1Q7D Contractile Protein date Aug 18, 2003
title Structure Of The Integrin Alpha2beta1 Binding Collagen Peptide
authors J.Emsley, C.G.Knight, R.W.Farndale, M.J.Barnes
compound source
Molecule: Collagen Alfa 1(I) Chain Peptide Gpogpogfogergpogpogpo;
Chain: A, B, C
Engineered: Yes
Synthetic: Yes
Other_details: The Peptide Was Chemically Synthesized. The Sequence Of The Peptide Is Naturally Found In Homo Sapiens (Human). Peptide Synthesised Using Standard Fmoc Synthesis
symmetry Space Group: C 2 2 21
R_factor 0.236 R_Free 0.266
length a length b length c angle alpha angle beta angle gamma
29.600 135.800 25.400 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.80 Å
ligand ACE, HYP, NH2 enzyme
Primary referenceStructure of the integrin alpha2beta1-binding collagen peptide., Emsley J, Knight CG, Farndale RW, Barnes MJ, J Mol Biol 2004 Jan 23;335(4):1019-28. PMID:14698296
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (17 Kb) [Save to disk]
  • Biological Unit Coordinates (1q7d.pdb1.gz) 11 Kb
  • LPC: Ligand-Protein Contacts for 1Q7D
  • CSU: Contacts of Structural Units for 1Q7D
  • Likely Quarternary Molecular Structure file(s) for 1Q7D
  • Structure Factors (51 Kb)
  • Retrieve 1Q7D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1Q7D from S2C, [Save to disk]
  • Re-refined 1q7d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1Q7D 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 1Q7D
  • 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 1Q7D, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1q7da_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1q7db_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1q7dc_, region C [Jmol] [rasmolscript] [script source]
  • Fold representative 1q7d from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1q7d_B] [1q7d_C] [1q7d] [1q7d_A]
  • SWISS-PROT database: [P02452]
  • Domain organization of [CO1A1_HUMAN] by SWISSPFAM
  • Other resources with information on 1Q7D
  • Community annotation for 1Q7D 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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