Genome Property Definition Page

NameCRISPR system, I-C/Dvulg subtype
DescriptionCRISPR 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 RoleOther
Parent PropertyGenProp0021: CRISPR region
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

Step NameStep NumRequiredEvidence (Method)Evidence Go Terms
Cas1, Dvulg regionCas1YESTIGR00287 (HMM-CLUST): CRISPR-associated endonuclease Cas1
Cas2, Dvulg regionCas2YESTIGR01573 (HMM-CLUST): CRISPR-associated endonuclease Cas2
Cas3, Dvulg regionCas3YESTIGR01587 (HMM-CLUST): CRISPR-associated helicase Cas3
Cas4, Dvulg regionCas4YESTIGR00372 (HMM-CLUST): CRISPR-associated protein Cas4
Cas5, Dvulg specific variantCas5dYESTIGR01876 (HMM): CRISPR-associated protein Cas5, subtype I-C/DVULG
Csd1Csd1YESTIGR01863 (HMM): CRISPR-associated protein Cas8c/Csd1, subtype I-C/DVULG
Csd2Csd2YESTIGR02589 (HMM): CRISPR-associated protein Cas7/Csd2, subtype I-C/DVULG

Parent Properties
GenProp0021CRISPR region

Sibling Properties
GenProp0310CRISPR system, I-F/Ypest subtype
GenProp0314CRISPR system, II/Nmeni subtype
GenProp0315CRISPR system, I-E/Ecoli subtype
GenProp0316CRISPR system, III-B/RAMP module subtype
GenProp0317CRISPR system, I-B subtype, Tneap branch
GenProp0318CRISPR system, III-A/Mtube subtype
GenProp0319CRISPR system, I-A/Apern subtype
GenProp0320CRISPR system, I-B subtype, Hmari branch
GenProp0469CRISPR system, Dpsyc subtype
GenProp0670CRISPR system, Aferr subtype
GenProp0685CRISPR system, I-D/Cyano subtype
GenProp0768CRISPR system, Pging subtype
GenProp0922CRISPR system, Myxan subtype
GenProp1061CRISPR system, PreFran subtype