Your browser is unable to support new features implemented in HTML5 and CSS3 to render this site as intended. Your experience may suffer from functionality degradation but the site should remain usable. We strongly recommend the latest version of Google Chrome, OS X Safari or Mozilla Firefox. As Safari is bundled with OS X, if you are unable to upgrade to a newer version of OS X, we recommend using an open source browser. Dismiss message
IPR001313 is a Pumilio RNA-binding repeat.
<p>Members of the Pumilio family of proteins (Puf) regulate translation and mRNA stability in a wide variety of eukaryotic organisms including mammals, flies, worms, slime mold, and yeast [[cite:PUB00018238]]. Pumilio family members are characterised by the presence of eight tandem copies of an imperfectly repeated 36 amino acids sequence motif, the Pumilio repeat, surrounded by a short N- and C-terminal conserved region. The eight repeats and the N- and C-terminal regions form the Pumilio homology domain (PUM-HD). The PUM-HD domain is a sequence-specific RNA binding domain. The Puf family of proteins are mainly post-transcriptional regulators. Several Puf members have been shown to bind specific RNA sequences mainly found in the 3' UTR of mRNA and repress their translation [[cite:PUB00018239], [cite:PUB00094378]]. Frequently, Puf proteins function asymmetrically to create protein gradients, thus causing asymmetric cell division and regulating cell fate specification [[cite:PUB00018240]].</p> <p>Crystal structure of Pumilio repeats has been solved [[cite:PUB00018241]]. The PUM repeat with the N- and C-terminal regions pack together to form a right-handed superhelix that approximates a half doughnut structurally similar to the Armadillo (ARM) repeat proteins, beta-catenin and karyopherin alpha. The RNA binds the concave surface of the molecule, where each of the protein's eight repeats makes contacts with a different RNA base via three amino acid side chains at conserved positions [[cite:PUB00018242]].</p> <p>This entry represents the Pumilio repeat.</p>
This description is obtained from EB-eye REST.
GO predictions are based solely on the InterPro-to-GO mappings published by EMBL-EBI, which are in turn based on the mapping of predicted domains to the InterPro dataset. The InterPro-to-GO mapping was last updated on , while the GO metadata was last updated on .
| GO term | Namespace | Name | Definition | Relationships |
|---|---|---|---|---|
| Molecular function | RNA binding | Interacting selectively and non-covalently with an RNA molecule or a portion thereof. |
| Transcript | Name | Description | Predicted domains | Domain count |
|---|---|---|---|---|
| – | PREDICTED: pumilio homolog 1-like isoform X2 [Cicer arietinum] gi|502096967|ref|XP_004490876.1| | 17 | ||
| – | PREDICTED: pumilio homolog 2-like [Cicer arietinum] gi|502081839|ref|XP_004486985.1| | 17 | ||
| – | PREDICTED: pumilio homolog 2-like [Cicer arietinum] gi|502081839|ref|XP_004486985.1| | 17 | ||
| – | PREDICTED: pumilio homolog 12-like [Cicer arietinum] gi|502132806|ref|XP_004501537.1| | 14 | ||
| – | Pumilio-like protein [Medicago truncatula] gi|357454231|ref|XP_003597396.1| | 16 | ||
| – | PREDICTED: pumilio homolog 11-like [Cicer arietinum] gi|502117968|ref|XP_004496035.1| | 10 | ||
| – | PREDICTED: pumilio homolog 12-like [Cicer arietinum] gi|502132806|ref|XP_004501537.1| | 14 | ||
