5VI5

Structure of Mycobacterium smegmatis transcription initiation complex with a full transcription bubble


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.280
  • R-Value Work: 0.253

Literature

Macromolecules
Sequence Display for 5VI5

Classification: TRANSCRIPTION

Total Structure Weight: 460526.97


Macromolecule Entities
Molecule Chains Length Organism Details
DNA-directed RNA polymerase subunit alpha A, B 350 Mycobacterium smegmatis EC#: 2.7.7.6 IUBMB
Gene Name(s): rpoA MSMEG_1524 MSMEI_1488
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
DNA-directed RNA polymerase subunit beta C 1169 Mycobacterium smegmatis EC#: 2.7.7.6 IUBMB
Mutation: Q238N
Gene Name(s): rpoB MSMEG_1367 MSMEI_1328
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
DNA-directed RNA polymerase subunit beta' D 1317 Mycobacterium smegmatis EC#: 2.7.7.6 IUBMB
Mutation: A663E, Q1272N
Gene Name(s): rpoC MSMEG_1368 MSMEI_1329
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
DNA-directed RNA polymerase subunit omega E 107 Mycobacterium smegmatis EC#: 2.7.7.6 IUBMB
Gene Name(s): rpoZ MSMEG_3053 MSMEI_2977
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
RNA polymerase sigma factor SigA F 466 Mycobacterium smegmatis Gene Name(s): rpoD sigA MSMEG_2758 MSMEI_2690
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
RNA polymerase-binding protein RbpA J 114 Mycobacterium smegmatis Gene Name(s): rbpA MSMEG_3858 MSMEI_3768
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
DNA (49-MER) O 50 Synthetic construct
DNA (44-MER) P 50 Synthetic construct
RNA (5'-R(*UP*CP*GP*A)-3') Q 4 Synthetic construct

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
SO4
Query on SO4

C, D, F SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

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

D, F 1,2-ETHANEDIOL
ETHYLENE GLYCOL (Synonym)
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.280
  • R-Value Work: 0.253
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 132.06 α = 90.00
b = 163.55 β = 107.90
c = 139.96 γ = 90.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2017-04-14
  • Released Date: 2017-07-26
  • Deposition author(s): Darst, S.A., Campbell, E.A., Lilic, M.

Revision History

No revisions since initial release