› 1dbx

X-ray diffraction
1.8Å resolution

Crystal structure of cysteinyl-tRNA(Pro) deacylase from H. influenzae (HI1434)

Released:
DOI: 10.2210/pdb1dbx/pdb
PDB entry 1dbx coloured by chain, front view.
PDB entry 1dbx coloured by chain, side view.
PDB entry 1dbx coloured by chain, top view.
Source organism: Haemophilus influenzae
Primary publication:
Crystal structure of YbaK protein from Haemophilus influenzae (HI1434) at 1.8 A resolution: functional implications.
Zhang H, Huang K, Li Z, Banerjei L, Fisher KE, Grishin NV, Eisenstein E, Herzberg O
Proteins 40 86-97 (2000)
PMID: 10813833

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-155255 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Cys-tRNA(Pro)/Cys-tRNA(Cys) deacylase YbaK Chains: A, B
Molecule details ›
Chains: A, B
Length: 158 amino acids
Theoretical weight: 17.27 KDa
Source organism: Haemophilus influenzae
Expression system: Escherichia coli
UniProt:
  • Canonical: P45202 (Residues: 1-158; Coverage: 100%)
Gene names: HI_1434, ybaK
Sequence domains: Aminoacyl-tRNA editing domain
Structure domains: YbaK/aminoacyl-tRNA synthetase-associated domain

Ligands and Environments

No bound ligands
1 modified residue:
Ligand MSE 4 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X12C
Spacegroup: P1
Unit cell:
a: 32.56Å b: 42.21Å c: 54.16Å
α: 109.07° β: 100.32° γ: 90.62°
R-values:
R R work R free
0.183 0.183 0.259
Expression system: Escherichia coli

Quick links

Citations

4 review citations

Determination of protein function, evolution and interactions by structural genomics.
Teichmann et al. (2001)
3 more

5 mentions without citation

Unusual domain architecture of aminoacyl tRNA synthetases and their paralogs from Leishmania major.
Gowri et al. (2012)
4 more