3V4V Cell Adhesion date Dec 15, 2011
title Crystal Structure Of A4b7 Headpiece Complexed With Fab Act-1 Ro0505376
authors Y.Yu, J.Zhu, T.A.Springer
compound source
Molecule: Integrin Alpha-4
Chain: A, C
Fragment: Unp Residues 34-620
Synonym: Cd49 Antigen-Like Family Member D, Integrin Alpha- Subunit Alpha;
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Itga4, Cd49d
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029
Expression_system_cell_line: Cho

Molecule: Integrin Beta-7
Chain: B, D
Fragment: Unp Residues 20-512
Synonym: Gut Homing Receptor Beta Subunit
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Itgb7
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029
Expression_system_cell_line: Cho

Molecule: Monoclonal Antibody Act-1 Heavy Chain
Chain: H, M
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Expression_system: Mus Musculus
Expression_system_taxid: 10090

Molecule: Monoclonal Antibody Act-1 Light Chain
Chain: L, N
Engineered: Yes

Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Expression_system: Mus Musculus
Expression_system_taxid: 10090
symmetry Space Group: P 1 21 1
R_factor 0.197 R_Free 0.231
crystal
cell
length a length b length c angle alpha angle beta angle gamma
127.580 123.530 154.160 90.00 112.63 90.00
method X-Ray Diffractionresolution 3.10 Å
ligand 0DU, BMA, CA, MAN, MG, NAG, TRS enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, C


D, B


Primary referenceStructural specializations of alpha(4)beta(7), an integrin that mediates rolling adhesion., Yu Y, Zhu J, Mi LZ, Walz T, Sun H, Chen J, Springer TA, J Cell Biol. 2012 Jan 9;196(1):131-46. PMID:22232704
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (934 Kb) [Save to disk]
  • Biological Unit Coordinates (3v4v.pdb1.gz) 464 Kb
  • Biological Unit Coordinates (3v4v.pdb2.gz) 465 Kb
  • LPC: Ligand-Protein Contacts for 3V4V
  • CSU: Contacts of Structural Units for 3V4V
  • Structure Factors (1248 Kb)
  • Retrieve 3V4V in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3V4V from S2C, [Save to disk]
  • Re-refined 3v4v structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3V4V 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 3V4V
  • 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 3V4V, from MSDmotif at EBI
  • Fold representative 3v4v from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3v4v_N] [3v4v] [3v4v_A] [3v4v_D] [3v4v_C] [3v4v_L] [3v4v_H] [3v4v_B] [3v4v_M]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3V4V: [IG_like] [IGv] [INB] [Int_alpha] [PSI] [VWA ] by SMART
  • Other resources with information on 3V4V
  • Community annotation for 3V4V at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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