1L5G Cell Adhesion date Mar 06, 2002
title Crystal Structure Of The Extracellular Segment Of Integrin A Complex With An Arg-Gly-Asp Ligand
authors J.P.Xiong, T.Stehle, R.Zhang, A.Joachimiak, M.Frech, S.L.Goodman M.A.Arnaout
compound source
Molecule: Integrin Alpha V
Chain: A
Fragment: Alpha V Subunit Polypeptide (Cd51), Residues 31-9
Synonym: Vitronectin Receptor Alpha Subunit, Cd51
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_cell_line: Sf9
Expression_system_vector_type: Baculovirus
Other_details: Pbacpak8

Molecule: Integrin Beta-3
Chain: B
Fragment: Beta 3 Subunit Polypeptide (Cd61), Residues 27-71
Synonym: Platelet Membrane Glycoprotein Iiia, Gpiiia, Cd61
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_cell_line: Sf9
Expression_system_vector_type: Baculovirus
Other_details: Pbacpak8

Molecule: Cyclic Arg-Gly-Asp Peptide
Chain: C
Engineered: Yes

Synthetic: Yes
Other_details: The Cyclic Peptide Sequence Was Chemically Synthesized.
symmetry Space Group: P 32 2 1
R_factor 0.248 R_Free 0.328
crystal
cell
length a length b length c angle alpha angle beta angle gamma
129.790 129.790 308.780 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.20 Å
ligand MN, MVA, NAG, NDG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A
  • positive regulation of cytos...

  • B
  • smooth muscle cell migration...

  • Primary referenceCrystal structure of the extracellular segment of integrin alpha Vbeta3 in complex with an Arg-Gly-Asp ligand., Xiong JP, Stehle T, Zhang R, Joachimiak A, Frech M, Goodman SL, Arnaout MA, Science 2002 Apr 5;296(5565):151-5. PMID:11884718
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (250 Kb) [Save to disk]
  • Biological Unit Coordinates (1l5g.pdb1.gz) 240 Kb
  • LPC: Ligand-Protein Contacts for 1L5G
  • CSU: Contacts of Structural Units for 1L5G
  • Likely Quarternary Molecular Structure file(s) for 1L5G
  • Retrieve 1L5G in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1L5G from S2C, [Save to disk]
  • View 1L5G 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 1L5G
  • 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 1L5G, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1l5ga4, region A:1-438 [Jmol] [rasmolscript] [script source]
        - Domain d1l5ga1, region A:439-598 [Jmol] [rasmolscript] [script source]
        - Domain d1l5ga2, region A:599-737 [Jmol] [rasmolscript] [script source]
        - Domain d1l5ga3, region A:738-956 [Jmol] [rasmolscript] [script source]
        - Domain d1l5gb2, region B:107-354 [Jmol] [rasmolscript] [script source]
        - Domain d1l5gb4, region B:532-562 [Jmol] [rasmolscript] [script source]
        - Domain d1l5gb1, region B:55-106,B:355-434 [Jmol] [rasmolscript] [script source]
        - Domain d1l5gb5, region B:563-605 [Jmol] [rasmolscript] [script source]
        - Domain d1l5gb3, region B:606-690 [Jmol] [rasmolscript] [script source]
  • Fold representative 1l5g from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1l5g_B] [1l5g_C] [1l5g] [1l5g_A]
  • SWISS-PROT database: [P06756] [P05106]
  • Belongs to the integrin (integrin) family according to TCDB.
  • Domain organization of [ITAV_HUMAN] [ITB3_HUMAN] by SWISSPFAM
  • Domains found in 1L5G: [INB] [Int_alpha] [Integrin_B_tail] [PSI] [VWA ] by SMART
  • Other resources with information on 1L5G
  • Community annotation for 1L5G at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Domain movements in 1L5G from the Database of Macromolecular Movements.
  • Images from IMB Jena Image Library of Biological Macromolecules.

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