Structural basis for inhibition of an archaeal CRISPR–Cas type I-D large subunit by an anti-CRISPR protein
A hallmark of type I CRISPR–Cas systems is the presence of Cas3, which contains both the nuclease and helicase activities required for DNA cleavage during interference. In subtype I-D systems, however, the histidine-aspartate (HD) nuclease domain is encoded as part of a Cas10-like large effector com...
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Published in | Nature communications Vol. 11; no. 1; p. 5993 |
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Main Authors | , , , , , |
Format | Journal Article |
Language | English |
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Nature Publishing Group UK
25.11.2020
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Abstract | A hallmark of type I CRISPR–Cas systems is the presence of Cas3, which contains both the nuclease and helicase activities required for DNA cleavage during interference. In subtype I-D systems, however, the histidine-aspartate (HD) nuclease domain is encoded as part of a Cas10-like large effector complex subunit and the helicase activity in a separate Cas3’ subunit, but the functional and mechanistic consequences of this organisation are not currently understood. Here we show that the
Sulfolobus islandicus
type I-D Cas10d large subunit exhibits an unusual domain architecture consisting of a Cas3-like HD nuclease domain fused to a degenerate polymerase fold and a C-terminal domain structurally similar to Cas11. Crystal structures of Cas10d both in isolation and bound to
S. islandicus
rod-shaped virus 3 AcrID1 reveal that the anti-CRISPR protein sequesters the large subunit in a non-functional state unable to form a cleavage-competent effector complex. The architecture of Cas10d suggests that the type I-D effector complex is similar to those found in type III CRISPR–Cas systems and that this feature is specifically exploited by phages for anti-CRISPR defence.
In type I-D CRISPR–Cas systems, the nuclease and helicase activities are carried out by separate subunits. The crystal structure of
Sulfolobus islandicus
type I-D large subunit Cas10d, containing a nuclease domain, reveals unusual architecture. The structure of Cas10d in complex with anti-CRISPR protein AcrID1 suggests that the latter sequesters Cas10d in a nonfunctional state. |
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AbstractList | A hallmark of type I CRISPR–Cas systems is the presence of Cas3, which contains both the nuclease and helicase activities required for DNA cleavage during interference. In subtype I-D systems, however, the histidine-aspartate (HD) nuclease domain is encoded as part of a Cas10-like large effector complex subunit and the helicase activity in a separate Cas3’ subunit, but the functional and mechanistic consequences of this organisation are not currently understood. Here we show that the
Sulfolobus islandicus
type I-D Cas10d large subunit exhibits an unusual domain architecture consisting of a Cas3-like HD nuclease domain fused to a degenerate polymerase fold and a C-terminal domain structurally similar to Cas11. Crystal structures of Cas10d both in isolation and bound to
S. islandicus
rod-shaped virus 3 AcrID1 reveal that the anti-CRISPR protein sequesters the large subunit in a non-functional state unable to form a cleavage-competent effector complex. The architecture of Cas10d suggests that the type I-D effector complex is similar to those found in type III CRISPR–Cas systems and that this feature is specifically exploited by phages for anti-CRISPR defence.
