6C04 Transcription Dna date Dec 27, 2017
title Mtb Rnap Holorbpadouble Fork Dna -Closed Clamp
authors S.A.Darst, E.A.Campbell, H.Boyaci Selcuk, J.Chen, M.Lilic
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
Engineered: Yes
 Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773
Gene: Rpoa, Rpoa_1, Cld25_18970
Expression_system: Escherichia Coli
Expression_system_taxid: 562

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
Engineered: Yes
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773
Gene: Rpob, Samea2682864_01701
Expression_system: Escherichia Coli
Expression_system_taxid: 562

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
Engineered: Yes
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773
Gene: Rpoc, Rpoc_1, Cld25_03785
Expression_system: Escherichia Coli
Expression_system_taxid: 562

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
Engineered: Yes
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773
Gene: Rpoz
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Rna Polymerase Sigma Factor Siga
Chain: F
Engineered: Yes
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773
Gene: Siga, Hrdb_2, Cld25_14885
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Rna Polymerase-Binding Protein Rbpa
Chain: J
Engineered: Yes
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773
Gene: Rbpa
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (31-Mer)
Chain: O, H
Engineered: Yes
Synthetic: Yes
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773

Molecule: Dna (26-Mer)
Chain: P, G
Engineered: Yes
Synthetic: Yes
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 1773
symmetry Space Group: P 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method Electron Microscopyresolution 3.27 Å
ligand MG, ZN enzyme Transferase E.C.2.7.7.6 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


C


D


E


F
  • bacterial sigma factor activ...


    • J


    Primary referenceFidaxomicin jams Mycobacterium tuberculosis RNA polymerase motions needed for initiation via RbpA contacts., Boyaci H, Chen J, Lilic M, Palka M, Mooney RA, Landick R, Darst SA, Campbell EA, Elife. 2018 Feb 26;7. pii: 34823. doi: 10.7554/eLife.34823. PMID:29480804
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (510 Kb) [Save to disk]
  • Biological Unit Coordinates (6c04.pdb1.gz) 502 Kb
  • LPC: Ligand-Protein Contacts for 6C04
  • CSU: Contacts of Structural Units for 6C04
  • Retrieve 6C04 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6C04 from S2C, [Save to disk]
    • View 6C04 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 6C04
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6c04_A] [6c04_E] [6c04_F] [6c04_D] [6c04_B] [6c04_J] [6c04_H] [6c04_G] [6c04_O] [6c04_P] [6c04_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6C04
  • Community annotation for 6C04 at PDBWiki (http://pdbwiki.org)

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