Genome Property Definition Page

NameCRISPR system, III-A/Mtube 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, Selengut, et al., submitted) in which certain groups of subtype-specific genes are found in addition to characteristic sets of the more widely distributed cas genes. The Mtube subtype, so named because this subtype is the only one found in the genome of Mycobacterium tuberculosis, consists of cas1, cas2, and the subtype specific genes csm1-5. Csm3, 4 and 5 are members of the RAMP superfamily, and this subtype shares some similarities with the CRISPR RAMP module in that it tends to be associated with other subtypes and often forms hybrid-subtype loci.
JCVI RoleOther
Parent PropertyGenProp0021: CRISPR region
Literature References
[ 1 ]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

Step NameStep NumRequiredEvidence (Method)Evidence Go Terms
Cas1, Mtube regionCas1YESTIGR00287 (HMM-CLUST): CRISPR-associated endonuclease Cas1
Cas2, Mtube regionCas2YESTIGR01573 (HMM-CLUST): CRISPR-associated endonuclease Cas2
Cas6, Mtube regionCas6YESTIGR01877 (HMM-CLUST): CRISPR-associated endoribonuclease Cas6
Csm1Csm1YESTIGR02578 (HMM): CRISPR-associated protein Cas10/Csm1, subtype III-A/MTUBE
Csm2Csm2YESTIGR01870 (HMM): CRISPR type III-A/MTUBE-associated protein Csm2
Csm3Csm3YESTIGR02582 (HMM): CRISPR type III-A/MTUBE-associated RAMP protein Csm3
Csm4Csm4YESTIGR01903 (HMM): CRISPR type III-A/MTUBE-associated RAMP protein Csm4
Csm5Csm5YESTIGR01899 (HMM): CRISPR type III-A/MTUBE-associated RAMP protein Csm5
Csm6Csm6NOTIGR02672 (HMM): CRISPR type III-A/MTUBE-associated protein Csm6

Parent Properties
GenProp0021CRISPR region

Sibling Properties
GenProp0310CRISPR system, I-F/Ypest subtype
GenProp0313CRISPR system, I-C/Dvulg 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
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