› 3vpd

X-ray diffraction
1.95Å resolution

LysX from Thermus thermophilus complexed with AMP-PNP

Released:
DOI: 10.2210/pdb3vpd/pdb
PDB entry 3vpd coloured by chain, front view.
PDB entry 3vpd coloured by chain, side view.
PDB entry 3vpd coloured by chain, top view.
Source organism: Thermus thermophilus
Primary publication:
Lysine and arginine biosyntheses mediated by a common carrier protein in Sulfolobus.
Ouchi T, Tomita T, Horie A, Yoshida A, Takahashi K, Nishida H, Lassak K, Taka H, Mineki R, Fujimura T, Kosono S, Nishiyama C, Masui R, Kuramitsu S, Albers SV, Kuzuyama T, Nishiyama M
Nat Chem Biol 9 277-83 (2013)
PMID: 23434852

Function and Biology Details

Reaction catalysed: 
ATP + [amino-group carrier protein]-C-terminal-L-glutamate + L-2-aminoadipate = ADP + phosphate + an [amino-group carrier protein]-C-terminal-N-(1,4-dicarboxybutan-1-yl)-L-glutamine
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-177838 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Alpha-aminoadipate--LysW ligase LysX Chains: A, B
Molecule details ›
Chains: A, B
Length: 281 amino acids
Theoretical weight: 30.82 KDa
Source organism: Thermus thermophilus
Expression system: Escherichia coli
UniProt:
  • Canonical: Q5SH23 (Residues: 1-279; Coverage: 100%)
Gene names: TTHA1907, lysX
Sequence domains: RimK-like ATP-grasp domain
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand ANP 2 x ANP
Ligand BUA 2 x BUA
Ligand CIT 1 x CIT
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE AR-NE3A
Spacegroup: P3121
Unit cell:
a: 130.339Å b: 130.339Å c: 77.423Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.198 0.196 0.238
Expression system: Escherichia coli

Quick links

Citations

4 review citations

The N-Acetylglutamate Synthase Family: Structures, Function and Mechanisms.
Shi et al. (2015)
3 more

6 mentions without citation

Structural basis for precursor protein-directed ribosomal peptide macrocyclization.
Li et al. (2016)
5 more