› 8hih

Electron Microscopy
3.66Å resolution

Cryo-EM structure of Mycobacterium tuberculosis transcription initiation complex with transcription factor GlnR

Released:
DOI: 10.2210/pdb8hih/pdb
PDB entry 8hih coloured by chain, front view.
PDB entry 8hih coloured by chain, side view.
PDB entry 8hih coloured by chain, top view.
Source organisms:
Primary publication:
Structural insights into the transcription activation mechanism of the global regulator GlnR from actinobacteria.
Shi J, Feng Z, Xu J, Li F, Zhang Y, Wen A, Wang F, Song Q, Wang L, Cui H, Tong S, Chen P, Zhu Y, Zhao G, Wang S, Feng Y, Lin W
OpenAccess logo Proc Natl Acad Sci U S A 120 e2300282120 (2023)
PMID: 37216560
Related structures: EMD-34816

Function and Biology Details

Reaction catalysed: 
Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1)
Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
hetero tridecamer (preferred)
PDBe Complex ID:
PDB-CPX-217236 (preferred)
Entry contents:
6 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (8 distinct):
DNA-directed RNA polymerase subunit alpha Chains: A, B, G
Molecule details ›
Chains: A, B, G
Length: 347 amino acids
Theoretical weight: 37.75 KDa
Source organism: Mycobacterium tuberculosis
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P9WGZ1 (Residues: 1-347; Coverage: 100%)
Gene names: MTCY13E12.10c, Rv3457c, rpoA
Sequence domains:
DNA-directed RNA polymerase subunit beta Chain: C
Molecule details ›
Chain: C
Length: 1178 amino acids
Theoretical weight: 130.02 KDa
Source organism: Mycobacterium tuberculosis
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P9WGY9 (Residues: 1-1178; Coverage: 100%)
Gene names: MTCI376.08c, Rv0667, rpoB
Sequence domains:
DNA-directed RNA polymerase subunit beta' Chain: D
Molecule details ›
Chain: D
Length: 1316 amino acids
Theoretical weight: 146.97 KDa
Source organism: Mycobacterium tuberculosis
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P9WGY7 (Residues: 1-1316; Coverage: 100%)
Gene names: MTCI376.07c, Rv0668, rpoC
Sequence domains:
DNA-directed RNA polymerase subunit omega Chain: E
Molecule details ›
Chain: E
Length: 110 amino acids
Theoretical weight: 11.85 KDa
Source organism: Mycobacterium tuberculosis H37Rv
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P9WGY5 (Residues: 1-110; Coverage: 100%)
Gene names: MTCY21B4.07, Rv1390, rpoZ
Sequence domains: RNA polymerase Rpb6
RNA polymerase sigma factor SigA Chain: F
Molecule details ›
Chain: F
Length: 528 amino acids
Theoretical weight: 57.88 KDa
Source organism: Mycobacterium tuberculosis H37Rv
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P9WGI1 (Residues: 1-528; Coverage: 100%)
Gene names: MTCY05A6.24, Rv2703, mysA, rpoD, rpoV, sigA
Sequence domains:
OmpR/PhoB-type domain-containing protein Chains: N, O, P, Q
Molecule details ›
Chains: N, O, P, Q
Length: 255 amino acids
Theoretical weight: 27.63 KDa
Source organism: Mycobacterium tuberculosis H37Rv
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O53830 (Residues: 1-255; Coverage: 100%)
Gene name: Rv0818
Sequence domains:
Non-template strand DNA of amtB promoter Chain: K
Molecule details ›
Chain: K
Length: 109 nucleotides
Theoretical weight: 33.59 KDa
Template strand DNA of amtB promoter Chain: L
Molecule details ›
Chain: L
Length: 109 nucleotides
Theoretical weight: 33.85 KDa

Ligands and Environments

2 bound ligands:
Ligand ZN 2 x ZN
Ligand MG 1 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.66Å
Relevant EMDB volumes: EMD-34816
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

1 review citation

Research progress on GlnR-mediated regulation in Actinomycetes.
Gao et al. (2023)
2 other articles