5B5P	Hydrolase Hydrolase Inhibitor	date	May 13, 2016
title	Crystal Structure Of The Catalytic Domain Of Mmp-13 Complexe Oxo-N-(3-(2-(1h-1,2,4-Triazol-3-Ylsulfanyl)Ethoxy)Benzyl)-3 Dihydroquinazoline-2-Carboxamide
authors	H.Oki, Y.Tanaka
compound		source
Molecule: Collagenase 3 Chain: A, B Fragment: Catalytic Domain, Residues 103-274 Synonym: Matrix Metalloproteinase-13,Mmp-13 Ec: 3.4.24.- Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Mmp13 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet28a
symmetry	Space Group: C 1 2 1	R_factor 0.173 R_Free 0.208
crystal cell	length a length b length c angle alpha angle beta angle gamma 135.798 36.281 96.382 90.00 130.14 90.00
method	X-Ray Diffraction	resolution	1.60 Å
ligand	CA, WNN, ZN	enzyme	Hydrolase E.C.3.4.24 BRENDA
Gene Ontology	Chain Function Process Component A, B
Primary reference	Discovery of Novel, Highly Potent, and Selective Matrix Metalloproteinase (MMP)-13 Inhibitors with a 1,2,4-Triazol-3-yl Moiety as a Zinc Binding Group Using a Structure-Based Design Approach., Nara H, Kaieda A, Sato K, Naito T, Mototani H, Oki H, Yamamoto Y, Kuno H, Santou T, Kanzaki N, Terauchi J, Uchikawa O, Kori M, J Med Chem. 2017 Jan 9. doi: 10.1021/acs.jmedchem.6b01007. PMID:27966948

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (121 Kb) [Save to disk] Biological Unit Coordinates (5b5p.pdb1.gz) 59 Kb Biological Unit Coordinates (5b5p.pdb2.gz) 58 Kb LPC: Ligand-Protein Contacts for 5B5P CSU: Contacts of Structural Units for 5B5P Structure Factors (664 Kb) Retrieve 5B5P in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5B5P from S2C, [Save to disk] Re-refined 5b5p structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

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Visual 3D analysis of 5B5P

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

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [5b5p_A] [5b5p] [5b5p_B] SWISS-PROT database: Domain organization of by SWISSPFAM

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