4Q5S

Thermus thermophilus RNA polymerase initially transcribing complex containing 6-mer RNA

Structural Biology Knowledgebase: 4Q5S SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.294
  • R-Value Work: 0.269

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4Q5S

Classification: transcription / DNA / rna

Total Structure Weight: 443984.19


Macromolecule Entities
Molecule Chains Length Organism Details
DNA-directed RNA polymerase subunit alpha A, B 315 Thermus thermophilus EC#: 2.7.7.6 IUBMB
Gene Name(s): rpoA
DNA-directed RNA polymerase subunit beta C 1119 Thermus thermophilus EC#: 2.7.7.6 IUBMB
Gene Name(s): rpoB TTHA1813
DNA-directed RNA polymerase subunit beta' D 1524 Thermus thermophilus EC#: 2.7.7.6 IUBMB
Gene Name(s): rpoC TTHA1812
DNA-directed RNA polymerase subunit omega E 99 Thermus thermophilus EC#: 2.7.7.6 IUBMB
Gene Name(s): rpoZ TTHA1561
RNA polymerase sigma factor SigA F 423 Thermus thermophilus Gene Name(s): sigA TTHA0532
Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-D(*CP*CP*TP*GP*CP*AP*TP*CP*CP*GP*TP*GP*AP*GP*TP*GP*CP*AP*GP*CP*CP*A)-3') G 22 synthetic template DNA
DNA (5'-D(*TP*AP*TP*AP*AP*TP*GP*GP*GP*AP*GP*CP*TP*GP*TP*CP*AP*CP*GP*GP*AP*TP*GP*CP*AP*GP*G)-3') H 27 synthetic non-template DNA
RNA (5'-R(P*CP*UP*CP*AP*C)-3') I 5 synthetic

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
ATP
Query on ATP

I ADENOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O13 P3
ZKHQWZAMYRWXGA-KQYNXXCUSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

D ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

D MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.294
  • R-Value Work: 0.269
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 187.09 α = 90.00
b = 102.07 β = 98.14
c = 297.26 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2014-04-17
  • Released Date: 2014-07-09
  • Deposition author(s): Murakami, K.S.

Revision History

  • 2014-10-08
    Type: Entry title | Details: --
  • 2014-09-24
    Type: Citation | Details: Citation update