1KZ7 Signaling Protein date Feb 06, 2002
title Crystal Structure Of The Dhph Fragment Of Murine Dbs In Com The Placental Isoform Of Human Cdc42
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
Expression_system_taxid: 562
Expression_system_strain: B834(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-28

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 0.197 R_Free 0.239
crystal
cell
length a length b length c angle alpha angle beta angle gamma
66.500 87.980 230.510 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand MSE enzyme
related structures by homologous chain: 1DS6, 1E96, 1KZG
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] (181 Kb) [Save to disk]
  • Biological Unit Coordinates (1kz7.pdb1.gz) 89 Kb
  • Biological Unit Coordinates (1kz7.pdb2.gz) 86 Kb
  • LPC: Ligand-Protein Contacts for 1KZ7
  • CSU: Contacts of Structural Units for 1KZ7
  • Likely Quarternary Molecular Structure file(s) for 1KZ7
  • Structure Factors (563 Kb)
  • Retrieve 1KZ7 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1KZ7 from S2C, [Save to disk]
  • Re-refined 1kz7 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1KZ7 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 1KZ7
  • 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 1KZ7, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1kz7a1, region A:624-818 [Jmol] [rasmolscript] [script source]
        - Domain d1kz7a2, region A:819-965 [Jmol] [rasmolscript] [script source]
        - Domain d1kz7b_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1kz7c1, region C:1624-1818 [Jmol] [rasmolscript] [script source]
        - Domain d1kz7c2, region C:1819-1960 [Jmol] [rasmolscript] [script source]
        - Domain d1kz7d_, 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: [1kz7_C] [1kz7_D] [1kz7] [1kz7_A] [1kz7_B]
  • SWISS-PROT database: [P60953] [Q64096]
  • Domain organization of [CDC42_HUMAN] [MCF2L_MOUSE] by SWISSPFAM
  • Domains found in 1KZ7: [PH] [RHO] [RhoGEF ] by SMART
    • Other resources with information on 1KZ7
  • Community annotation for 1KZ7 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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