1YNN Transferase date Jan 24, 2005
title Taq Rna Polymerase-Rifampicin Complex
authors E.A.Campbell, O.Pavlova, N.Zenkin, F.Leon, H.Irschik, R.Jansen, K.Severinov, S.A.Darst
compound source
Molecule: Dna-Directed Rna Polymerase Alpha Chain
Chain: A, B
Synonym: Rnap Alpha Subunit, Transcriptase Alpha Chain, Rna Polymerase Alpha Subunit;
Ec: 2.7.7.6
 Organism_scientific: Thermus Aquaticus
Organism_taxid: 271

Molecule: Dna-Directed Rna Polymerase Beta Chain
Chain: C
Synonym: Rnap Beta Subunit, Transcriptase Beta Chain, Rna P Beta Subunit;
Ec: 2.7.7.6
Organism_scientific: Thermus Aquaticus
Organism_taxid: 271

Molecule: Dna-Directed Rna Polymerase Beta' Chain
Chain: D, J
Synonym: Rnap Beta' Subunit, Transcriptase Beta' Chain, Rna Polymerase Beta' Subunit;
Ec: 2.7.7.6
Organism_scientific: Thermus Aquaticus
Organism_taxid: 271

Molecule: Dna-Directed Rna Polymerase Omega Chain
Chain: K
Synonym: Rnap Omega Subunit, Transcriptase Omega Chain, Rna Polymerase Omega Subunit;
Ec: 2.7.7.6
Organism_scientific: Thermus Aquaticus
Organism_taxid: 271
symmetry Space Group: P 41 21 2
R_factor 0.271 R_Free 0.331
crystal
cell
length a length b length c angle alpha angle beta angle gamma
200.760 200.760 292.938 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.30 Å
ligand RFP, ZN enzyme Transferase E.C.2.7.7.6 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


C


J, D


K


Primary referenceStructural, functional, and genetic analysis of sorangicin inhibition of bacterial RNA polymerase., Campbell EA, Pavlova O, Zenkin N, Leon F, Irschik H, Jansen R, Severinov K, Darst SA, EMBO J 2005 Feb 23;24(4):674-82. Epub 2005 Feb 3. PMID:15692574
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (498 Kb) [Save to disk]
  • Biological Unit Coordinates (1ynn.pdb1.gz) 482 Kb
  • LPC: Ligand-Protein Contacts for 1YNN
  • CSU: Contacts of Structural Units for 1YNN
  • Likely Quarternary Molecular Structure file(s) for 1YNN
  • Structure Factors (778 Kb)
  • Retrieve 1YNN in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1YNN from S2C, [Save to disk]
  • Re-refined 1ynn structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1YNN 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 1YNN
  • 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 1YNN, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1ynn_D] [1ynn_J] [1ynn_K] [1ynn_A] [1ynn_B] [1ynn_C] [1ynn]
  • SWISS-PROT database: [Q9KWU8] [Q9KWU7] [Q9KWU6] [Q9EVV4]
  • Domain organization of [RPOA_THEAQ] [RPOB_THEAQ] [RPOC_THEAQ] [RPOZ_THEAQ] by SWISSPFAM
  • Domains found in 1YNN: [HhH1] [RNA_pol_Rpb6] [RPOLA_N] [RPOLD ] by SMART
    • Other resources with information on 1YNN
  • Community annotation for 1YNN 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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