3BT2	Immune System	date	Dec 27, 2007
title	Structure Of Urokinase Receptor, Urokinase And Vitronectin C
authors	M.Huang
compound		source
Molecule: Urokinase-Type Plasminogen Activator Chain: A Fragment: Urokinase Amino Terminal Fragment, Urokinase-Type Plasminogen Activator Long Chain A, Unp Residues 21-153; Synonym: Upa, U-Plasminogen Activator Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Plau Expression_system: Escherichia Coli Bl21 Expression_system_taxid: 511693 Expression_system_strain: Bl21 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pmtbip
Molecule: Vitronectin Chain: B Fragment: Sometomedin-B Domain Synonym: Serum-Spreading Factor, S-Protein, V75 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Vtn Expression_system: Escherichia Coli Bl21 Expression_system_taxid: 511693 Expression_system_strain: Bl21 Expression_system_vector_type: Plasmid
Molecule: Anti-Upar Antibody, Light Chain Chain: L Fragment: Fab Fragment, Light Chain Engineered: Yes		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: Anti-Upar Antibody, Heavy Chain Chain: H Fragment: Fab Fragment, Heavy Chain Engineered: Yes		Organism_scientific: Mus Musculus Organism_common: House Mouse Organism_taxid: 10090 Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: Urokinase Plasminogen Activator Surface Receptor Chain: U Synonym: Upar, U-Par, Monocyte Activation Antigen Mo3, Cd87 Engineered: 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: S2 Cells Expression_system_vector_type: Plasmid Expression_system_plasmid: Pmtbip
symmetry	Space Group: P 1 21 1	R_factor 0.229 R_Free 0.272
crystal cell	length a length b length c angle alpha angle beta angle gamma 52.096 87.205 124.274 90.00 94.31 90.00
method	X-Ray Diffraction	resolution	2.50 Å
ligand	NAG	enzyme
note	3BT2 is a representative structure
Gene Ontology	Chain Function Process Component A B U
Primary reference	Crystal structures of two human vitronectin, urokinase and urokinase receptor complexes., Huai Q, Zhou A, Lin L, Mazar AP, Parry GC, Callahan J, Shaw DE, Furie B, Furie BC, Huang M, Nat Struct Mol Biol. 2008 Apr;15(4):422-3. Epub 2008 Mar 23. PMID:18376415

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (141 Kb) [Save to disk] Biological Unit Coordinates (3bt2.pdb1.gz) 133 Kb Biological Unit Coordinates (3bt2.pdb2.gz) 127 Kb Biological Unit Coordinates (3bt2.pdb3.gz) 10 Kb LPC: Ligand-Protein Contacts for 3BT2 CSU: Contacts of Structural Units for 3BT2 Likely Quarternary Molecular Structure file(s) for 3BT2 Structure Factors (569 Kb) Retrieve 3BT2 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3BT2 from S2C, [Save to disk] Re-refined 3bt2 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3BT2 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 3BT2

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 3BT2, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3bt2] [3bt2_H] [3bt2_B] [3bt2_A] [3bt2_U] [3bt2_L] SWISS-PROT database: [P01837] [P01675] [Q03405] [P00749] [P04004] Domain organization of [IGKC_MOUSE] [KV6A1_MOUSE] [UPAR_HUMAN] [UROK_HUMAN] [VTNC_HUMAN] by SWISSPFAM Domains found in 3BT2: [EGF] [IG_like] [IGv] [KR] [LU] [SO ] by SMART

Other resources with information on 3BT2

Community annotation for 3BT2 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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