PDBe 5vi8

X-ray diffraction
2.76Å resolution

Structure of a mycobacterium smegmatis transcription initiation complex with an upstream-fork promoter fragment

Released:

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero decamer (preferred)
Entry contents:
7 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (9 distinct):
RNA polymerase sigma factor SigA Chain: F
Molecule details ›
Chain: F
Length: 466 amino acids
Theoretical weight: 51.57 KDa
Source organism: Mycobacterium smegmatis str. MC2 155
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: A0QW02 (Residues: 1-466; Coverage: 100%)
Gene names: MSMEG_2758, sigA
Sequence domains:
RNA polymerase-binding protein RbpA Chain: J
Molecule details ›
Chain: J
Length: 114 amino acids
Theoretical weight: 13.08 KDa
Source organism: Mycobacterium smegmatis str. MC2 155
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A0QZ11 (Residues: 1-114; Coverage: 100%)
Gene names: MSMEG_3858, MSMEI_3768, rbpA
Sequence domains: RNA polymerase-binding protein
DNA-directed RNA polymerase subunit beta Chain: C
DNA-directed RNA polymerase subunit alpha Chains: A, B
Molecule details ›
Chains: A, B
Length: 350 amino acids
Theoretical weight: 37.96 KDa
Source organism: Mycobacterium smegmatis str. MC2 155
UniProt:
  • Canonical: A0QSL8 (Residues: 1-350; Coverage: 100%)
Gene names: MSMEG_1524, MSMEI_1488, rpoA
Sequence domains:
DNA-directed RNA polymerase subunit alpha Chain: T
Molecule details ›
Chain: T
Length: 100 amino acids
Theoretical weight: 11.09 KDa
Source organism: Mycobacterium smegmatis str. MC2 155
UniProt:
  • Canonical: A0QSL8 (Residues: 251-350; Coverage: 29%)
Gene names: MSMEG_1524, MSMEI_1488, rpoA
DNA-directed RNA polymerase subunit beta' Chain: D
Molecule details ›
Chain: D
Length: 1317 amino acids
Theoretical weight: 146.71 KDa
Source organism: Mycobacterium smegmatis str. MC2 155
UniProt:
  • Canonical: A0QS66 (Residues: 1-1317; Coverage: 100%)
Gene names: MSMEG_1368, MSMEI_1329, rpoC
Sequence domains:
DNA-directed RNA polymerase subunit omega Chain: E
Molecule details ›
Chain: E
Length: 107 amino acids
Theoretical weight: 11.54 KDa
Source organism: Mycobacterium smegmatis str. MC2 155
UniProt:
  • Canonical: A0QWT1 (Residues: 1-107; Coverage: 100%)
Gene names: MSMEG_3053, MSMEI_2977, rpoZ
Sequence domains: RNA polymerase Rpb6
DNA (26-MER) Chain: P
Molecule details ›
Chain: P
Length: 26 nucleotides
Theoretical weight: 7.93 KDa
DNA (31-MER) Chain: O
Molecule details ›
Chain: O
Length: 31 nucleotides
Theoretical weight: 9.57 KDa

Ligands and Environments


No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-E
Spacegroup: P21
Unit cell:
a: 133.012Å b: 161.633Å c: 139.211Å
α: 90° β: 107.72° γ: 90°
R-values:
R R work R free
0.241 0.24 0.281
Expression systems:
  • Escherichia coli BL21
  • Escherichia coli BL21(DE3)