1R2R Isomerase date Sep 29, 2003
title Crystal Structure Of Rabbit Muscle Triosephosphate Isomerase
authors R.Aparicio, S.T.Ferreira, I.Polikarpov
compound source
Molecule: Triosephosphate Isomerase
Chain: A, B, C, D
Synonym: Tim
Ec: 5.3.1.1
 Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Muscle
symmetry Space Group: P 21 21 21
R_factor 0.159 R_Free 0.190
crystal
cell
length a length b length c angle alpha angle beta angle gamma
74.550 75.952 166.010 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.50 Å
ligand DMS, MG, TRS enzyme Isomerase E.C.5.3.1.1 BRENDA
related structures by homologous chain: 1MO0
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceClosed conformation of the active site loop of rabbit muscle triosephosphate isomerase in the absence of substrate: evidence of conformational heterogeneity., Aparicio R, Ferreira ST, Polikarpov I, J Mol Biol 2003 Dec 12;334(5):1023-41. PMID:14643664
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (180 Kb) [Save to disk]
  • Biological Unit Coordinates (1r2r.pdb1.gz) 88 Kb
  • Biological Unit Coordinates (1r2r.pdb2.gz) 88 Kb
  • LPC: Ligand-Protein Contacts for 1R2R
  • CSU: Contacts of Structural Units for 1R2R
  • Likely Quarternary Molecular Structure file(s) for 1R2R
  • Structure Factors (1809 Kb)
  • Retrieve 1R2R in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1R2R from S2C, [Save to disk]
  • Re-refined 1r2r structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1R2R 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 1R2R
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Conformational Epitope Prediction for 1R2R 1R2RA 1R2RB 1R2RC 1R2RD from the CEP Server.
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1R2R, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1r2ra_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1r2rb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1r2rc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1r2rd_, region D [Jmol] [rasmolscript] [script source]
  • 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: [1r2r] [1r2r_B] [1r2r_D] [1r2r_C] [1r2r_A]
  • SWISS-PROT database: [P00939]
  • Domain organization of [TPIS_RABIT] by SWISSPFAM
    • Other resources with information on 1R2R
  • Community annotation for 1R2R 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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