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Table 3 Genes loosely associated with CASS

From: A putative RNA-interference-based immune system in prokaryotes: computational analysis of the predicted enzymatic machinery, functional analogies with eukaryotic RNAi, and hypothetical mechanisms of action

 

Family

Example of genes associated with CASS

Comments

1

Reverse transriptase (RT)

VVA1544, PG1982, alr1468

Fused to COG1518 in three occasions and a remnant of RT (Mbar_A1351 and MM3360) in M. barkeri and mazei genomes is located close to cas

2

PIN-domain

alr1560, ST0017, Ava_4168

Ribonuclease

3

COG2442

Ava_4167

HTH domain, component of toxin-antitoxin system, probably targeting mRNA

4

COG1432

MS0983

Large family of proteins, predicted to be a phosphatase or a nuclease on the basis of sequence motifs which is shared by all three domain of life. In multidomain proteins in plants it is associated with C2H2 Zn-finger domain

5

PA2117-like

MS0982, MS0989

An enzymatic domain, that is located in an operon with restriction-modification systems or in association with a diverged helicase

6

COG3645-like

ACIAD2479

Homologs of phage anti-repressor Ant which is known to be inhibited by an antisense RNA

7

argonaute

MK1311

Homolog of the eukaryotic argonaute protein, that are key player in RNA guided posttranscriptional regulation by siRNA and miRNA

8

COG1598/COG4226/HicB

MCA0653, MTH321

Probably has an RNAseH-like fold, often fused to CopG-family of transcriptional regulators; forms a conserved operon with COG1724/hicA, which has the dsRBD-like fold; possible novel toxin-antitoxin module targeting mRNA

9

PUA-domain

LIC10933

RNA binding domain

10

3'-5' exonuclease

LcasA01001274

Fused to COG1343 in Lactococcus bulgaricus and L.casei

11

COG1652

TK0459

Regulatory ATPase of AAA family fused to RecB-family nuclease; Predicted regulator of RNA metabolism

12

AbrB/MazE domain

TK0457, PAE0118

DNA-binding domain, belongs to the same fold as MazE, which involved in toxin-antitoxin system

13

S1-domain

CaurDRAFT_2121

Ribosomal protein S1-like RNA-binding domain, fused to RAMP domain

14

CSP-like

Rrub02003211

Cold shock protein-like RNA-binding domain, fused to RAMP domain