› 6c31

X-ray diffraction
3Å resolution

Crystal structure of TetR family protein Rv0078 in complex with DNA

Released:
DOI: 10.2210/pdb6c31/pdb
PDB entry 6c31 coloured by chain, front view.
PDB entry 6c31 coloured by chain, side view.
PDB entry 6c31 coloured by chain, top view.
Source organism: Mycobacterium tuberculosis H37Rv
Primary publication:
Cytokinin Signaling in Mycobacterium tuberculosis.
Samanovic MI, Hsu HC, Jones MB, Jones V, McNeil MR, Becker SH, Jordan AT, Strnad M, Xu C, Jackson M, Li H, Darwin KH
mBio 9 (2018)
PMID: 29921668

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-119651 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
HTH tetR-type domain-containing protein Chains: A, B, C, D, E, F, G, H
Molecule details ›
Chains: A, B, C, D, E, F, G, H
Length: 214 amino acids
Theoretical weight: 23.48 KDa
Source organism: Mycobacterium tuberculosis H37Rv
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O53623 (Residues: 1-201; Coverage: 100%)
Gene name: Rv0078
Sequence domains:
DNA (5'-D(P*AP*CP*AP*AP*GP*CP*AP*GP*AP*CP*TP*GP*CP*CP*GP*GP*TP*AP*AP*C)-3') Chains: I, K
Molecule details ›
Chains: I, K
Length: 23 nucleotides
Theoretical weight: 7.05 KDa
Source organism: Mycobacterium tuberculosis H37Rv
Expression system: Not provided
DNA (5'-D(*GP*TP*TP*AP*CP*CP*GP*GP*CP*AP*GP*TP*CP*TP*GP*CP*TP*TP*GP*TP*AP*AP*A)-3') Chains: J, L
Molecule details ›
Chains: J, L
Length: 23 nucleotides
Theoretical weight: 7.07 KDa
Source organism: Mycobacterium tuberculosis H37Rv
Expression system: Not provided

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 21-ID-D
Spacegroup: P21
Unit cell:
a: 82.039Å b: 80.04Å c: 186.66Å
α: 90° β: 90.07° γ: 90°
R-values:
R R work R free
0.206 0.202 0.247
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

6 review citations

Caseum: a Niche for Mycobacterium tuberculosis Drug-Tolerant Persisters.
Sarathy et al. (2020)
5 more

1 mention without citation

Integrating genome sequence and structural data for statistical learning to predict transcription factor binding sites.
Long et al. (2020)