2J05 Signal Transduction date Aug 01, 2006
title Crystal Structure Of The Rasgap Sh3 Domain At 1.5 Angstrom Resolution
authors B.Ross, M.Gajhede, O.Kristensen
compound source
Molecule: Ras Gtpase-Activating Protein 1
Chain: A, B
Fragment: Sh3 Domain, Residues 281-341
Synonym: Gtpase-Activating Protein, Gap, Ras P21 Protein Activator, P120gap, Rasgap;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector: Pet28a
symmetry Space Group: P 61
R_factor 0.177 R_Free 0.199
crystal
cell
length a length b length c angle alpha angle beta angle gamma
32.800 32.800 183.330 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.5 Å
ligand MSE enzyme
note 2J05 is a representative structure
Primary referenceHigh resolution crystal structures of the p120 RasGAP SH3 domain., Ross B, Kristensen O, Favre D, Walicki J, Kastrup JS, Widmann C, Gajhede M, Biochem Biophys Res Commun. 2007 Feb 9;353(2):463-8. Epub 2006 Dec 18. PMID:17188236
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (27 Kb) [Save to disk]
  • Biological Unit Coordinates (2j05.pdb1.gz) 24 Kb
  • LPC: Ligand-Protein Contacts for 2J05
  • CSU: Contacts of Structural Units for 2J05
  • Likely Quarternary Molecular Structure file(s) for 2J05
  • Structure Factors (229 Kb)
  • Retrieve 2J05 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2J05 from S2C, [Save to disk]
  • Re-refined 2j05 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2J05 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 2J05
  • 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 2J05, from MSDmotif at EBI
  • Fold representative 2j05 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2j05_B] [2j05] [2j05_A]
  • SWISS-PROT database: [P20936]
  • Domain organization of [RASA1_HUMAN] by SWISSPFAM
  • Domain found in 2J05: [SH3 ] by SMART
  • Alignments of the sequence of 2J05 with the sequences similar proteins can be viewed for 2J05's classification [RASA1_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 [RASA1_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 2J05
  • Community annotation for 2J05 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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