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IPR006941 is a Ribonuclease CAF1.
<p>The major pathways of mRNA turnover in eukaryotes initiate with shortening of the poly(A) tail. CAF1 (also known as CCR4-associated factor 1) is an RNase of the DEDD superfamily, and a subunit of the CCR4-NOT complex that mediates 3' to 5' mRNA deadenylation [[cite:PUB00082305], [cite:PUB00082306]]. In yeast, CAF1 ([swissprot:P39008]) is also known as POP2, and encodes a critical component of the major cytoplasmic deadenylase [[cite:PUB00082302], [cite:PUB00019239]]. It is required for normal mRNA deadenylation<i>in vivo</i>and localises to the cytoplasm. CAF1 copurifies with a CCR4-dependent poly(A)-specific exonuclease activity. The crystal structure of Saccharomyces cerevisiae POP2 has been resolved [[cite:PUB00019241]].</p> <p>Some members of this family contain a single-stranded nucleic acid binding domain, R3H, such as poly(A)-specific ribonuclease (PARN), which also contains an RRM domain [[cite:PUB00082307]]. PARN is only conserved in vertebrates and may be important in regulated deadenylation such as early developmentand DNA damage response [[cite:PUB00082309], [cite:PUB00082310]].</p>
This description is obtained from EB-eye REST.
| Transcript | Name | Description | Predicted domains | Domain count |
|---|---|---|---|---|
| – | PREDICTED: probable CCR4-associated factor 1 homolog 9-like isoform X1 [Cicer arietinum] gi|502122303|ref|XP_004497679.1| | 7 | ||
| – | PREDICTED: poly(A)-specific ribonuclease PARN-like [Glycine max] gi|356524370|ref|XP_003530802.1| | 9 | ||
| – | PREDICTED: probable CCR4-associated factor 1 homolog 7-like [Glycine max] gi|356515030|ref|XP_003526204.1| | 6 | ||
| – | PREDICTED: poly(A)-specific ribonuclease PARN-like isoform X1 [Cicer arietinum] gi|502103237|ref|XP_004492234.1| | 8 | ||
| – | PREDICTED: poly(A)-specific ribonuclease PARN-like isoform X2 [Cicer arietinum] gi|502103240|ref|XP_004492235.1| | 8 | ||
| – | PREDICTED: probable CCR4-associated factor 1 homolog 11-like [Glycine max] gi|356572602|ref|XP_003554457.1| | 8 | ||
| – | PREDICTED: probable CCR4-associated factor 1 homolog 11-like [Glycine max] gi|356543624|ref|XP_003540260.1| | 7 | ||
| – | PREDICTED: probable CCR4-associated factor 1 homolog 7-like [Glycine max] gi|356526256|ref|XP_003531734.1| | 7 | ||
| – | 7 | |||
| – | 7 | |||
| – | PREDICTED: probable CCR4-associated factor 1 homolog 9-like [Glycine max] gi|356542778|ref|XP_003539842.1| | 8 | ||
| – | PREDICTED: probable CCR4-associated factor 1 homolog 9-like [Vitis vinifera] gi|225464848|ref|XP_002271636.1| | 7 | ||
| – | 7 | |||
| – | Polynucleotidyl transferase, ribonuclease H-like superfamily protein; TAIR: AT2G32070.1 Polynucleotidyl transferase, ribonuclease H-like superfamily protein; Swiss-Prot: sp|Q9SKZ2|CAF1G_ARATH Probable CCR4-associated factor 1 homolog 7; TrEMBL-Plants: tr|I3SY01|I3SY01_LOTJA Uncharacterized protein; Found in the gene: LotjaGi1g1v0378700 | 10 | ||
| – | Polynucleotidyl transferase, ribonuclease H-like superfamily protein; TAIR: AT2G32070.1 Polynucleotidyl transferase, ribonuclease H-like superfamily protein; Swiss-Prot: sp|Q9SKZ2|CAF1G_ARATH Probable CCR4-associated factor 1 homolog 7; TrEMBL-Plants: tr|I3SY01|I3SY01_LOTJA Uncharacterized protein; Found in the gene: LotjaGi1g1v0378700 | 10 | ||
| – | Polynucleotidyl transferase, ribonuclease H-like superfamily protein; TAIR: AT2G32070.1 Polynucleotidyl transferase, ribonuclease H-like superfamily protein; Swiss-Prot: sp|Q9SKZ2|CAF1G_ARATH Probable CCR4-associated factor 1 homolog 7; TrEMBL-Plants: tr|I3SY01|I3SY01_LOTJA Uncharacterized protein; Found in the gene: LotjaGi1g1v0378700 | 10 | ||
