1QVY Signaling Protein Inhibitor date Aug 29, 2003
title Crystal Structure Of Rhogdi K(199,200)R Double Mutant
authors J.Czepas, Y.Devedjiev, D.Krowarsh, U.Derewenda, Z.S.Derewenda
compound source
Molecule: Rho Gdp-Dissociation Inhibitor 1
Chain: A, B, C, D
Fragment: C-Terminal Domain
Synonym: Rho Gdi 1; Rho-Gdi Alpha; Rho Gdp Dissociation Inh
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Xl-10 Gold, Epicurian Coli Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgst-Parallel
symmetry Space Group: C 1 2 1
R_factor 0.172 R_Free 0.210
crystal
cell
length a length b length c angle alpha angle beta angle gamma
148.660 58.240 75.050 90.00 92.49 90.00
method X-Ray Diffractionresolution 1.60 Å
ligand SO4 enzyme
note 1QVY is a representative structure
related structures by homologous chain: 1FSO, 1KMT
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceThe impact of Lys-->Arg surface mutations on the crystallization of the globular domain of RhoGDI., Czepas J, Devedjiev Y, Krowarsch D, Derewenda U, Otlewski J, Derewenda ZS, Acta Crystallogr D Biol Crystallogr 2004 Feb;60(Pt 2):275-80. Epub 2004, Jan 23. PMID:14747703
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (210 Kb) [Save to disk]
  • Biological Unit Coordinates (1qvy.pdb1.gz) 52 Kb
  • Biological Unit Coordinates (1qvy.pdb2.gz) 54 Kb
  • Biological Unit Coordinates (1qvy.pdb3.gz) 52 Kb
  • Biological Unit Coordinates (1qvy.pdb4.gz) 53 Kb
  • LPC: Ligand-Protein Contacts for 1QVY
  • CSU: Contacts of Structural Units for 1QVY
  • Likely Quarternary Molecular Structure file(s) for 1QVY
  • Structure Factors (613 Kb)
  • Retrieve 1QVY in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1QVY from S2C, [Save to disk]
  • Re-refined 1qvy structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1QVY 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 1QVY
  • 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 1QVY, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1qvya_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1qvyb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1qvyc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1qvyd_, 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: [1qvy_A] [1qvy_D] [1qvy_B] [1qvy] [1qvy_C]
  • SWISS-PROT database: [P52565]
  • Domain organization of [GDIR1_HUMAN] by SWISSPFAM
  • Other resources with information on 1QVY
  • Community annotation for 1QVY 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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