1D5C Endocytosis Exocytosis date Oct 06, 1999
title Crystal Structure Of Plasmodium Falciparum Rab6 Complexed Wi
authors D.Chattopadhyay, G.Langsley, M.Carson, R.Recacha, L.Delucas, C.Sm
compound source
Molecule: Rab6 Gtpase
Chain: A
Engineered: Yes
Organism_scientific: Plasmodium Falciparum
Organism_common: Malaria Parasite P. Falciparum
Organism_taxid: 5833
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_plasmid: Pet21
symmetry Space Group: P 43 21 2
R_factor 0.214 R_Free 0.246
crystal
cell
length a length b length c angle alpha angle beta angle gamma
81.200 81.200 90.840 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand GDP, MG, MSE enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructure of the nucleotide-binding domain of Plasmodium falciparum rab6 in the GDP-bound form., Chattopadhyay D, Langsley G, Carson M, Recacha R, DeLucas L, Smith C, Acta Crystallogr D Biol Crystallogr 2000 Aug;56 ( Pt 8):937-44. PMID:10944329
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (34 Kb) [Save to disk]
  • Biological Unit Coordinates (1d5c.pdb1.gz) 29 Kb
  • LPC: Ligand-Protein Contacts for 1D5C
  • CSU: Contacts of Structural Units for 1D5C
  • Likely Quarternary Molecular Structure file(s) for 1D5C
  • Structure Factors (134 Kb)
  • Retrieve 1D5C in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1D5C from S2C, [Save to disk]
  • Re-refined 1d5c structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1D5C 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 1D5C
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1D5C, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1d5ca_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 1d5c from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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: [1d5c] [1d5c_A]
  • SWISS-PROT database: [Q26000]
  • Domain organization of [Q26000_PLAFA] by SWISSPFAM
  • Domain found in 1D5C: [RAB ] by SMART
  • Other resources with information on 1D5C
  • Community annotation for 1D5C 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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