2DR3 Structural Genomics, Unknown Function date Jun 06, 2006
title Crystal Structure Of Reca Superfamily Atpase Ph0284 From Pyr Horikoshii Ot3
authors B.Bagautdinov, N.Kunishima, Riken Structural Genomicsproteomi Initiative (Rsgi)
compound source
Molecule: Upf0273 Protein Ph0284
Chain: A, B, C, D, E, F
Engineered: Yes
 Organism_scientific: Pyrococcus Horikoshii
Organism_taxid: 70601
Strain: Ot3
Gene: Ph0284
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: (De3)Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet 11a
symmetry Space Group: P 32 2 1
R_factor 0.251 R_Free 0.295
crystal
cell
length a length b length c angle alpha angle beta angle gamma
96.057 96.057 298.897 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.00 Å
ligand ADP enzyme
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, E, B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (256 Kb) [Save to disk]
  • Biological Unit Coordinates (2dr3.pdb1.gz) 250 Kb
  • LPC: Ligand-Protein Contacts for 2DR3
  • CSU: Contacts of Structural Units for 2DR3
  • Likely Quarternary Molecular Structure file(s) for 2DR3
  • Structure Factors (833 Kb)
  • Retrieve 2DR3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2DR3 from S2C, [Save to disk]
  • Re-refined 2dr3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2DR3 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 2DR3
  • 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 2DR3, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2dr3_D] [2dr3_B] [2dr3_C] [2dr3_E] [2dr3_A] [2dr3_F] [2dr3]
  • SWISS-PROT database: [O58022]
  • Domain organization of [Y284_PYRHO] by SWISSPFAM
  • Domain found in 2DR3: [AAA ] by SMART
    • Other resources with information on 2DR3
  • Community annotation for 2DR3 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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