4LLG Transferase date Jul 09, 2013
title Crystal Structure Analysis Of The E.Coli Holoenzymegp2 Comp
authors B.Bae, S.A.Darst
compound source
Molecule: Dna-Directed Rna Polymerase Subunit Alpha
Chain: A, B, G, H
Synonym: Rnap Subunit Alpha, Rna Polymerase Subunit Alpha, Transcriptase Subunit Alpha;
Ec: 2.7.7.6
Engineered: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 536056
Strain: K12
Gene: Rpoa, Ecdh1_0418, Ecdh1me8569_3173
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna-Directed Rna Polymerase Subunit Beta
Chain: C, I
Synonym: Rnap Subunit Beta, Rna Polymerase Subunit Beta, Transcriptase Subunit Beta;
Ec: 2.7.7.6
Engineered: Yes

Organism_scientific: Escherichia Coli
Organism_taxid: 536056
Strain: K12
Gene: Rpob, Ecdh1_4008, Ecdh1me8569_3846
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna-Directed Rna Polymerase Subunit Beta'
Chain: D, J
Ec: 2.7.7.6
Engineered: Yes

Organism_scientific: Escherichia Coli
Organism_taxid: 595496
Strain: K12
Gene: Rpoc, Bwg_3647
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna-Directed Rna Polymerase Subunit Omega
Chain: E, K
Synonym: Rnap Omega Subunit, Rna Polymerase Omega Subunit, Transcriptase Subunit Omega;
Ec: 2.7.7.6
Engineered: Yes

Organism_scientific: Escherichia Coli
Organism_taxid: 536056
Strain: K12
Gene: Rpoz, Ecdh1_0056, Ecdh1me8569_3534
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Rna Polymerase Sigma Factor Rpod
Chain: F, L
Synonym: Sigma-70
Engineered: Yes

Organism_scientific: Escherichia Coli
Organism_taxid: 83333
Strain: K12
Gene: Rpod, Alt, B3067, Jw3039
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Bacterial Rna Polymerase Inhibitor
Chain: M, N
Engineered: Yes

Organism_scientific: Enterobacteria Phage T7
Organism_taxid: 10760
Gene: 2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.243 R_Free 0.282
crystal
cell
length a length b length c angle alpha angle beta angle gamma
187.510 205.038 308.797 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.79 Å
ligand MG, ZN enzyme Transferase E.C.2.7.7.6 BRENDA
Gene BWG ; ECDH1ME8569 ; ECDH1ME8569 ; ECDH1ME8569 ; ECDH1 ; ECDH1 ; ECDH1
Gene
Ontology
ChainFunctionProcessComponent
A, B, H, G


C, I


F, L


J, D


K, E


N, M


Primary referencePhage T7 Gp2 inhibition of Escherichia coli RNA polymerase involves misappropriation of sigma70 domain 1.1., Bae B, Davis E, Brown D, Campbell EA, Wigneshweraraj S, Darst SA, Proc Natl Acad Sci U S A. 2013 Nov 11. PMID:24218560
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1218 Kb) [Save to disk]
  • Biological Unit Coordinates (4llg.pdb1.gz) 616 Kb
  • Biological Unit Coordinates (4llg.pdb2.gz) 610 Kb
  • LPC: Ligand-Protein Contacts for 4LLG
  • CSU: Contacts of Structural Units for 4LLG
  • Structure Factors (1512 Kb)
  • Retrieve 4LLG in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4LLG from S2C, [Save to disk]
  • Re-refined 4llg structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4LLG 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 4LLG
  • 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
  • 3D motif for 4LLG, from MSDmotif at EBI
  • Fold representative 4llg from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4llg_D] [4llg_A] [4llg_H] [4llg] [4llg_I] [4llg_F] [4llg_M] [4llg_G] [4llg_N] [4llg_K] [4llg_C] [4llg_B] [4llg_L] [4llg_E] [4llg_J]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4LLG: [RNA_pol_Rpb6] [RPOLA_N] [RPOLD ] by SMART
  • Other resources with information on 4LLG
  • Community annotation for 4LLG at PDBWiki (http://pdbwiki.org)

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