2YIN Apoptosis date May 16, 2011
title Structure Of The Complex Between Dock2 And Rac1.
authors K.A.Kulkarni, J.Yang, Z.Zhang, D.Barford
compound source
Molecule: Dedicator Of Cytokinesis Protein 2
Chain: A, B
Fragment: Dhr2 Domain, Residues 1192-1622
Synonym: Dock2
Engineered: Yes
Other_details: Cis Peptide Between 1475 And 1476 Residues O And B.;
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: B834
Expression_system_plasmid: Popin

Molecule: Ras-Related C3 Botulinum Toxin Substrate 1
Chain: C, D
Fragment: Residues 1-177
Synonym: Rac1, Cell Migration-Inducing Gene 5 Protein, Ras- Protein Tc25, P21-Rac1;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: B834
Expression_system_plasmid: Popin
symmetry Space Group: P 1 21 1
R_factor 0.203 R_Free 0.255
crystal
cell
length a length b length c angle alpha angle beta angle gamma
68.510 98.610 130.130 90.00 99.64 90.00
method X-Ray Diffractionresolution 2.70 Å
Gene
Ontology
ChainFunctionProcessComponent
D, C


Primary referenceMultiple Factors Confer Specific Cdc42 and Rac Protein Activation by Dedicator of Cytokinesis (DOCK) Nucleotide Exchange Factors., Kulkarni K, Yang J, Zhang Z, Barford D, J Biol Chem. 2011 Jul 15;286(28):25341-51. Epub 2011 May 24. PMID:21613211
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (414 Kb) [Save to disk]
  • Biological Unit Coordinates (2yin.pdb1.gz) 202 Kb
  • Biological Unit Coordinates (2yin.pdb2.gz) 204 Kb
  • CSU: Contacts of Structural Units for 2YIN
  • Structure Factors (2271 Kb)
  • Retrieve 2YIN in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2YIN from S2C, [Save to disk]
  • Re-refined 2yin structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2YIN 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 2YIN
  • 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 2YIN, from MSDmotif at EBI
  • Fold representative 2yin from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2yin_A] [2yin_B] [2yin] [2yin_C] [2yin_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 2YIN: [RHO ] by SMART
  • Other resources with information on 2YIN
  • Community annotation for 2YIN 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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