2I9B	Hydrolase	date	Sep 05, 2006
title	Crystal Structure Of Atf-Urokinase Receptor Complex
authors	J.Lubkowski, C.Barinka
compound		source
Molecule: Urokinase-Type Plasminogen Activator Chain: A, B, C, D Fragment: Atf, Residues 21-163 Ec: 3.4.21.73 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Plau Expression_system: Drosophila Melanogaster Expression_system_common: Fruit Fly Expression_system_taxid: 7227 Expression_system_strain: Schneider'S S2 Cells Expression_system_vector_type: Plasmid Expression_system_plasmid: Pmtbipv5-His
Molecule: Urokinase Plasminogen Activator Surface Receptor Chain: E, F, G, H Fragment: Upar, Residues 23-299 Synonym: Upar, U- Par, Monocyte Activation Antigen Mo3, Cd8 Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Plaur, Mo3, Upar Expression_system: Drosophila Melanogaster Expression_system_common: Fruit Fly Expression_system_taxid: 7227 Expression_system_strain: Schneider'S S2 Cells Expression_system_vector_type: Plasmid Expression_system_plasmid: Pmtbipv5-His
symmetry	Space Group: P 1 21 1	R_factor 0.222 R_Free 0.265
crystal cell	length a length b length c angle alpha angle beta angle gamma 62.914 281.921 62.811 90.00 105.41 90.00
method	X-Ray Diffraction	resolution	2.80 Å
ligand	BMA, NAG, SO4	enzyme	Hydrolase E.C.3.4.21.73 BRENDA
Gene Ontology	Chain Function Process Component A, B, C, D F, E, H, G
Primary reference	Structural basis of interaction between urokinase-type plasminogen activator and its receptor., Barinka C, Parry G, Callahan J, Shaw DE, Kuo A, Bdeir K, Cines DB, Mazar A, Lubkowski J, J Mol Biol. 2006 Oct 20;363(2):482-95. Epub 2006 Aug 26. PMID:16979660

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (248 Kb) [Save to disk] Biological Unit Coordinates (2i9b.pdb1.gz) 65 Kb Biological Unit Coordinates (2i9b.pdb2.gz) 65 Kb Biological Unit Coordinates (2i9b.pdb3.gz) 61 Kb Biological Unit Coordinates (2i9b.pdb4.gz) 61 Kb LPC: Ligand-Protein Contacts for 2I9B CSU: Contacts of Structural Units for 2I9B Likely Quarternary Molecular Structure file(s) for 2I9B Structure Factors (742 Kb) Retrieve 2I9B in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2I9B from S2C, [Save to disk] Re-refined 2i9b structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2I9B 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 2I9B

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 2I9B, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2i9b_C] [2i9b_H] [2i9b] [2i9b_B] [2i9b_F] [2i9b_A] [2i9b_D] [2i9b_G] [2i9b_E] SWISS-PROT database: [Q03405] [P00749] Domain organization of [UPAR_HUMAN] [UROK_HUMAN] by SWISSPFAM Domains found in 2I9B: [EGF] [KR] [LU ] by SMART

Other resources with information on 2I9B

Community annotation for 2I9B at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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