5DN8 Gtp-Binding Protein date Sep 09, 2015
title 1.76 Angstrom Crystal Structure Of Gtp-Binding Protein Der F Coxiella Burnetii In Complex With Gdp.
authors G.Minasov, L.Shuvalova, A.Han, H.Y.Kim, S.Grimshaw, K.Kwon, W.F.A Center For Structural Genomics Of Infectious Diseases (Csgi
compound source
Molecule: Gtpase Der
Chain: A
Synonym: Gtp-Binding Protein Enga
Engineered: Yes
 Organism_scientific: Coxiella Burnetii (Strain Rsa 493 Ni Phase I);
Organism_taxid: 227377
Strain: Rsa 493 Nine Mile Phase I
Gene: Der, Enga, Cbu_1245
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21 Magic
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmcsg7
symmetry Space Group: P 21 21 21
R_factor 0.171 R_Free 0.204
crystal
cell
length a length b length c angle alpha angle beta angle gamma
44.275 98.443 107.968 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.76 Å
ligand GDP enzyme
Gene CBU
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (161 Kb) [Save to disk]
  • Biological Unit Coordinates (5dn8.pdb1.gz) 155 Kb
  • LPC: Ligand-Protein Contacts for 5DN8
  • CSU: Contacts of Structural Units for 5DN8
  • Structure Factors (846 Kb)
  • Retrieve 5DN8 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5DN8 from S2C, [Save to disk]
  • Re-refined 5dn8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5DN8 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 5DN8
  • 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
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5dn8_A] [5dn8]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5DN8
  • Community annotation for 5DN8 at PDBWiki (http://pdbwiki.org)

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