2WMN Cell Cycle date Jul 02, 2009
title Structure Of The Complex Between Dock9 And Cdc42-Gdp.
authors J.Yang, S.M.Roe, D.Barford
compound source
Molecule: Dedicator Of Cytokinesis Protein 9
Chain: A
Fragment: Dhr2 Domain, Residues 1605-1652,1676-2053
Synonym: Cdc42 Guanine Nucleotide Exchange Factor Zizimin-1, Dock9;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Cell Division Control Protein 42 Homolog
Chain: B
Synonym: G25k Gtp-Binding Protein, Cdc42
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 2
R_factor 0.2197 R_Free 0.2762
crystal
cell
length a length b length c angle alpha angle beta angle gamma
93.050 88.472 90.120 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.39 Å
ligand GDP enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceActivation of Rho GTPases by DOCK exchange factors is mediated by a nucleotide sensor., Yang J, Zhang Z, Roe SM, Marshall CJ, Barford D, Science. 2009 Sep 11;325(5946):1398-402. PMID:19745154
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (103 Kb) [Save to disk]
  • Biological Unit Coordinates (2wmn.pdb1.gz) 192 Kb
  • LPC: Ligand-Protein Contacts for 2WMN
  • CSU: Contacts of Structural Units for 2WMN
  • Structure Factors (1501 Kb)
  • Retrieve 2WMN in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2WMN from S2C, [Save to disk]
  • Re-refined 2wmn structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2WMN 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 2WMN
  • 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 2WMN, from MSDmotif at EBI
  • Fold representative 2wmn from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2wmn_A] [2wmn_B] [2wmn]
  • SWISS-PROT database: [P60953] [Q9BZ29]
  • Domain organization of [CDC42_HUMAN] [DOCK9_HUMAN] by SWISSPFAM
  • Domain found in 2WMN: [RHO ] by SMART
  • Alignments of the sequence of 2WMN with the sequences similar proteins can be viewed for 2WMN's classification [CDC42_HUMAN] [DOCK9_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 [CDC42_HUMAN] [DOCK9_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 2WMN
  • Community annotation for 2WMN 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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