› 4q86

X-ray diffraction
2.25Å resolution

YcaO with AMP Bound

Released:
DOI: 10.2210/pdb4q86/pdb
PDB entry 4q86 coloured by chain, front view.
PDB entry 4q86 coloured by chain, side view.
PDB entry 4q86 coloured by chain, top view.
Source organism: Escherichia coli K-12
Primary publication:
Discovery of a new ATP-binding motif involved in peptidic azoline biosynthesis.
Dunbar KL, Chekan JR, Cox CL, Burkhart BJ, Nair SK, Mitchell DA
OpenAccess logo Nat Chem Biol 10 823-9 (2014)
PMID: 25129028

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-160011 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Ribosomal protein S12 methylthiotransferase accessory factor YcaO Chains: A, B, C, D, E, F, G, H
Molecule details ›
Chains: A, B, C, D, E, F, G, H
Length: 586 amino acids
Theoretical weight: 65.7 KDa
Source organism: Escherichia coli K-12
Expression system: Escherichia coli
UniProt:
  • Canonical: P75838 (Residues: 1-586; Coverage: 100%)
Gene names: JW0888, b0905, ycaO
Sequence domains:

Ligands and Environments

2 bound ligands:
Ligand AMP 7 x AMP
Ligand MG 21 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 21-ID-F
Spacegroup: P1
Unit cell:
a: 111.254Å b: 112.949Å c: 132.886Å
α: 89.94° β: 73.51° γ: 77.23°
R-values:
R R work R free
0.219 0.218 0.25
Expression system: Escherichia coli

Quick links

Citations

15 review citations

Enzyme Function Initiative-Enzyme Similarity Tool (EFI-EST): A web tool for generating protein sequence similarity networks.
Gerlt et al. (2015)
14 more

4 mentions without citation

New developments in RiPP discovery, enzymology and engineering.
Montalbán-López et al. (2021)
3 more