› 5i4a

X-ray diffraction
1.95Å resolution

X-ray crystal structure of Marinitoga piezophila Argonaute in complex with 5' OH guide RNA

Released:
DOI: 10.2210/pdb5i4a/pdb
PDB entry 5i4a coloured by chain, front view.
PDB entry 5i4a coloured by chain, side view.
PDB entry 5i4a coloured by chain, top view.
Source organisms:
Primary publication:
A bacterial Argonaute with noncanonical guide RNA specificity.
Kaya E, Doxzen KW, Knoll KR, Wilson RC, Strutt SC, Kranzusch PJ, Doudna JA
Proc Natl Acad Sci U S A 113 4057-62 (2016)
PMID: 27035975

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-124753 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct RNA molecule
Macromolecules (2 distinct):
Protein argonaute Chains: A, C
Molecule details ›
Chains: A, C
Length: 642 amino acids
Theoretical weight: 76.19 KDa
Source organism: Marinitoga piezophila KA3
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: H2J4R4 (Residues: 2-639; Coverage: 100%)
Gene names: Marpi_0405, ago
RNA (5'-R(*UP*AP*UP*AP*CP*AP*AP*CP*CP*UP*AP*CP*UP*U)-3') Chains: B, D
Molecule details ›
Chains: B, D
Length: 21 nucleotides
Theoretical weight: 6.54 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 8.3.1
Spacegroup: P1
Unit cell:
a: 50.883Å b: 75.42Å c: 102.215Å
α: 110.87° β: 90.55° γ: 90.09°
R-values:
R R work R free
0.216 0.216 0.239
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

14 review citations

CRISPR-Cas: biology, mechanisms and relevance.
Hille et al. (2016)
13 more

5 mentions without citation

DNA silencing by prokaryotic Argonaute proteins adds a new layer of defense against invading nucleic acids.
Willkomm et al. (2018)
4 more