4WK2 Cell Adhesion Immune System date Oct 01, 2014
title Metal Ion And Ligand Binding Of Integrin
authors W.Xia, T.A.Springer
compound source
Molecule: Integrin Alpha-5
Chain: A
Fragment: Unp Residues 42-493
Synonym: Cd49 Antigen-Like Family Member E,Fibronectin Rece Subunit Alpha,Integrin Alpha-F,Vla-5;
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Itga5, Fnra
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek 293

Molecule: Integrin Beta-1
Chain: B
Fragment: Unp Residues 21-465
Synonym: Fibronectin Receptor Subunit Beta,Glycoprotein Iia Vla-4 Subunit Beta;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Itgb1, Fnrb, Mdf2, Msk12
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek 293

Molecule: Gly-Arg-Gly-Asp-Ser-Pro
Chain: C
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 21 21 21
R_factor 0.210 R_Free 0.254
crystal
cell
length a length b length c angle alpha angle beta angle gamma
60.980 118.390 170.290 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.50 Å
ligand BMA, CA, MAN, MG, NAG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceMetal ion and ligand binding of integrin alpha5beta1., Xia W, Springer TA, Proc Natl Acad Sci U S A. 2014 Dec 4. pii: 201420645. PMID:25475857
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (450 Kb) [Save to disk]
  • Biological Unit Coordinates (4wk2.pdb1.gz) 437 Kb
  • LPC: Ligand-Protein Contacts for 4WK2
  • CSU: Contacts of Structural Units for 4WK2
  • Structure Factors (369 Kb)
  • Retrieve 4WK2 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4WK2 from S2C, [Save to disk]
  • Re-refined 4wk2 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4WK2 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 4WK2
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4WK2, from MSDmotif at EBI
  • Fold representative 4wk2 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4wk2] [4wk2_A] [4wk2_C] [4wk2_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4WK2: [INB] [Int_alpha] [PSI] [VWA ] by SMART
  • Other resources with information on 4WK2
  • Community annotation for 4WK2 at PDBWiki (http://pdbwiki.org)

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