| Accession | GenProp0313 |
| Name | CRISPR system, I-C/Dvulg subtype |
| Type | SYSTEM |
| Description | CRISPR repeats are by definition Clustered Regularly Interspaced Short Palindromic Repeats, described by Jansen [1]. Certain proteins, including Cas1 to Cas4, are found only in genomes with CRISPR repeats, and are near these repeats. Jansen, et al. describe CRISPR loci as having direct repeats, varying in size from 21 to 37 bp, interspaced by similarly sized non-repetitive sequences. Variants of CRISP/Cas loci (subtypes) have been described (Haft, et al, PMID:16292354) in which certain groups of subtype-specific genes are found in addition to characteristic sets of the more widely distributed cas genes. The Dvulg subtype, so named because this subtype is the only one found in the genome of Desulfovibrio vulgaris, also called type I-C, consists of cas1-5 and the subtype specific genes csd1-2. The repeats associated with this subtype tend to have a periodicity of 66 nucleotides. This subtype is found in a wide variety of bacteria and never in the Archaea. Cas2 in this system has been shown to act as an endonuclease for dsDNA rather than ssRNA. |
| JCVI Role | Other |
| Parent Property | GenProp0021: CRISPR region
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| Literature References | [ 1 ]Jansen R, Embden JD, Gaastra W, Schouls LM Identification of genes that are associated with DNA repeats in prokaryotes. Mol Microbiol 2002 Mar;43(6):1565-75. PMID 11952905
[ 2 ]Haft DH, Selengut J, Mo ngodin EF, Nelson KE A guild of 45 CRISPR-associated (Cas) protein families and multiple CRISPR/Cas subtypes exist in prokaryotic genomes. PLoS Comput Biol. 2005 Nov;1(6):e60. PMID 16292354
[ 3 ]Nam KH, Ding F, Haitjema C, Huang Q, DeLisa MP, Ke A Double-stranded endonuclease activity in Bacillus halodurans clustered regularly interspaced short palindromic repeats (CRISPR)-associated Cas2 protein. J Biol Chem. 2012 Oct 19;287(43):35943-52. PMID 22942283
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| Step Name | Step Num | Required | Evidence (Method) | Evidence Go Terms |
|---|
| Cas1, Dvulg region | Cas1 | YES | TIGR00287 (HMM-CLUST): CRISPR-associated endonuclease Cas1 | |
| Cas2, Dvulg region | Cas2 | YES | TIGR01573 (HMM-CLUST): CRISPR-associated endonuclease Cas2 | |
| Cas3, Dvulg region | Cas3 | YES | TIGR01587 (HMM-CLUST): CRISPR-associated helicase Cas3 | |
| Cas4, Dvulg region | Cas4 | YES | TIGR00372 (HMM-CLUST): CRISPR-associated protein Cas4 | |
| Cas5, Dvulg specific variant | Cas5d | YES | TIGR01876 (HMM): CRISPR-associated protein Cas5, subtype I-C/DVULG | |
| Csd1 | Csd1 | YES | TIGR01863 (HMM): CRISPR-associated protein Cas8c/Csd1, subtype I-C/DVULG | |
| Csd2 | Csd2 | YES | TIGR02589 (HMM): CRISPR-associated protein Cas7/Csd2, subtype I-C/DVULG | |
| Accession | Name |
|---|
| GenProp0310 | CRISPR system, I-F/Ypest subtype |
| GenProp0314 | CRISPR system, II/Nmeni subtype |
| GenProp0315 | CRISPR system, I-E/Ecoli subtype |
| GenProp0316 | CRISPR system, III-B/RAMP module subtype |
| GenProp0317 | CRISPR system, I-B subtype, Tneap branch |
| GenProp0318 | CRISPR system, III-A/Mtube subtype |
| GenProp0319 | CRISPR system, I-A/Apern subtype |
| GenProp0320 | CRISPR system, I-B subtype, Hmari branch |
| GenProp0469 | CRISPR system, Dpsyc subtype |
| GenProp0670 | CRISPR system, Aferr subtype |
| GenProp0685 | CRISPR system, I-D/Cyano subtype |
| GenProp0768 | CRISPR system, Pging subtype |
| GenProp0922 | CRISPR system, Myxan subtype |
| GenProp1061 | CRISPR system, PreFran subtype |
