| Accession | GenProp0315 |
| Name | CRISPR system, I-E/Ecoli 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, 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 Ecoli subtype, so named because this subtype is the only one found in the genome of Escherichia coli, consists of cas1-3, a subtype-specific variant of cas5 and the subtype specific genes cse1-4. The repeats associated with this subtype tend to have a periodicity of 61 nucleotides and a repeat size of 29 mucleotides. This subtype is found in a wide variety of bacteria and has also been reported to be present in an archaeon [2].
|
| JCVI Role | Other |
| Parent Property | GenProp0021: 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 ]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
[ 3 ]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 Name | Step Num | Required | Evidence (Method) | Evidence Go Terms |
|---|
| Cas1, Ecoli region | Cas1 | YES | TIGR00287 (HMM-CLUST): CRISPR-associated endonuclease Cas1 | |
| Cas2, Ecoli specific variant | Cas2 | YES | TIGR01873 (HMM): CRISPR-associated endoribonuclease Cas2, subtype I-E/ECOLI | |
| Cas3, Ecoli region | Cas3 | YES | TIGR01587 (HMM-CLUST): CRISPR-associated helicase Cas3 | |
| Cas5, Ecoli specific variant | Cas5e | YES | TIGR01868 (HMM): CRISPR-associated protein Cas5/CasD, subtype I-E/ECOLI | |
| Cse1 | Cse1 | YES | TIGR02547 (HMM): CRISPR type I-E/ECOLI-associated protein CasA/Cse1 | |
| Cse2 | Cse2 | YES | TIGR02548 (HMM): CRISPR type I-E/ECOLI-associated protein CasB/Cse2 | |
| Cse3 | Cse3 | YES | TIGR01907 (HMM): CRISPR-associated protein Cas6/Cse3/CasE, subtype I-E/ECOLI | |
| Cse4 | Cse4 | YES | TIGR01869 (HMM): CRISPR-associated protein Cas7/Cse4/CasC, subtype I-E/ECOLI | |
| Accession | Name |
|---|
| GenProp0310 | CRISPR system, I-F/Ypest subtype |
| GenProp0313 | CRISPR system, I-C/Dvulg subtype |
| GenProp0314 | CRISPR system, II/Nmeni 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 |
