2GI7 Blood Clotting, Cell Adhesion date Mar 28, 2006
title Crystal Structure Of Human Platelet Glycoprotein Vi (Gpvi)
authors K.Horii, M.L.Kahn, A.B.Herr
compound source
Molecule: Gpvi Protein
Chain: A, B
Fragment: Collagen Binding Domain, Residues 21-203
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Human
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Tuner(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pdest17
symmetry Space Group: P 21 21 2
R_factor 0.223 R_Free 0.276
crystal
cell
length a length b length c angle alpha angle beta angle gamma
114.057 45.286 75.131 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand CL, GOL, SO4 enzyme
Primary referenceStructural basis for platelet collagen responses by the immune-type receptor glycoprotein VI., Horii K, Kahn ML, Herr AB, Blood. 2006 Aug 1;108(3):936-42. PMID:16861347
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (64 Kb) [Save to disk]
  • Biological Unit Coordinates (2gi7.pdb1.gz) 60 Kb
  • LPC: Ligand-Protein Contacts for 2GI7
  • CSU: Contacts of Structural Units for 2GI7
  • Likely Quarternary Molecular Structure file(s) for 2GI7
  • Structure Factors (264 Kb)
  • Retrieve 2GI7 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2GI7 from S2C, [Save to disk]
  • Re-refined 2gi7 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2GI7 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 2GI7
  • 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 2GI7, from MSDmotif at EBI
  • Fold representative 2gi7 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2gi7_A] [2gi7_B] [2gi7]
  • SWISS-PROT database: [Q9HCN6]
  • Domain organization of [GPVI_HUMAN] by SWISSPFAM
  • Domain found in 2GI7: [IG ] by SMART
  • Alignments of the sequence of 2GI7 with the sequences similar proteins can be viewed for 2GI7's classification [GPVI_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [GPVI_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 2GI7
  • Community annotation for 2GI7 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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