Genome Property Definition Page

NameCRISPR system, I-B subtype, Tneap branch
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 Tneap subtype, so named because this subtype is the only one found in the genome of Thermotoga neapolitana DSM4359, consists of cas1-5 and the subtype specific genes cst1-2. The repeats associated with this subtype tend to have a periodicity of 66 nucleotides. This subtype is found both in Archaea and Bacteria (with the notable exclusion of the Proteobacteria).
JCVI RoleOther
Parent PropertyGenProp0021: CRISPR region
Literature References
[ 1 ]Saunders NF, Goodchild A, Raftery M, Guilhaus M, Curmi PM, Cavicchioli R  Predicted roles for hypothetical proteins in the low-temperature expressed proteome of the Antarctic archaeon Methanococcoides burtonii.  J Proteome Res 2005 Mar-Apr;4(2):464-72.  PMID 15822923
[ 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

Step NameStep NumRequiredEvidence (Method)Evidence Go Terms
Cas1, Tneap regionCas1YESTIGR00287 (HMM-CLUST): CRISPR-associated endonuclease Cas1
Cas2, Tneap regionCas2YESTIGR01573 (HMM-CLUST): CRISPR-associated endonuclease Cas2
Cas3, Tneap regionCas3YESTIGR01596 (HMM-CLUST): CRISPR-associated endonuclease Cas3-HD
TIGR01587 (HMM-CLUST): CRISPR-associated helicase Cas3
Cas4, Tneap regionCas4YESTIGR00372 (HMM-CLUST): CRISPR-associated protein Cas4
Cas5, Tneap specific variantCas5tYESTIGR01895 (HMM): CRISPR-associated protein Cas5, subtype I-B/TNEAP
Cas6, Tneap regionCas6YESTIGR01877 (HMM-CLUST): CRISPR-associated endoribonuclease Cas6
Cst1Cst1YESTIGR01908 (HMM): CRISPR-associated protein Cas8b1/Cst1, subtype I-B/TNEAP
Cst2, DevR family regulatorCst2YESTIGR02585 (HMM-CLUST): CRISPR-associated protein Cas7/Cst2/DevR, subtype I-B/TNEAP

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
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