1PT6 Cell Adhesion date Jun 23, 2003
title I Domain From Human Integrin Alpha1-Beta1
authors Y.Nymalm, J.S.Puranen, T.K.M.Nyholm, J.Kapyla, H.Kidron, O.Pentik T.T.Airenne, J.Heino, J.P.Slotte, M.S.Johnson, T.A.Salminen
compound source
Molecule: Integrin Alpha-1
Chain: A, B
Fragment: Residue 136-338
Synonym: Laminin And Collagen Receptor, Vla-1, Cd49a
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Itga1
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex-4t-3
symmetry Space Group: P 1 21 1
R_factor 0.191 R_Free 0.240
crystal
cell
length a length b length c angle alpha angle beta angle gamma
37.471 97.601 53.094 90.00 103.63 90.00
method X-Ray Diffractionresolution 1.87 Å
ligand GOL, MG enzyme
related structures by homologous chain: 1QC5
Primary referenceJararhagin-derived RKKH peptides induce structural changes in alpha1I domain of human integrin alpha1beta1., Nymalm Y, Puranen JS, Nyholm TK, Kapyla J, Kidron H, Pentikainen OT, Airenne TT, Heino J, Slotte JP, Johnson MS, Salminen TA, J Biol Chem 2004 Feb 27;279(9):7962-70. Epub 2003 Dec 4. PMID:14660600
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (73 Kb) [Save to disk]
  • Biological Unit Coordinates (1pt6.pdb1.gz) 34 Kb
  • Biological Unit Coordinates (1pt6.pdb2.gz) 35 Kb
  • LPC: Ligand-Protein Contacts for 1PT6
  • CSU: Contacts of Structural Units for 1PT6
  • Likely Quarternary Molecular Structure file(s) for 1PT6
  • Structure Factors (271 Kb)
  • Retrieve 1PT6 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1PT6 from S2C, [Save to disk]
  • Re-refined 1pt6 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1PT6 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 1PT6
  • 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 1PT6, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1pt6a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1pt6b_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1pt6 from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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: [1pt6] [1pt6_A] [1pt6_B]
  • SWISS-PROT database: [P56199]
  • Belongs to the integrin (integrin) family according to TCDB.
  • Domain organization of [ITA1_HUMAN] by SWISSPFAM
  • Domain found in 1PT6: [VWA ] by SMART
  • Other resources with information on 1PT6
  • Community annotation for 1PT6 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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