In type I-D CRISPR–Cas systems, the nuclease and helicase activities are carried out by separate subunits. The crystal structure of
Sulfolobus islandicus
type I-D large subunit Cas10d, containing a nuclease domain, reveals unusual architecture. The structure of Cas10d in complex with anti-CRISPR protein AcrID1 suggests that the latter sequesters Cas10d in a nonfunctional state. A hallmark of type I CRISPR-Cas systems is the presence of Cas3, which contains both the nuclease and helicase activities required for DNA cleavage during interference. In subtype I-D systems, however, the histidine-aspartate (HD) nuclease domain is encoded as part of a Cas10-like large effector complex subunit and the helicase activity in a separate Cas3' subunit, but the functional and mechanistic consequences of this organisation are not currently understood. Here we show that the Sulfolobus islandicus type I-D Cas10d large subunit exhibits an unusual domain architecture consisting of a Cas3-like HD nuclease domain fused to a degenerate polymerase fold and a C-terminal domain structurally similar to Cas11. Crystal structures of Cas10d both in isolation and bound to S. islandicus rod-shaped virus 3 AcrID1 reveal that the anti-CRISPR protein sequesters the large subunit in a non-functional state unable to form a cleavage-competent effector complex. The architecture of Cas10d suggests that the type I-D effector complex is similar to those found in type III CRISPR-Cas systems and that this feature is specifically exploited by phages for anti-CRISPR defence. A hallmark of type I CRISPR–Cas systems is the presence of Cas3, which contains both the nuclease and helicase activities required for DNA cleavage during interference. In subtype I-D systems, however, the histidine-aspartate (HD) nuclease domain is encoded as part of a Cas10-like large effector complex subunit and the helicase activity in a separate Cas3’ subunit, but the functional and mechanistic consequences of this organisation are not currently understood. Here we show that the Sulfolobus islandicus type I-D Cas10d large subunit exhibits an unusual domain architecture consisting of a Cas3-like HD nuclease domain fused to a degenerate polymerase fold and a C-terminal domain structurally similar to Cas11. Crystal structures of Cas10d both in isolation and bound to S. islandicus rod-shaped virus 3 AcrID1 reveal that the anti-CRISPR protein sequesters the large subunit in a non-functional state unable to form a cleavage-competent effector complex. The architecture of Cas10d suggests that the type I-D effector complex is similar to those found in type III CRISPR–Cas systems and that this feature is specifically exploited by phages for anti-CRISPR defence.In type I-D CRISPR–Cas systems, the nuclease and helicase activities are carried out by separate subunits. The crystal structure of Sulfolobus islandicus type I-D large subunit Cas10d, containing a nuclease domain, reveals unusual architecture. The structure of Cas10d in complex with anti-CRISPR protein AcrID1 suggests that the latter sequesters Cas10d in a nonfunctional state. Abstract A hallmark of type I CRISPR–Cas systems is the presence of Cas3, which contains both the nuclease and helicase activities required for DNA cleavage during interference. In subtype I-D systems, however, the histidine-aspartate (HD) nuclease domain is encoded as part of a Cas10-like large effector complex subunit and the helicase activity in a separate Cas3’ subunit, but the functional and mechanistic consequences of this organisation are not currently understood. Here we show that the Sulfolobus islandicus type I-D Cas10d large subunit exhibits an unusual domain architecture consisting of a Cas3-like HD nuclease domain fused to a degenerate polymerase fold and a C-terminal domain structurally similar to Cas11. Crystal structures of Cas10d both in isolation and bound to S. islandicus rod-shaped virus 3 AcrID1 reveal that the anti-CRISPR protein sequesters the large subunit in a non-functional state unable to form a cleavage-competent effector complex. The architecture of Cas10d suggests that the type I-D effector complex is similar to those found in type III CRISPR–Cas systems and that this feature is specifically exploited by phages for anti-CRISPR defence. In type I-D CRISPR–Cas systems, the nuclease and helicase activities are carried out by separate subunits. The crystal structure of Sulfolobus islandicus type I-D large subunit Cas10d, containing a nuclease domain, reveals unusual architecture. The structure of Cas10d in complex with anti-CRISPR protein AcrID1 suggests that the latter sequesters Cas10d in a nonfunctional state. |
