2DR1 Transferase date Jun 05, 2006
title Crystal Structure Of The Ph1308 Protein From Pyrococcus Hori
authors H.Mizutani, N.Kunishima, Riken Structural Genomicsproteomics Initiative (Rsgi)
compound source
Molecule: 386aa Long Hypothetical Serine Aminotransferase
Chain: A, B
Synonym: Ph1308 Protein
Engineered: Yes
 Organism_scientific: Pyrococcus Horikoshii
Organism_taxid: 70601
Strain: Ot3
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21-Codonplus(De3)-Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet11a
symmetry Space Group: P 65
R_factor 0.180 R_Free 0.202
crystal
cell
length a length b length c angle alpha angle beta angle gamma
181.238 181.238 47.289 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.90 Å
ligand CL, NA, PLP enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (137 Kb) [Save to disk]
  • Biological Unit Coordinates (2dr1.pdb1.gz) 132 Kb
  • LPC: Ligand-Protein Contacts for 2DR1
  • CSU: Contacts of Structural Units for 2DR1
  • Likely Quarternary Molecular Structure file(s) for 2DR1
  • Structure Factors (583 Kb)
  • Retrieve 2DR1 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2DR1 from S2C, [Save to disk]
  • Re-refined 2dr1 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2DR1 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 2DR1
  • 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 2DR1, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2dr1_A] [2dr1_B] [2dr1]
  • SWISS-PROT database: [O59033]
  • Domain organization of [O59033_PYRHO] by SWISSPFAM
    • Other resources with information on 2DR1
  • Community annotation for 2DR1 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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