› 2d1p

X-ray diffraction
2.15Å resolution

crystal structure of heterohexameric TusBCD proteins, which are crucial for the tRNA modification

Released:
DOI: 10.2210/pdb2d1p/pdb
PDB entry 2d1p coloured by chain, front view.
PDB entry 2d1p coloured by chain, side view.
PDB entry 2d1p coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Structural basis for sulfur relay to RNA mediated by heterohexameric TusBCD complex.
Numata T, Fukai S, Ikeuchi Y, Suzuki T, Nureki O
Structure 14 357-66 (2006)
PMID: 16472754

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero hexamer (preferred)
PDBe Complex ID:
PDB-CPX-155309 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Sulfurtransferase TusD Chains: A, D, G
Molecule details ›
Chains: A, D, G
Length: 140 amino acids
Theoretical weight: 15.06 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P45532 (Residues: 1-128; Coverage: 100%)
Gene names: JW3307, b3345, tusD, yheN
Sequence domains: DsrE/DsrF-like family
Structure domains: DsrEFH-like
Protein TusC Chains: B, E, H
Molecule details ›
Chains: B, E, H
Length: 119 amino acids
Theoretical weight: 13.06 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P45531 (Residues: 1-119; Coverage: 100%)
Gene names: JW3306, b3344, tusC, yheM
Sequence domains: DsrE/DsrF-like family
Structure domains: DsrEFH-like
Protein TusB Chains: C, F, I
Molecule details ›
Chains: C, F, I
Length: 95 amino acids
Theoretical weight: 10.73 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P45530 (Residues: 1-95; Coverage: 100%)
Gene names: JW3305, b3343, tusB, yheL
Sequence domains: DsrH like protein
Structure domains: DsrEFH-like

Ligands and Environments

1 bound ligand:
Ligand SO4 1 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: P41212
Unit cell:
a: 141.392Å b: 141.392Å c: 135.686Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.209 0.209 0.242
Expression system: Escherichia coli

Quick links

Citations

11 review citations

Evolution of protein fold in the presence of functional constraints.
Andreeva et al. (2006)
10 more

2 mentions without citation

Structural alphabets derived from attractors in conformational space.
Pandini et al. (2010)
1 more