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Structure paper

TitleStructural Basis for the Inhibition of CRISPR-Cas12a by Anti-CRISPR Proteins.
Journal, issue, pagesCell Host Microbe, Vol. 25, Issue 6, Page 815-826.e4, Year 2019
Publish dateJun 12, 2019
AuthorsHeng Zhang / Zhuang Li / Courtney M Daczkowski / Clinton Gabel / Andrew D Mesecar / Leifu Chang /
PubMed AbstractCRISPR-Cas12a (Cpf1), a type V CRISPR-associated nuclease, provides bacterial immunity against bacteriophages and plasmids but also serves as a tool for genome editing. Foreign nucleic acids are ...CRISPR-Cas12a (Cpf1), a type V CRISPR-associated nuclease, provides bacterial immunity against bacteriophages and plasmids but also serves as a tool for genome editing. Foreign nucleic acids are integrated into the CRISPR locus, prompting transcription of CRISPR RNAs (crRNAs) that guide Cas12a cleavage of foreign complementary DNA. However, mobile genetic elements counteract Cas12a with inhibitors, notably type V-A anti-CRISPRs (AcrVAs). We present cryoelectron microscopy structures of Cas12a-crRNA bound to AcrVA1 and AcrVA4 at 3.5 and 3.3 Å resolutions, respectively. AcrVA1 is sandwiched between the recognition (REC) and nuclease (NUC) lobes of Cas12a and inserts into the binding pocket for the protospacer-adjacent motif (PAM), a short DNA sequence guiding Cas12a targeting. AcrVA1 cleaves crRNA in a Cas12a-dependent manner, inactivating Cas12a-crRNA complexes. The AcrVA4 dimer is anchored around the crRNA pseudoknot of Cas12a-crRNA, preventing required conformational changes for crRNA-DNA heteroduplex formation. These results uncover molecular mechanisms for CRISPR-Cas12a inhibition, providing insights into bacteria-phage dynamics.
External linksCell Host Microbe / PubMed:31155345
MethodsEM (single particle)
Resolution3.38 - 6.97 Å
Structure data

0445

6nma

EMDB-0445, PDB-6nma:
CryoEM structure of the LbCas12a-crRNA-AcrVA4 complex
Method: EM (single particle) / Resolution: 3.38 Å

0446

6nmc

EMDB-0446, PDB-6nmc:
CryoEM structure of the LbCas12a-crRNA-2xAcrVA1 complex
Method: EM (single particle) / Resolution: 4.24 Å

0447

6nmd

EMDB-0447, PDB-6nmd:
cryo-EM Structure of the LbCas12a-crRNA-AcrVA1 complex
Method: EM (single particle) / Resolution: 3.49 Å

0449

6nme

EMDB-0449, PDB-6nme:
Structure of LbCas12a-crRNA
Method: EM (single particle) / Resolution: 5.67 Å

20132

6omv

EMDB-20132, PDB-6omv:
CryoEM structure of the LbCas12a-crRNA-AcrVA4-DNA complex
Method: EM (single particle) / Resolution: 3.9 Å

EMDB-20182:
Dimeric DNA complex
Method: EM (single particle) / Resolution: 6.97 Å

9398

6nm9

EMDB-9398, PDB-6nm9:
CryoEM structure of the LbCas12a-crRNA-AcrVA4 dimer
Method: EM (single particle) / Resolution: 3.38 Å

Chemicals

ChemComp-MG:
Unknown entry

ChemComp-HOH:
WATER / Water

Source
  • lachnospiraceae bacterium nd2006 (bacteria)
  • moraxella bovoculi (bacteria)
  • Escherichia coli BL21(DE3) (bacteria)
KeywordsUNKNOWN FUNCTION/RNA / UNKNOWN FUNCTION-RNA complex / RNA / UNKNOWN FUNCTION/DNA/RNA / UNKNOWN FUNCTION-DNA-RNA complex

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