6KL9

Structure of LbCas12a-crRNA complex bound to AcrVA4 (form A complex)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.25 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Structural insight into multistage inhibition of CRISPR-Cas12a by AcrVA4.

Peng, R.Li, Z.Xu, Y.He, S.Peng, Q.Wu, L.A.Wu, Y.Qi, J.Wang, P.Shi, Y.Gao, G.F.

(2019) Proc.Natl.Acad.Sci.USA --: --

  • DOI: 10.1073/pnas.1909400116
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Prokaryotes possess CRISPR-Cas systems to exclude parasitic predators, such as phages and mobile genetic elements (MGEs). These predators, in turn, encode anti-CRISPR (Acr) proteins to evade the CRISPR-Cas immunity. Recently, AcrVA4, an Acr protein i ...

    Prokaryotes possess CRISPR-Cas systems to exclude parasitic predators, such as phages and mobile genetic elements (MGEs). These predators, in turn, encode anti-CRISPR (Acr) proteins to evade the CRISPR-Cas immunity. Recently, AcrVA4, an Acr protein inhibiting the CRISPR-Cas12a system, was shown to diminish Lachnospiraceae bacterium Cas12a (LbCas12a)-mediated genome editing in human cells, but the underlying mechanisms remain elusive. Here we report the cryo-EM structures of AcrVA4 bound to CRISPR RNA (crRNA)-loaded LbCas12a and found AcrVA4 could inhibit LbCas12a at several stages of the CRISPR-Cas working pathway, different from other characterized type I/II Acr inhibitors which target only 1 stage. First, it locks the conformation of the LbCas12a-crRNA complex to prevent target DNA-crRNA hybridization. Second, it interacts with the LbCas12a-crRNA-dsDNA complex to release the bound DNA before cleavage. Third, AcrVA4 binds the postcleavage LbCas12a complex to possibly block enzyme recycling. These findings highlight the multifunctionality of AcrVA4 and provide clues for developing regulatory genome-editing tools.


    Organizational Affiliation

    Savaid Medical School, University of Chinese Academy of Sciences, 100049 Beijing, China.,Savaid Medical School, University of Chinese Academy of Sciences, 100049 Beijing, China; shiyi@im.ac.cn gaof@im.ac.cn.,Center for Influenza Research and Early-Warning, Chinese Academy of Sciences, 100101 Beijing, China.,School of Life Sciences, University of Science and Technology of China, 230026 Hefei, China.,Institute of Physical Science and Information Technology, Anhui University, 230039 Hefei, China.,School of Basic Medical Sciences, Wuhan University, 430071 Wuhan, China.,Chinese Academy of Sciences (CAS) Key Laboratory of Pathogenic Microbiology and Immunology, Institute of Microbiology, Chinese Academy of Sciences, 100101 Beijing, China.,Shenzhen Key Laboratory of Pathogen and Immunity, Shenzhen Third People's Hospital, 518112 Shenzhen, China.,National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, 102206 Beijing, China.,Department of Biology, Southern University of Science and Technology, 518055 Shenzhen, China.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
LbCas12a
A
1228N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
AcrVA4
B, C
234Moraxella bovoculiMutation(s): 0 
Find proteins for A0A0U2APF4 (Moraxella bovoculi)
Go to UniProtKB:  A0A0U2APF4
Entity ID: 3
MoleculeChainsLengthOrganism
RNA (42-MER)G42synthetic construct
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MG
Query on MG

Download SDF File 
Download CCD File 
A, G
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.25 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
Software Package:
Software NamePurpose
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2019-09-11
    Type: Initial release