› 5ioo

X-ray diffraction
2.52Å resolution

Accommodation of massive sequence variation in Nanoarchaeota by the C-type lectin fold

Released:
DOI: 10.2210/pdb5ioo/pdb
PDB entry 5ioo coloured by chain, front view.
PDB entry 5ioo coloured by chain, side view.
PDB entry 5ioo coloured by chain, top view.
Source organism: Nanoarchaeota archaeon JGI OTU-1
Primary publication:
Conservation of the C-type lectin fold for accommodating massive sequence variation in archaeal diversity-generating retroelements.
Handa S, Paul BG, Miller JF, Valentine DL, Ghosh P
BMC Struct Biol 16 13 (2016)
PMID: 27578274

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-103525 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
AvpA Chains: A, B
Molecule details ›
Chains: A, B
Length: 255 amino acids
Theoretical weight: 28.7 KDa
Source organism: Nanoarchaeota archaeon JGI OTU-1
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A0A1L1QK08 (Residues: 1-255; Coverage: 100%)

Ligands and Environments

1 bound ligand:
Ligand MG 4 x MG
1 modified residue:
Ligand MSE 8 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-E
Spacegroup: P61
Unit cell:
a: 143.998Å b: 143.998Å c: 59.261Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.206 0.202 0.25
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

3 review citations

Prokaryotic reverse transcriptases: from retroelements to specialized defense systems.
González-Delgado et al. (2021)
2 more