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 Diffraction	resolution	1.5 Å
ligand	MSE	enzyme
note	2J05 is a representative structure
Primary reference	High 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

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_A] [2j05_B] 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)

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