3BT1 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: 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

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: 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 21 21 2
R_factor 0.241 R_Free 0.308
crystal
cell
length a length b length c angle alpha angle beta angle gamma
97.353 105.187 55.360 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.80 Å
ligand MAN, NAG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


B


U


Primary referenceCrystal 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] (77 Kb) [Save to disk]
  • Biological Unit Coordinates (3bt1.pdb1.gz) 70 Kb
  • Biological Unit Coordinates (3bt1.pdb2.gz) 64 Kb
  • Biological Unit Coordinates (3bt1.pdb3.gz) 9 Kb
  • LPC: Ligand-Protein Contacts for 3BT1
  • CSU: Contacts of Structural Units for 3BT1
  • Likely Quarternary Molecular Structure file(s) for 3BT1
  • Structure Factors (99 Kb)
  • Retrieve 3BT1 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3BT1 from S2C, [Save to disk]
  • Re-refined 3bt1 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3BT1 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 3BT1
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3BT1, from MSDmotif at EBI
  • Fold representative 3bt1 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3bt1_U] [3bt1_A] [3bt1] [3bt1_B]
  • SWISS-PROT database: [Q03405] [P00749] [P04004]
  • Domain organization of [UPAR_HUMAN] [UROK_HUMAN] [VTNC_HUMAN] by SWISSPFAM
  • Domains found in 3BT1: [EGF] [KR] [LU] [SO ] by SMART
  • Other resources with information on 3BT1
  • Community annotation for 3BT1 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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