1YJ8 Oxidoreductase date Jan 13, 2005
title Initial Structural Analysis Of Plasmodium Falciparum Glycero Phosphate Dehydrogenase
authors M.A.Robien, W.G.J.Hol, Structural Genomics Of Pathogenic Proto Consortium (Sgpp)
compound source
Molecule: Glycerol-3-Phosphate Dehydrogenase
Chain: A, B, C
Ec: 1.1.1.8
Engineered: Yes
 Organism_scientific: Plasmodium Falciparum
Organism_taxid: 36329
Strain: 3d7
Gene: Pfl0780w
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21starde3
Expression_system_vector_type: T7 System
Expression_system_plasmid: Pet14b
symmetry Space Group: P 63 2 2
R_factor 0.236 R_Free 0.256
crystal
cell
length a length b length c angle alpha angle beta angle gamma
177.455 177.455 232.699 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.85 Å
ligand
enzyme Oxidoreductase E.C.1.1.1.8 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, C, B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (171 Kb) [Save to disk]
  • Biological Unit Coordinates (1yj8.pdb1.gz) 111 Kb
  • Biological Unit Coordinates (1yj8.pdb2.gz) 111 Kb
  • CSU: Contacts of Structural Units for 1YJ8
  • Likely Quarternary Molecular Structure file(s) for 1YJ8
  • Structure Factors (716 Kb)
  • Retrieve 1YJ8 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1YJ8 from S2C, [Save to disk]
  • Re-refined 1yj8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1YJ8 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 1YJ8
  • 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 1YJ8, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1yj8_B] [1yj8] [1yj8_A] [1yj8_C]
  • SWISS-PROT database: [Q8I5P5]
  • Domain organization of [Q8I5P5_PLAF7] by SWISSPFAM
    • Other resources with information on 1YJ8
  • Community annotation for 1YJ8 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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