3IMJ Signaling Protein Peptide date Aug 10, 2009
title Crystal Structure Of The Grb2 Sh2 Domain In Complex With A Cyclopropyl-Constrained Ac-Ptyr-Ile-Asn-Nh2 Tripeptide Mimi
authors J.H.Clements
compound source
Molecule: Growth Factor Receptor-Bound Protein 2
Chain: A, B
Fragment: Sh2 Domain
Synonym: Adapter Protein Grb2, Sh2sh3 Adapter Grb2, Protei
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Grb2, Ash
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Sg13009
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pqe-60
symmetry Space Group: P 1 21 1
R_factor 0.200 R_Free 0.229
crystal
cell
length a length b length c angle alpha angle beta angle gamma
31.595 85.511 41.641 90.00 98.47 90.00
method X-Ray Diffractionresolution 2.02 Å
ligand AYI enzyme
Primary referenceThermodynamic and Structural Effects of Conformational Constraints in Protein-Ligand Interactions. Entropic Paradoxy Associated with Ligand Preorganization., Delorbe JE, Clements JH, Teresk MG, Benfield AP, Plake HR, Millspaugh LE, Martin SF, J Am Chem Soc. 2009 Nov 3. PMID:19886660
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (44 Kb) [Save to disk]
  • Biological Unit Coordinates (3imj.pdb1.gz) 21 Kb
  • Biological Unit Coordinates (3imj.pdb2.gz) 20 Kb
  • Biological Unit Coordinates (3imj.pdb3.gz) 39 Kb
  • LPC: Ligand-Protein Contacts for 3IMJ
  • CSU: Contacts of Structural Units for 3IMJ
  • Structure Factors (84 Kb)
  • Retrieve 3IMJ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3IMJ from S2C, [Save to disk]
  • Re-refined 3imj structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3IMJ 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 3IMJ
  • 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 3IMJ, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3imj_B] [3imj_A] [3imj]
  • SWISS-PROT database: [P62993]
  • Domain organization of [GRB2_HUMAN] by SWISSPFAM
  • Domain found in 3IMJ: [SH2 ] by SMART
    • Other resources with information on 3IMJ
  • Community annotation for 3IMJ 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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