1HQM Transferase date Dec 18, 2000
title Crystal Structure Of Thermus Aquaticus Core Rna Polymerase-I Complete Structure With Side-Chains (Except For Disordered Further Refined From Original Deposition-Contains Additiona Information
authors L.Minakhin, S.Bhagat, A.Brunning, E.A.Campbell, S.A.Darst, R.H.Eb K.Severinov
compound source
Molecule: Dna-Directed Rna Polymerase Subunit Alpha
Chain: A, B
Synonym: Rnap Subunit Alpha,Rna Polymerase Subunit Alpha, Transcriptase Subunit Alpha;
Ec: 2.7.7.6
 Organism_scientific: Thermus Aquaticus
Organism_taxid: 271

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

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

Molecule: Dna-Directed Rna Polymerase Subunit Omega
Chain: E
Synonym: Rnap Omega Subunit,Rna Polymerase Omega Subunit, Transcriptase Subunit Omega;
Ec: 2.7.7.6
Organism_scientific: Thermus Aquaticus
Organism_taxid: 271
symmetry Space Group: P 41 21 2
R_factor 0.300 R_Free 0.360
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 MG, ZN enzyme Transferase E.C.2.7.7.6 BRENDA
note 1HQM supersedes 1DDQ
Gene
Ontology
ChainFunctionProcessComponent
A, B


C


D


E


Primary referenceBacterial RNA polymerase subunit omega and eukaryotic RNA polymerase subunit RPB6 are sequence, structural, and functional homologs and promote RNA polymerase assembly., Minakhin L, Bhagat S, Brunning A, Campbell EA, Darst SA, Ebright RH, Severinov K, Proc Natl Acad Sci U S A. 2001 Jan 30;98(3):892-7. PMID:11158566
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (435 Kb) [Save to disk]
  • Biological Unit Coordinates (1hqm.pdb1.gz) 426 Kb
  • LPC: Ligand-Protein Contacts for 1HQM
  • CSU: Contacts of Structural Units for 1HQM
  • Likely Quarternary Molecular Structure file(s) for 1HQM
  • Retrieve 1HQM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1HQM from S2C, [Save to disk]
    • View 1HQM 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 1HQM
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1HQM, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1hqma_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1hqmb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1hqmc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1hqmd_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1hqme_, region E [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: [1hqm_C] [1hqm_A] [1hqm_E] [1hqm_D] [1hqm_B] [1hqm]
  • SWISS-PROT database: [Q9KWU8] [Q9KWU7] [Q9KWU6] [Q9EVV4]
  • Domain organization of [RPOA_THEAQ] [RPOB_THEAQ] [RPOC_THEAQ] [RPOZ_THEAQ] by SWISSPFAM
  • Domains found in 1HQM: [HhH1] [RNA_pol_Rpb6] [RPOLA_N] [RPOLD ] by SMART
    • Other resources with information on 1HQM
  • Community annotation for 1HQM 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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