ArticleNumber | 5993 |
Author | Manav, M. Cemre Fuglsang, Anders Brodersen, Ditlev E. Van, Lan B. Lin, Jinzhong Peng, Xu |
Author_xml | – sequence: 1 givenname: M. Cemre orcidid: 0000-0003-3540-2803 surname: Manav fullname: Manav, M. Cemre organization: Department of Molecular Biology and Genetics, Aarhus University, MRC Laboratory of Molecular Biology – sequence: 2 givenname: Lan B. surname: Van fullname: Van, Lan B. organization: Department of Molecular Biology and Genetics, Aarhus University – sequence: 3 givenname: Jinzhong orcidid: 0000-0002-2759-3243 surname: Lin fullname: Lin, Jinzhong organization: Department of Biology, University of Copenhagen – sequence: 4 givenname: Anders orcidid: 0000-0001-8724-6457 surname: Fuglsang fullname: Fuglsang, Anders organization: Department of Biology, University of Copenhagen – sequence: 5 givenname: Xu orcidid: 0000-0003-3926-7514 surname: Peng fullname: Peng, Xu email: peng@bio.ku.dk organization: Department of Biology, University of Copenhagen – sequence: 6 givenname: Ditlev E. orcidid: 0000-0002-5413-4667 surname: Brodersen fullname: Brodersen, Ditlev E. email: deb@mbg.au.dk organization: Department of Molecular Biology and Genetics, Aarhus University |
BackLink | https://www.ncbi.nlm.nih.gov/pubmed/33239638$$D View this record in MEDLINE/PubMed |
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CitedBy_id | crossref_primary_10_1093_nar_gkac925 crossref_primary_10_1016_j_ggedit_2022_100013 crossref_primary_10_1038_s41580_021_00371_9 crossref_primary_10_1146_annurev_virology_100120_010228 crossref_primary_10_1042_BCJ20220073 crossref_primary_10_1016_j_jmb_2023_167996 crossref_primary_10_1038_s41467_022_29581_1 crossref_primary_10_1038_s41467_022_30402_8 crossref_primary_10_1016_j_micres_2022_126963 crossref_primary_10_1021_acs_biochem_1c00779 crossref_primary_10_1089_crispr_2022_0085 crossref_primary_10_1002_admi_202100142 crossref_primary_10_1093_plphys_kiac027 crossref_primary_10_1016_j_chom_2023_10_003 crossref_primary_10_1089_crispr_2022_0037 |
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Snippet | A hallmark of type I CRISPR–Cas systems is the presence of Cas3, which contains both the nuclease and helicase activities required for DNA cleavage during... A hallmark of type I CRISPR-Cas systems is the presence of Cas3, which contains both the nuclease and helicase activities required for DNA cleavage during... Abstract A hallmark of type I CRISPR–Cas systems is the presence of Cas3, which contains both the nuclease and helicase activities required for DNA cleavage... In type I-D CRISPR–Cas systems, the nuclease and helicase activities are carried out by separate subunits. The crystal structure of Sulfolobus islandicus type... |
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SubjectTerms | 631/326/4041 631/45/147 631/535/1266 Archaeal Proteins - antagonists & inhibitors Archaeal Proteins - metabolism Archaeal Proteins - ultrastructure Cleavage CRISPR CRISPR-Associated Proteins - antagonists & inhibitors CRISPR-Associated Proteins - metabolism CRISPR-Associated Proteins - ultrastructure CRISPR-Cas Systems - genetics Crystal structure DNA Cleavage DNA helicase Domains Histidine Host-Pathogen Interactions - genetics Humanities and Social Sciences multidisciplinary Nuclease Phages Protein A Protein Domains - genetics Proteins Repressor Proteins - genetics Repressor Proteins - metabolism Rudiviridae - genetics Rudiviridae - metabolism Rudiviridae - pathogenicity Science Science (multidisciplinary) Sulfolobus Sulfolobus - genetics Sulfolobus - virology Viral Proteins - genetics Viral Proteins - metabolism Viral Proteins - ultrastructure Viruses |
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Title | Structural basis for inhibition of an archaeal CRISPR–Cas type I-D large subunit by an anti-CRISPR protein |
URI | https://link.springer.com/article/10.1038/s41467-020-19847-x https://www.ncbi.nlm.nih.gov/pubmed/33239638 https://www.proquest.com/docview/2473234767 https://search.proquest.com/docview/2464606456 https://pubmed.ncbi.nlm.nih.gov/PMC7689449 https://doaj.org/article/8bfbe88217324a9380cd181e40d561c4 |
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