| – | Poly(A)-specific ribonuclease PARN-like; TAIR: AT3G25430.1 Polynucleotidyl transferase, ribonuclease H-like superfamily protein; Swiss-Prot: sp|Q8W4C3|PARNL_ARATH Poly(A)-specific ribonuclease PARN-like; TrEMBL-Plants: tr|A0A151SIG1|A0A151SIG1_CAJCA Uncharacterized protein; Found in the gene: LotjaGi1g1v0595700 | 11 | ||
| – | Poly(A)-specific ribonuclease PARN-like; TAIR: AT3G25430.1 Polynucleotidyl transferase, ribonuclease H-like superfamily protein; Swiss-Prot: sp|Q8W4C3|PARNL_ARATH Poly(A)-specific ribonuclease PARN-like; TrEMBL-Plants: tr|A0A151SIG1|A0A151SIG1_CAJCA Uncharacterized protein; Found in the gene: LotjaGi1g1v0595700 | 11 | ||
| – | CCR4-NOT transcription complex family protein; TAIR: AT5G22250.1 Polynucleotidyl transferase, ribonuclease H-like superfamily protein; Swiss-Prot: sp|Q9FMS6|CAF1K_ARATH Probable CCR4-associated factor 1 homolog 11; TrEMBL-Plants: tr|I1NAS4|I1NAS4_SOYBN Uncharacterized protein; Found in the gene: LotjaGi1g1v0735100 | 10 | ||
| – | Polynucleotidyl transferase, ribonuclease H-like superfamily protein; TAIR: AT3G44260.1 Polynucleotidyl transferase, ribonuclease H-like superfamily protein; Swiss-Prot: sp|Q9LXM2|CAF1I_ARATH Probable CCR4-associated factor 1 homolog 9; TrEMBL-Plants: tr|I1LTY5|I1LTY5_SOYBN Uncharacterized protein; Found in the gene: LotjaGi3g1v0181000 | 8 | ||
| – | CCR4-NOT transcription complex family protein; TAIR: AT2G32070.1 Polynucleotidyl transferase, ribonuclease H-like superfamily protein; Swiss-Prot: sp|Q9SKZ2|CAF1G_ARATH Probable CCR4-associated factor 1 homolog 7; TrEMBL-Plants: tr|I3SSR5|I3SSR5_LOTJA Uncharacterized protein; Found in the gene: LotjaGi3g1v0350800 | 9 | ||
| – | Polynucleotidyl transferase, ribonuclease H-like superfamily protein; TAIR: AT2G32070.1 Polynucleotidyl transferase, ribonuclease H-like superfamily protein; Swiss-Prot: sp|Q9SKZ2|CAF1G_ARATH Probable CCR4-associated factor 1 homolog 7; TrEMBL-Plants: tr|I3SSR5|I3SSR5_LOTJA Uncharacterized protein; Found in the gene: LotjaGi3g1v0350800 | 9 | ||
| – | Polynucleotidyl transferase, ribonuclease H-like superfamily protein; TAIR: AT2G32070.1 Polynucleotidyl transferase, ribonuclease H-like superfamily protein; Swiss-Prot: sp|Q9SKZ2|CAF1G_ARATH Probable CCR4-associated factor 1 homolog 7; TrEMBL-Plants: tr|I3SSR5|I3SSR5_LOTJA Uncharacterized protein; Found in the gene: LotjaGi3g1v0350800 | 9 | ||
| – | Polynucleotidyl transferase, ribonuclease H-like superfamily protein; TAIR: AT2G32070.1 Polynucleotidyl transferase, ribonuclease H-like superfamily protein; Swiss-Prot: sp|Q9SKZ2|CAF1G_ARATH Probable CCR4-associated factor 1 homolog 7; TrEMBL-Plants: tr|I3SSR5|I3SSR5_LOTJA Uncharacterized protein; Found in the gene: LotjaGi3g1v0350800 | 9 | ||
| – | CCR4-NOT transcription complex family protein; TAIR: AT3G44260.1 Polynucleotidyl transferase, ribonuclease H-like superfamily protein; Swiss-Prot: sp|Q9LXM2|CAF1I_ARATH Probable CCR4-associated factor 1 homolog 9; TrEMBL-Plants: tr|I1LRJ8|I1LRJ8_SOYBN Uncharacterized protein; Found in the gene: LotjaGi3g1v0473600 | 9 | ||
| – | Polynucleotidyl transferase, ribonuclease H-like superfamily protein; TAIR: AT3G44260.1 Polynucleotidyl transferase, ribonuclease H-like superfamily protein; Swiss-Prot: sp|Q9LXM2|CAF1I_ARATH Probable CCR4-associated factor 1 homolog 9; TrEMBL-Plants: tr|A0A0L9U8M9|A0A0L9U8M9_PHAAN Uncharacterized protein; Found in the gene: LotjaGi5g1v0101300 | 9 | ||
| – | Poly(A)-specific ribonuclease PARN; TAIR: AT1G55870.1 Polynucleotidyl transferase, ribonuclease H-like superfamily protein; Swiss-Prot: sp|Q9LG26|PARN_ARATH Poly(A)-specific ribonuclease PARN; TrEMBL-Plants: tr|A0A151S4M2|A0A151S4M2_CAJCA Poly(A)-specific ribonuclease PARN; Found in the gene: LotjaGi6g1v0142100 | 10 |
A list of co-occurring predicted domains within the L. japonicus gene space:
| Predicted domain | Source | Observations | Saturation (%) |
|---|---|---|---|
| SignalP-TM | SignalP_GRAM_NEGATIVE | 1 | 3.70 |