3DPE	Hydrolase	date	Jul 08, 2008
title	Crystal Structure Of The Complex Between Mmp-8 And A Non-Zin Chelating Inhibitor
authors	G.Pochetti, R.Montanari, F.Mazza
compound		source
Molecule: Neutrophil Collagenase Chain: A Fragment: Mmp-8 Catalytic Domain, Unp Residues 100-262 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 Expression_system_taxid: 562 Expression_system_strain: Bl21 Expression_system_vector_type: Plasmid Expression_system_plasmid: Psvb30
symmetry	Space Group: P 1 21 1	R_factor 0.210 R_Free 0.242
crystal cell	length a length b length c angle alpha angle beta angle gamma 32.290 68.950 32.750 90.00 105.41 90.00
method	X-Ray Diffraction	resolution	1.60 Å
ligand	AXB, CA, ZN BindingDB	enzyme	Hydrolase E.C.3.4.24.34 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	Extra Binding Region Induced by Non-Zinc Chelating Inhibitors into the S(1)' Subsite of Matrix Metalloproteinase 8 (MMP-8) (dagger)., Pochetti G, Montanari R, Gege C, Chevrier C, Taveras AG, Mazza F, J Med Chem. 2009 Jan 27. PMID:19173605

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (37 Kb) [Save to disk] Biological Unit Coordinates (3dpe.pdb1.gz) 32 Kb LPC: Ligand-Protein Contacts for 3DPE CSU: Contacts of Structural Units for 3DPE Likely Quarternary Molecular Structure file(s) for 3DPE Structure Factors (140 Kb) Retrieve 3DPE in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3DPE from S2C, [Save to disk] Re-refined 3dpe structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3DPE 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 3DPE

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 3DPE, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3dpe] [3dpe_A] SWISS-PROT database: [P22894] Domain organization of [MMP8_HUMAN] by SWISSPFAM Domain found in 3DPE: [ZnMc ] by SMART

Other resources with information on 3DPE

Community annotation for 3DPE at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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