CRISPR subtype II/NMENI RNA-guided endonuclease Cas9/Csn1; CRISPR loci appear to be mobile ...
30-1076
0e+00
CRISPR subtype II/NMENI RNA-guided endonuclease Cas9/Csn1; CRISPR loci appear to be mobile elements with a wide host range. This model represents a protein found only in CRISPR-containing species, near other CRISPR-associated proteins (cas), as part of the NMENI subtype of CRISPR/Cas locus. The species range so far for this protein is animal pathogens and commensals only.
:
Pssm-ID: 273840 Cd Length: 805 Bit Score: 852.10 E-value: 0e+00
PAM-interacting domain of CRISPR-associated endonuclease Cas9; Cas9_PI is a family found at ...
1128-1384
1.46e-43
PAM-interacting domain of CRISPR-associated endonuclease Cas9; Cas9_PI is a family found at the C-terminal of bacterial type II CRISPR system Cas9 endonuclease. This domain adopts a novel protein fold that is unique to the Cas9 family. It is positioned in the structure-DNA-complex to recognize the PAM sequence on the non-complementary DNA strand of the crRNA. PAM sequence is protospacer-adjacent motifs on DNA. See family CRISPR-DR2, Rfam:RF01315. Cas9 carries two nuclease domains, HNH and RuvC, which cleave the DNA strands that are complementary and non-complementary to the 20 nucleotide guide sequence in crRNAs, respectively.
The actual alignment was detected with superfamily member pfam16595:
Pssm-ID: 435449 Cd Length: 264 Bit Score: 159.79 E-value: 1.46e-43
CRISPR subtype II/NMENI RNA-guided endonuclease Cas9/Csn1; CRISPR loci appear to be mobile ...
30-1076
0e+00
CRISPR subtype II/NMENI RNA-guided endonuclease Cas9/Csn1; CRISPR loci appear to be mobile elements with a wide host range. This model represents a protein found only in CRISPR-containing species, near other CRISPR-associated proteins (cas), as part of the NMENI subtype of CRISPR/Cas locus. The species range so far for this protein is animal pathogens and commensals only.
Pssm-ID: 273840 Cd Length: 805 Bit Score: 852.10 E-value: 0e+00
CRISPR/Cas system-associated protein Cas9; CRISPR (Clustered Regularly Interspaced Short ...
30-1075
0e+00
CRISPR/Cas system-associated protein Cas9; CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Very large protein containing McrA/HNH-nuclease related domain and a RuvC-like nuclease domain; signature gene for type II
Pssm-ID: 187774 [Multi-domain] Cd Length: 799 Bit Score: 838.23 E-value: 0e+00
REC lobe of CRISPR-associated endonuclease Cas9; The REC lobe of Cas9 - the CRISPR-associated ...
207-736
7.56e-180
REC lobe of CRISPR-associated endonuclease Cas9; The REC lobe of Cas9 - the CRISPR-associated endonuclease Cas9 - includes the REC1 and REC2 domains. REC1 forms an elongated, alpha-helical structure consisting of 25 alpha helices and two beta-sheets, whereas REC2 inserted within REC1 adopts a six-helix bundle structure. The REC lobe and the NUC lobe of Cas9 fold to present a positively charged groove at their interface which accommodates the negatively charged sgRNA:target DNA heteroduplex. CRISPR (clustered regularly interspaced short palindromic repeat)-Cas system occurs naturally in bacteria as a defence against invasion by phages or other mobile genetic elements. Cas9 is targeted to specific genomic locations by sgRNAs or single guide RNAs, in order to complex with invading DNA in order to cleave it and render it inactive.
Pssm-ID: 435447 Cd Length: 539 Bit Score: 550.13 E-value: 7.56e-180
CRISPR-Cas system type-II protein Cas9 [Defense mechanisms]; CRISPR-Cas system type-II protein ...
29-1044
2.66e-119
CRISPR-Cas system type-II protein Cas9 [Defense mechanisms]; CRISPR-Cas system type-II protein Cas9 is part of the Pathway/BioSystem: CRISPR-Cas system
Pssm-ID: 442735 [Multi-domain] Cd Length: 812 Bit Score: 396.26 E-value: 2.66e-119
PAM-interacting domain of CRISPR-associated endonuclease Cas9; Cas9_PI is a family found at ...
1128-1384
1.46e-43
PAM-interacting domain of CRISPR-associated endonuclease Cas9; Cas9_PI is a family found at the C-terminal of bacterial type II CRISPR system Cas9 endonuclease. This domain adopts a novel protein fold that is unique to the Cas9 family. It is positioned in the structure-DNA-complex to recognize the PAM sequence on the non-complementary DNA strand of the crRNA. PAM sequence is protospacer-adjacent motifs on DNA. See family CRISPR-DR2, Rfam:RF01315. Cas9 carries two nuclease domains, HNH and RuvC, which cleave the DNA strands that are complementary and non-complementary to the 20 nucleotide guide sequence in crRNAs, respectively.
