2A69 Transferase date Jul 02, 2005
title Crystal Structure Of The T. Thermophilus Rna Polymerase Holo Complex With Antibiotic Rifapentin
authors I.Artsimovitch, M.N.Vassylyeva, D.Svetlov, V.Svetlov, A.Perederi N.Igarashi, N.Matsugaki, S.Wakatsuki, T.H.Tahirov, D.G.Vassylye Structural Genomicsproteomics Initiative (Rsgi)
compound source
Molecule: Dna-Directed Rna Polymerase Alpha Chain
Chain: A, B, K, L
Synonym: Rnap Alpha Subunit, Transcriptase Alpha Chain, Rna Polymerase Alpha Subunit;
Ec: 2.7.7.6
 Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: Dna-Directed Rna Polymerase Beta Chain
Chain: C, M
Synonym: Rnap Beta Subunit, Transcriptase Beta Chain, Rna P Beta Subunit;
Ec: 2.7.7.6
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: Dna-Directed Rna Polymerase Beta' Chain
Chain: D, N
Synonym: Rnap Beta' Subunit, Transcriptase Beta' Chain, Rna Polymerase Beta' Subunit;
Ec: 2.7.7.6
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: Rna Polymerase Omega Chain
Chain: E, O
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274

Molecule: Rna Polymerase Sigma Factor Rpod
Chain: F, P
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274
symmetry Space Group: P 32
R_factor 0.230 R_Free 0.267
crystal
cell
length a length b length c angle alpha angle beta angle gamma
239.500 239.500 253.100 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.50 Å
ligand MG, RPT, ZN enzyme Transferase E.C.2.7.7.6 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, K, B, L


F, P
  • bacterial sigma factor activ...


    • M, C


    N, D


    O, E


    Primary referenceAllosteric modulation of the RNA polymerase catalytic reaction is an essential component of transcription control by rifamycins., Artsimovitch I, Vassylyeva MN, Svetlov D, Svetlov V, Perederina A, Igarashi N, Matsugaki N, Wakatsuki S, Tahirov TH, Vassylyev DG, Cell 2005 Aug 12;122(3):351-63. PMID:16096056
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1237 Kb) [Save to disk]
  • Biological Unit Coordinates (2a69.pdb1.gz) 621 Kb
  • Biological Unit Coordinates (2a69.pdb2.gz) 616 Kb
  • LPC: Ligand-Protein Contacts for 2A69
  • CSU: Contacts of Structural Units for 2A69
  • Likely Quarternary Molecular Structure file(s) for 2A69
  • Structure Factors (3925 Kb)
  • Retrieve 2A69 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2A69 from S2C, [Save to disk]
  • Re-refined 2a69 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2A69 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 2A69
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 2A69, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2a69_C] [2a69_P] [2a69_E] [2a69_O] [2a69_B] [2a69_F] [2a69_L] [2a69_D] [2a69_M] [2a69_A] [2a69_K] [2a69] [2a69_N]
  • SWISS-PROT database: [Q5SKW1] [Q5SHR6] [Q8RQE9] [Q8RQE8] [Q8RQE7]
  • Domain organization of [Q5SKW1_THET8] [RPOA_THET8] [RPOB_THET8] [RPOC_THET8] [RPOZ_THET8] by SWISSPFAM
  • Domains found in 2A69: [HhH1] [RNA_pol_Rpb6] [RPOLA_N] [RPOLD ] by SMART
    • Other resources with information on 2A69
  • Community annotation for 2A69 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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