5ES4 Cell Adhesion date Nov 16, 2015
title Re-Refinement Of Integrin Alphaxbeta2 Ectodomain In The Clos Conformation
authors M.Sen, T.A.Springer
compound source
Molecule: Integrin Alpha-X
Chain: A, C, E, G
Fragment: Unp Residues 20-1103
Synonym: Cd11 Antigen-Like Family Member C,Leu M5,Leukocyte Glycoprotein P150,95 Alpha Chain,Leukocyte Adhesion Recepto
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Itgax, Cd11c
Expression_system: Cricetulus Griseus
Expression_system_taxid: 10029

Molecule: Integrin Beta-2
Chain: B, D, F, H
Fragment: Unp Residues 23-696
Synonym: Cell Surface Adhesion Glycoproteins Lfa-1cr3p150 Subunit Beta,Complement Receptor C3 Subunit Beta;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Itgb2, Cd18, Mfi7
Expression_system: Cricetulus Griseus
Expression_system_taxid: 10029
symmetry Space Group: P 21 21 21
R_factor 0.257 R_Free 0.307
crystal
cell
length a length b length c angle alpha angle beta angle gamma
132.030 163.480 536.650 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.30 Å
ligand BMA, CA, MAN, MG, NAG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, E, C, G
  • heterotypic cell-cell adhesi...

  • F, B, H, D


    Primary referenceLeukocyte integrin alphaLbeta2 headpiece structures: The alphaI domain, the pocket for the internal ligand, and concerted movements of its loops., Sen M, Springer TA, Proc Natl Acad Sci U S A. 2016 Mar 15;113(11):2940-5. doi:, 10.1073/pnas.1601379113. Epub 2016 Mar 2. PMID:26936951
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (2251 Kb) [Save to disk]
  • Biological Unit Coordinates (5es4.pdb1.gz) 602 Kb
  • Biological Unit Coordinates (5es4.pdb2.gz) 543 Kb
  • Biological Unit Coordinates (5es4.pdb3.gz) 541 Kb
  • Biological Unit Coordinates (5es4.pdb4.gz) 537 Kb
  • LPC: Ligand-Protein Contacts for 5ES4
  • CSU: Contacts of Structural Units for 5ES4
  • Structure Factors (3102 Kb)
  • Retrieve 5ES4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5ES4 from S2C, [Save to disk]
  • Re-refined 5es4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5ES4 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 5ES4
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5es4_D] [5es4_C] [5es4_B] [5es4] [5es4_G] [5es4_A] [5es4_E] [5es4_H] [5es4_F]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5ES4: [INB] [Int_alpha] [Integrin_B_tail] [PSI] [VWA ] by SMART
  • Other resources with information on 5ES4
  • Community annotation for 5ES4 at PDBWiki (http://pdbwiki.org)

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