Pssm-ID: 435449 Cd Length: 264 Bit Score: 159.79 E-value: 1.46e-43
CRISPR subtype II/NMENI RNA-guided endonuclease Cas9/Csn1; CRISPR loci appear to be mobile ...
30-1076
0e+00
CRISPR subtype II/NMENI RNA-guided endonuclease Cas9/Csn1; CRISPR loci appear to be mobile elements with a wide host range. This model represents a protein found only in CRISPR-containing species, near other CRISPR-associated proteins (cas), as part of the NMENI subtype of CRISPR/Cas locus. The species range so far for this protein is animal pathogens and commensals only.
Pssm-ID: 273840 Cd Length: 805 Bit Score: 852.10 E-value: 0e+00
CRISPR/Cas system-associated protein Cas9; CRISPR (Clustered Regularly Interspaced Short ...
30-1075
0e+00
CRISPR/Cas system-associated protein Cas9; CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; Very large protein containing McrA/HNH-nuclease related domain and a RuvC-like nuclease domain; signature gene for type II
Pssm-ID: 187774 [Multi-domain] Cd Length: 799 Bit Score: 838.23 E-value: 0e+00
REC lobe of CRISPR-associated endonuclease Cas9; The REC lobe of Cas9 - the CRISPR-associated ...
207-736
7.56e-180
REC lobe of CRISPR-associated endonuclease Cas9; The REC lobe of Cas9 - the CRISPR-associated endonuclease Cas9 - includes the REC1 and REC2 domains. REC1 forms an elongated, alpha-helical structure consisting of 25 alpha helices and two beta-sheets, whereas REC2 inserted within REC1 adopts a six-helix bundle structure. The REC lobe and the NUC lobe of Cas9 fold to present a positively charged groove at their interface which accommodates the negatively charged sgRNA:target DNA heteroduplex. CRISPR (clustered regularly interspaced short palindromic repeat)-Cas system occurs naturally in bacteria as a defence against invasion by phages or other mobile genetic elements. Cas9 is targeted to specific genomic locations by sgRNAs or single guide RNAs, in order to complex with invading DNA in order to cleave it and render it inactive.
Pssm-ID: 435447 Cd Length: 539 Bit Score: 550.13 E-value: 7.56e-180
CRISPR-Cas system type-II protein Cas9 [Defense mechanisms]; CRISPR-Cas system type-II protein ...
29-1044
2.66e-119
CRISPR-Cas system type-II protein Cas9 [Defense mechanisms]; CRISPR-Cas system type-II protein Cas9 is part of the Pathway/BioSystem: CRISPR-Cas system
Pssm-ID: 442735 [Multi-domain] Cd Length: 812 Bit Score: 396.26 E-value: 2.66e-119
PAM-interacting domain of CRISPR-associated endonuclease Cas9; Cas9_PI is a family found at ...
1128-1384
1.46e-43
PAM-interacting domain of CRISPR-associated endonuclease Cas9; Cas9_PI is a family found at the C-terminal of bacterial type II CRISPR system Cas9 endonuclease. This domain adopts a novel protein fold that is unique to the Cas9 family. It is positioned in the structure-DNA-complex to recognize the PAM sequence on the non-complementary DNA strand of the crRNA. PAM sequence is protospacer-adjacent motifs on DNA. See family CRISPR-DR2, Rfam:RF01315. Cas9 carries two nuclease domains, HNH and RuvC, which cleave the DNA strands that are complementary and non-complementary to the 20 nucleotide guide sequence in crRNAs, respectively.
Pssm-ID: 435449 Cd Length: 264 Bit Score: 159.79 E-value: 1.46e-43
Database: CDSEARCH/cdd Low complexity filter: no Composition Based Adjustment: yes E-value threshold: 0.01
References:
Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
of the residues that compose this conserved feature have been mapped to the query sequence.
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Functional characterization of the conserved domain architecture found on the query.
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This image shows a graphical summary of conserved domains identified on the query sequence.
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if a domain or superfamily has been annotated with functional sites (conserved features),
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click on the bars or triangles to view your query sequence embedded in a multiple sequence alignment of the proteins used to develop the corresponding domain model.
The table lists conserved domains identified on the query sequence. Click on the plus sign (+) on the left to display full descriptions, alignments, and scores.
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(labeled illustration) Standard Display shows only the best scoring domain model from each source, in each hit category listed below for each region on the query sequence.
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