6JBQ Transcription Dna Rna date Jan 26, 2019
title Cryoem Structure Of Escherichia Coli Sigmae Transcription In Complex Containing 5nt Of Rna
authors C.L.Fang, Y.Zhang
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: Escherichia Coli (Strain K12)
Organism_taxid: 83333
Strain: K12
Gene: Rpoa, Pez, Phs, Sez, B3295, Jw3257
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: Escherichia Coli (Strain K12)
Organism_taxid: 83333
Strain: K12
Gene: Rpob, Gron, Nitb, Rif, Ron, Stl, Stv, Tabd, B3987, Jw
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: Escherichia Coli (Strain K12)
Organism_taxid: 83333
Strain: K12
Gene: Rpoc, Tabb, B3988, Jw3951
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: Escherichia Coli (Strain K12)
Organism_taxid: 83333
Strain: K12
Gene: Rpoz, B3649, Jw3624
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Ecf Rna Polymerase Sigma-E Factor
Chain: F
Synonym: Rna Polymerase Sigma-E Factor,Sigma-24
Engineered: Yes

Organism_scientific: Escherichia Coli (Strain K12)
Organism_taxid: 83333
Strain: K12
Gene: Rpoe, Sige, B2573, Jw2557
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (48-Mer)
Chain: G
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (48-Mer)
Chain: H
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Rna (5'-R(Cpupcpgpa)-3')
Chain: I
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
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 4.02 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...


  • Primary referenceStructures and mechanism of transcription initiation by bacterial ECF factors., Fang C, Li L, Shen L, Shi J, Wang S, Feng Y, Zhang Y, Nucleic Acids Res. 2019 May 27. pii: 5498757. doi: 10.1093/nar/gkz470. PMID:31131408
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (517 Kb) [Save to disk]
  • Biological Unit Coordinates (6jbq.pdb1.gz) 510 Kb
  • LPC: Ligand-Protein Contacts for 6JBQ
  • CSU: Contacts of Structural Units for 6JBQ
  • Retrieve 6JBQ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6JBQ from S2C, [Save to disk]
  • View 6JBQ 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 6JBQ
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 6jbq from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6jbq_E] [6jbq_H] [6jbq_I] [6jbq_B] [6jbq_G] [6jbq_D] [6jbq_F] [6jbq_C] [6jbq_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6JBQ
  • Community annotation for 6JBQ at PDBWiki (http://pdbwiki.org)

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