› 6gtd

Electron Microscopy
4.24Å resolution

Transient state structure of CRISPR-Cpf1 (Cas12a) I2 conformation

Released:
DOI: 10.2210/pdb6gtd/pdb
PDB entry 6gtd coloured by chain, front view.
PDB entry 6gtd coloured by chain, side view.
PDB entry 6gtd coloured by chain, top view.
Source organism: Francisella tularensis subsp. novicida U112
Primary publication:
Conformational Activation Promotes CRISPR-Cas12a Catalysis and Resetting of the Endonuclease Activity.
Stella S, Mesa P, Thomsen J, Paul B, Alcón P, Jensen SB, Saligram B, Moses ME, Hatzakis NS, Montoya G
Cell 175 1856-1871.e21 (2018)
PMID: 30503205
Related structures: EMD-0062

Function and Biology Details

Reactions catalysed: 
Endonucleolytic cleavage to 5'-phosphodinucleotide and 5'-phosphooligonucleotide end-products
RNA = a 5'-hydroxy-ribonucleotide + n nucleoside-2',3'-cyclophosphates
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assemblies composition:
hetero tetramer (preferred)
hetero trimer
Assembly name:
PDBe Complex ID:
PDB-CPX-106190 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
1 distinct RNA molecule
Macromolecules (4 distinct):
CRISPR-associated endonuclease Cas12a Chain: A
Molecule details ›
Chain: A
Length: 1329 amino acids
Theoretical weight: 155.64 KDa
Source organism: Francisella tularensis subsp. novicida U112
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: A0Q7Q2 (Residues: 1-1300; Coverage: 100%)
Gene names: FTN_1397, cas12a, cpf1
Sequence domains:
DNA (5'-D(P*TP*GP*AP*CP*TP*TP*CP*TP*CP*TP*AP*AP*CP*AP*AP*GP*CP*TP*CP*G)-3') Chain: C
Molecule details ›
Chain: C
Length: 55 nucleotides
Theoretical weight: 16.9 KDa
Source organism: Francisella tularensis subsp. novicida U112
Expression system: Not provided
DNA (5'-D(P*CP*GP*AP*GP*CP*TP*CP*GP*TP*TP*AP*GP*AP*GP*AP*AP*GP*T)-3') Chain: D
RNA (28-MER) Chain: B

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this EM entry.
Resolution: 4.24Å
Relevant EMDB volumes: EMD-0062
Expression systems:
  • Escherichia coli BL21
  • Not provided

Quick links

Citations

16 review citations

Challenges and opportunities in cryo-EM single-particle analysis.
Lyumkis D. (2019)
15 more