6DVE Transferase Dna date Jun 23, 2018
title Crystal Structure Of Mycobacterium Tuberculosis Transcriptio Initiation Complex(Ecf Selenomethionine-Labelled Sigma Fact Nt Spacer
authors W.Lin, K.Das, Y.Feng, R.H.Ebright
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 (Strain Atc H37rv);
Organism_taxid: 83332
Strain: Atcc 25618 H37rv
Gene: Rpoa, Rv3457c, Mtcy13e12.10c
Expression_system: Escherichia Coli 'Bl21-Gold(De3)Plyss Ag
Expression_system_taxid: 866768

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 (Strain Atc H37rv);
Organism_taxid: 83332
Strain: Atcc 25618 H37rv
Gene: Rpob, Rv0667, Mtci376.08c
Expression_system: Escherichia Coli 'Bl21-Gold(De3)Plyss Ag
Expression_system_taxid: 866768

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 (Strain Atc H37rv);
Organism_taxid: 83332
Strain: Atcc 25618 H37rv
Gene: Rpoc, Rv0668, Mtci376.07c
Expression_system: Escherichia Coli 'Bl21-Gold(De3)Plyss Ag
Expression_system_taxid: 866768

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 (Strain Atc H37rv);
Organism_taxid: 83332
Strain: Atcc 25618 H37rv
Gene: Rpoz, Rv1390, Mtcy21b4.07
Expression_system: Escherichia Coli 'Bl21-Gold(De3)Plyss Ag
Expression_system_taxid: 866768

Molecule: Ecf Rna Polymerase Sigma Factor Sigl
Chain: F
Synonym: Ecf Sigma Factor Sigl,Alternative Rna Polymerase S Factor Sigl,Rna Polymerase Sigma-L Factor,Sigma-L Factor;
Engineered: Yes
Organism_scientific: Mycobacterium Tuberculosis (Strain Atc H37rv);
Organism_taxid: 83332
Strain: Atcc 25618 H37rv
Gene: Sigl, Rv0735
Expression_system: Escherichia Coli 'Bl21-Gold(De3)Plyss Ag
Expression_system_taxid: 866768

Molecule: Dna (5'-D(Gpcpaptpcpcpgptpgpapgpt)-3'
Chain: G
Engineered: Yes
Synthetic: Yes
Organism_scientific: Mycobacterium Tuberculosis H37rv
Organism_taxid: 83332

Molecule: Dna (5'- D(Pcpgptpgptpgpapgptpapapcptpgptpcpapcpg Gpc)-3');
Chain: H
Engineered: Yes
Synthetic: Yes
Organism_scientific: Mycobacterium Tuberculosis H37rv
Organism_taxid: 83332
symmetry Space Group: P 21 21 21
R_factor 0.200 R_Free 0.248
crystal
cell
length a length b length c angle alpha angle beta angle gamma
142.762 160.613 240.181 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.81 Å
ligand MSE, ZN enzyme Transferase E.C.2.7.7.6 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


C


D


E


F
  • bacterial sigma factor activ...


    • Primary referenceStructural basis of ECF-sigma-factor-dependent transcription initiation., Lin W, Mandal S, Degen D, Cho MS, Feng Y, Das K, Ebright RH, Nat Commun. 2019 Feb 12;10(1):710. doi: 10.1038/s41467-019-08443-3. PMID:30755604
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (519 Kb) [Save to disk]
  • Biological Unit Coordinates (6dve.pdb1.gz) 511 Kb
  • LPC: Ligand-Protein Contacts for 6DVE
  • CSU: Contacts of Structural Units for 6DVE
  • Structure Factors (403 Kb)
  • Retrieve 6DVE in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6DVE from S2C, [Save to disk]
    • View 6DVE 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 6DVE
  • 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: [6dve_D] [6dve_E] [6dve_F] [6dve_H] [6dve_A] [6dve_C] [6dve_G] [6dve_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6DVE
  • Community annotation for 6DVE at PDBWiki (http://pdbwiki.org)

    • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science