction	resolution	1.70 Å
ligand	CA, ZN	enzyme	Hydrolase E.C.3.4.24.34 BRENDA
Gene Ontology	Chain Function Process Component F, A
Primary reference	Snapshots of the reaction mechanism of matrix metalloproteinases., Bertini I, Calderone V, Fragai M, Luchinat C, Maletta M, Yeo KJ, Angew Chem Int Ed Engl. 2006 Dec 4;45(47):7952-5. PMID:17096442

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (60 Kb) [Save to disk] Biological Unit Coordinates (2oy4.pdb1.gz) 28 Kb Biological Unit Coordinates (2oy4.pdb2.gz) 29 Kb LPC: Ligand-Protein Contacts for 2OY4 CSU: Contacts of Structural Units for 2OY4 Likely Quarternary Molecular Structure file(s) for 2OY4 Structure Factors (1143 Kb) Retrieve 2OY4 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2OY4 from S2C, [Save to disk] Re-refined 2oy4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2OY4 in 3D

Proteopedia, because life has more than 2D. On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure. On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.

Visual 3D analysis of 2OY4

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 2OY4, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2oy4] [2oy4_F] [2oy4_A] SWISS-PROT database: [P22894] Domain organization of [MMP8_HUMAN] by SWISSPFAM Domain found in 2OY4: [ZnMc ] by SMART

Other resources with information on 2OY4

Community annotation for 2OY4 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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