1KZG Signaling Protein date Feb 06, 2002
title Dbscdc42(Y889f)
authors K.L.Rossman, D.K.Worthylake, J.T.Snyder, D.P.Siderovski, S.L.Cam J.Sondek
compound source
Molecule: Guanine Nucleotide Exchange Factor Dbs
Chain: A, C
Fragment: Dhph Fragment (Residues 623-967)
Synonym: Dbl'S Big Sister, Dbs
Engineered: Yes
Mutation: Yes
 Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Gene: Dbs
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-28a

Molecule: Cdc42 Homolog
Chain: B, D
Fragment: Residues 1-188
Synonym: G25k Gtp-Binding Protein
Engineered: Yes
Mutation: Yes
Other_details: Placental Isoform
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cdc42
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-21a
symmetry Space Group: P 21 21 21
R_factor 0.217 R_Free 0.259
crystal
cell
length a length b length c angle alpha angle beta angle gamma
67.320 88.190 232.780 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.60 Å
related structures by homologous chain: 1DOA, 1I4D, 1KZ7, 1LB1
Gene
Ontology
ChainFunctionProcessComponent
A, C


D, B
  • ubiquitin protein ligase act...


    • Primary referenceA crystallographic view of interactions between Dbs and Cdc42: PH domain-assisted guanine nucleotide exchange., Rossman KL, Worthylake DK, Snyder JT, Siderovski DP, Campbell SL, Sondek J, EMBO J 2002 Mar 15;21(6):1315-26. PMID:11889037
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (173 Kb) [Save to disk]
  • Biological Unit Coordinates (1kzg.pdb1.gz) 87 Kb
  • Biological Unit Coordinates (1kzg.pdb2.gz) 84 Kb
  • CSU: Contacts of Structural Units for 1KZG
  • Likely Quarternary Molecular Structure file(s) for 1KZG
  • Structure Factors (498 Kb)
  • Retrieve 1KZG in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1KZG from S2C, [Save to disk]
  • Re-refined 1kzg structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1KZG 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 1KZG
  • 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 1KZG, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1kzga1, region A:624-818 [Jmol] [rasmolscript] [script source]
        - Domain d1kzga2, region A:819-965 [Jmol] [rasmolscript] [script source]
        - Domain d1kzgb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1kzgc1, region C:1624-1818 [Jmol] [rasmolscript] [script source]
        - Domain d1kzgc2, region C:1819-1960 [Jmol] [rasmolscript] [script source]
        - Domain d1kzgd_, region D [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1kzg_C] [1kzg_B] [1kzg_D] [1kzg] [1kzg_A]
  • SWISS-PROT database: [P60953] [Q64096]
  • Domain organization of [CDC42_HUMAN] [MCF2L_MOUSE] by SWISSPFAM
  • Domains found in 1KZG: [PH] [RHO] [RhoGEF ] by SMART
    • Other resources with information on 1KZG
  • Community annotation for 1KZG 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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