3BN3 Cell Adhesion, Immune System date Dec 13, 2007
title Crystal Structure Of Icam-5 In Complex With Al I Domain
authors H.Zhang, T.A.Springer, J.H.Wang
compound source
Molecule: Integrin Alpha-L
Chain: A
Fragment: I Domain
Synonym: Leukocyte Adhesion Glycoprotein Lfa-1 Alpha Chain Leukocyte Function-Associated Molecule 1 Alpha Chain; Cd11a
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Itgal, Cd11a
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet22b

Molecule: Intercellular Adhesion Molecule 5
Chain: B
Fragment: N-Terminal, Two Domains
Synonym: Icam-5; Telencephalin
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Icam5, Tlcn, Tln
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029
Expression_system_strain: Lec 3.2.8.1
Expression_system_tissue: Ovary
Expression_system_cell: Hampster Ovary Cells
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pbj5-Gs
symmetry Space Group: P 21 21 21
R_factor 0.191 R_Free 0.235
crystal
cell
length a length b length c angle alpha angle beta angle gamma
61.793 71.507 143.871 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.10 Å
ligand GOL, MG, NAG enzyme
Gene
Ontology
ChainFunctionProcessComponent
B


Primary referenceAn unusual allosteric mobility of the c-terminal helix of a high-affinity alphaL integrin I domain variant bound to ICAM-5., Zhang H, Casasnovas JM, Jin M, Liu JH, Gahmberg CG, Springer TA, Wang JH, Mol Cell. 2008 Aug 8;31(3):432-7. PMID:18691975
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (76 Kb) [Save to disk]
  • Biological Unit Coordinates (3bn3.pdb1.gz) 69 Kb
  • LPC: Ligand-Protein Contacts for 3BN3
  • CSU: Contacts of Structural Units for 3BN3
  • Likely Quarternary Molecular Structure file(s) for 3BN3
  • Structure Factors (550 Kb)
  • Retrieve 3BN3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3BN3 from S2C, [Save to disk]
  • Re-refined 3bn3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3BN3 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 3BN3
  • 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 3BN3, from MSDmotif at EBI
  • Fold representative 3bn3 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3bn3] [3bn3_A] [3bn3_B]
  • SWISS-PROT database: [Q9UMF0] [P20701]
  • Domain organization of [ICAM5_HUMAN] [ITAL_HUMAN] by SWISSPFAM
  • Domain found in 3BN3: [VWA ] by SMART
  • Other resources with information on 3BN3
  • Community annotation for 3BN3 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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