2DX1 Signaling Protein date Aug 22, 2006
title Crystal Structure Of Rhogef Protein Asef
authors K.Murayama, M.Kato-Murayama, T.Terada, M.Shirouzu, S.Yokoyama, Riken Structural Genomicsproteomics Initiative (Rsgi)
compound source
Molecule: Rho Guanine Nucleotide Exchange Factor 4
Chain: A
Fragment: Residues 59-540
Synonym: Apc-Stimulated Guanine Nucleotide Exchange Factor, Asef;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Cell Free Protein Synthesis
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Px041202-06-Md01
symmetry Space Group: C 1 2 1
R_factor 0.232 R_Free 0.299
crystal
cell
length a length b length c angle alpha angle beta angle gamma
100.932 79.818 68.004 90.00 123.25 90.00
method X-Ray Diffractionresolution 2.36 Å
ligand MSE enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceCrystal structure of the rac activator, Asef, reveals its autoinhibitory mechanism., Murayama K, Shirouzu M, Kawasaki Y, Kato-Murayama M, Hanawa-Suetsugu K, Sakamoto A, Katsura Y, Suenaga A, Toyama M, Terada T, Taiji M, Akiyama T, Yokoyama S, J Biol Chem. 2007 Feb 16;282(7):4238-42. Epub 2006 Dec 26. PMID:17190834
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (73 Kb) [Save to disk]
  • Biological Unit Coordinates (2dx1.pdb1.gz) 68 Kb
  • LPC: Ligand-Protein Contacts for 2DX1
  • CSU: Contacts of Structural Units for 2DX1
  • Likely Quarternary Molecular Structure file(s) for 2DX1
  • Structure Factors (328 Kb)
  • Retrieve 2DX1 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2DX1 from S2C, [Save to disk]
  • Re-refined 2dx1 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2DX1 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 2DX1
  • 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 2DX1, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2dx1] [2dx1_A]
  • SWISS-PROT database: [Q9NR80]
  • Domain organization of [ARHG4_HUMAN] by SWISSPFAM
  • Domains found in 2DX1: [PH] [RhoGEF] [SH3 ] by SMART
  • Other resources with information on 2DX1
  • Community annotation for 2DX1 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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