› 5c8e

X-ray diffraction
3.89Å resolution

Crystal structure of Thermus thermophilus CarH bound to adenosylcobalamin and a 26-bp DNA segment

Released:
DOI: 10.2210/pdb5c8e/pdb
PDB entry 5c8e coloured by chain, front view.
PDB entry 5c8e coloured by chain, side view.
PDB entry 5c8e coloured by chain, top view.
Source organism: Thermus thermophilus HB27
Primary publication:
Structural basis for gene regulation by a B12-dependent photoreceptor.
Jost M, Fernández-Zapata J, Polanco MC, Ortiz-Guerrero JM, Chen PY, Kang G, Padmanabhan S, Elías-Arnanz M, Drennan CL
OpenAccess logo Nature 526 536-41 (2015)
PMID: 26416754

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-118463 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Probable transcriptional regulator Chains: A, B, C, D, E, F, G, H
Molecule details ›
Chains: A, B, C, D, E, F, G, H
Length: 305 amino acids
Theoretical weight: 33.32 KDa
Source organism: Thermus thermophilus HB27
Expression system: Escherichia coli
UniProt:
  • Canonical: Q746J7 (Residues: 1-285; Coverage: 100%)
Gene name: TT_P0056
Sequence domains:
Structure domains:
26-mer DNA segment containing the CarH operator sequence (antisense strand) Chains: I, K
Molecule details ›
Chains: I, K
Length: 26 nucleotides
Theoretical weight: 8 KDa
Source organism: Thermus thermophilus HB27
Expression system: Not provided
26-mer DNA segment containing the CarH operator sequence (sense strand) Chains: J, L
Molecule details ›
Chains: J, L
Length: 26 nucleotides
Theoretical weight: 7.97 KDa
Source organism: Thermus thermophilus HB27
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand B12 8 x B12
Ligand 5AD 8 x 5AD
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-C
Spacegroup: P21212
Unit cell:
a: 177.94Å b: 141.82Å c: 162.69Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.25 0.25 0.257
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

19 review citations

Prokaryotic Heme Biosynthesis: Multiple Pathways to a Common Essential Product.
Dailey et al. (2017)
18 more

6 mentions without citation

A New Facet of Vitamin B12: Gene Regulation by Cobalamin-Based Photoreceptors.
Padmanabhan et al. (2017)
5 more