2OIL Protein Transport date Jan 11, 2007
title Crystal Structure Of Human Rab25 In Complex With Gdp
authors H.Zhu, J.Wang, Y.Shen, W.Tempel, R.Landry, C.H.Arrowsmith, A.M.Edw M.Sundstrom, J.Weigelt, A.Bochkarev, H.Park, Structural Genomic Consortium (Sgc)
compound source
Molecule: Ras-Related Protein Rab-25
Chain: A
Synonym: Catx-8
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Rab25, Catx8
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21-Codonplus (De-3)-Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: P28a-Thrombin-Lic
symmetry Space Group: P 43 21 2
R_factor 0.208 R_Free 0.258
crystal
cell
length a length b length c angle alpha angle beta angle gamma
90.250 90.250 45.598 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand GDP, MG, UNX enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (33 Kb) [Save to disk]
  • Biological Unit Coordinates (2oil.pdb1.gz) 28 Kb
  • LPC: Ligand-Protein Contacts for 2OIL
  • CSU: Contacts of Structural Units for 2OIL
  • Likely Quarternary Molecular Structure file(s) for 2OIL
  • Structure Factors (128 Kb)
  • Retrieve 2OIL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2OIL from S2C, [Save to disk]
  • Re-refined 2oil structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2OIL 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 2OIL
  • 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 2OIL, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2oil] [2oil_A]
  • SWISS-PROT database: [P57735]
  • Domain organization of [RAB25_HUMAN] by SWISSPFAM
  • Domain found in 2OIL: [RAB ] by SMART
    • Other resources with information on 2OIL
  • Community annotation for 2OIL 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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