1DZI Integrin date Mar 01, 2000
title Integrin Alpha2 I Domain Collagen Complex
authors J.Emsley, G.Knight, R.Farndale, M.Barnes, R.Liddington
compound source
Molecule: Integrin
Chain: A
Fragment: Alpha2 I Domain
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Collagen
Chain: B, C, D
Fragment: Trimeric Gpogpogfogergpogpogpo 21meric Peptide
Engineered: Yes
Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 21 21 21
R_factor 0.200 R_Free NULL
crystal
cell
length a length b length c angle alpha angle beta angle gamma
41.994 48.377 114.545 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.10 Å
ligand CO, HYP, NH2 enzyme
related structures by homologous chain: 1AOX, 1V7P
Primary referenceStructural basis of collagen recognition by integrin alpha2beta1., Emsley J, Knight CG, Farndale RW, Barnes MJ, Liddington RC, Cell 2000 Mar 31;101(1):47-56. PMID:10778855
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (52 Kb) [Save to disk]
  • Biological Unit Coordinates (1dzi.pdb1.gz) 47 Kb
  • LPC: Ligand-Protein Contacts for 1DZI
  • CSU: Contacts of Structural Units for 1DZI
  • Likely Quarternary Molecular Structure file(s) for 1DZI
  • Structure Factors (93 Kb)
  • Retrieve 1DZI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1DZI from S2C, [Save to disk]
  • Re-refined 1dzi structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1DZI 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 1DZI
  • 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
  • 3D motif for 1DZI, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1dzia_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1dzib_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1dzic_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1dzid_, region D [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1dzi_A] [1dzi_B] [1dzi_C] [1dzi_D] [1dzi]
  • SWISS-PROT database: [P17301]
  • Domain organization of [ITA2_HUMAN] by SWISSPFAM
  • Domain found in 1DZI: [VWA ] by SMART
    • Other resources with information on 1DZI
  • Community annotation for 1DZI 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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