| – | PREDICTED: pumilio homolog 23-like [Glycine max] gi|356506124|ref|XP_003521837.1| | 11 | ||
| – | PREDICTED: LOW QUALITY PROTEIN: pumilio homolog 6, chloroplastic-like [Glycine max] gi|356550736|ref|XP_003543740.1| | 15 | ||
| – | PREDICTED: pumilio homolog 24-like isoform 1 [Glycine max] gi|356564394|ref|XP_003550439.1| | 13 | ||
| – | PREDICTED: pumilio homolog 4-like isoform X4 [Cicer arietinum] gi|502118396|ref|XP_004496246.1| | 17 | ||
| – | PREDICTED: pumilio homolog 4-like isoform X5 [Cicer arietinum] gi|502118398|ref|XP_004496247.1| | 17 | ||
| – | PREDICTED: pumilio homolog 5-like [Cicer arietinum] gi|502085772|ref|XP_004488002.1| | 15 | ||
| – | PREDICTED: pumilio homolog 2-like [Glycine max] gi|356557551|ref|XP_003547079.1| | 15 | ||
| – | Pumilio, putative; TAIR: AT2G29200.1 pumilio 1; Swiss-Prot: sp|Q9ZW07|PUM1_ARATH Pumilio homolog 1; TrEMBL-Plants: tr|V7B957|V7B957_PHAVU Uncharacterized protein; Found in the gene: LotjaGi1g1v0088100 | 17 | ||
| – | Pumilio, putative; TAIR: AT2G29200.1 pumilio 1; Swiss-Prot: sp|Q9ZW07|PUM1_ARATH Pumilio homolog 1; TrEMBL-Plants: tr|V7B957|V7B957_PHAVU Uncharacterized protein; Found in the gene: LotjaGi1g1v0088100 | 17 | ||
| – | Pumilio; TAIR: AT1G22240.1 pumilio 8; Swiss-Prot: sp|Q9C9R6|PUM7_ARATH Putative pumilio homolog 7, chloroplastic; TrEMBL-Plants: tr|G7KAF0|G7KAF0_MEDTR Pumilio-family RNA-binding repeatprotein; Found in the gene: LotjaGi1g1v0146700 | 14 | ||
| – | Pumilio-like protein; TAIR: AT5G56510.1 pumilio 12; Swiss-Prot: sp|Q9LVC3|PUM12_ARATH Pumilio homolog 12; TrEMBL-Plants: tr|K7KT25|K7KT25_SOYBN Uncharacterized protein; Found in the gene: LotjaGi1g1v0359500 | 15 | ||
| – | Pumilio; TAIR: AT1G72320.1 pumilio 23; Swiss-Prot: sp|Q9C552|PUM23_ARATH Pumilio homolog 23; TrEMBL-Plants: tr|A0A072U4J4|A0A072U4J4_MEDTR Pumilio-family RNA-binding repeatprotein; Found in the gene: LotjaGi1g1v0799300 | 9 | ||
| – | Pumilio like 23; TAIR: AT1G72320.1 pumilio 23; Swiss-Prot: sp|Q9C552|PUM23_ARATH Pumilio homolog 23; TrEMBL-Plants: tr|A0A0L9TG56|A0A0L9TG56_PHAAN Uncharacterized protein; Found in the gene: LotjaGi1g1v0799300 | 11 | ||
| – | Pumilio-like protein; TAIR: AT2G29190.1 pumilio 2; Swiss-Prot: sp|Q9ZW06|PUM2_ARATH Pumilio homolog 2; TrEMBL-Plants: tr|I1MDC9|I1MDC9_SOYBN Uncharacterized protein; Found in the gene: LotjaGi3g1v0285500 | 17 | ||
| – | Pumilio-like protein; TAIR: AT2G29190.1 pumilio 2; Swiss-Prot: sp|Q9ZW06|PUM2_ARATH Pumilio homolog 2; TrEMBL-Plants: tr|I1MDC9|I1MDC9_SOYBN Uncharacterized protein; Found in the gene: LotjaGi3g1v0285500 | 17 | ||
| – | Pumilio-like protein; TAIR: AT2G29190.1 pumilio 2; Swiss-Prot: sp|Q9ZW06|PUM2_ARATH Pumilio homolog 2; TrEMBL-Plants: tr|I1MDC9|I1MDC9_SOYBN Uncharacterized protein; Found in the gene: LotjaGi3g1v0285500 | 17 | ||
| – | Pumilio-like protein; TAIR: AT2G29190.1 pumilio 2; Swiss-Prot: sp|Q9ZW06|PUM2_ARATH Pumilio homolog 2; TrEMBL-Plants: tr|A0A0B2RMP3|A0A0B2RMP3_GLYSO Pumilio like 2; Found in the gene: LotjaGi3g1v0285500 | 17 | ||
| – | Pumilio-like protein; TAIR: AT2G29190.1 pumilio 2; Swiss-Prot: sp|Q9ZW06|PUM2_ARATH Pumilio homolog 2; TrEMBL-Plants: tr|I1MDC9|I1MDC9_SOYBN Uncharacterized protein; Found in the gene: LotjaGi3g1v0285500 | 17 | ||
| – | Pumilio-like protein; TAIR: AT2G29190.1 pumilio 2; Swiss-Prot: sp|Q9ZW06|PUM2_ARATH Pumilio homolog 2; TrEMBL-Plants: tr|A0A0B2RMP3|A0A0B2RMP3_GLYSO Pumilio like 2; Found in the gene: LotjaGi3g1v0285500 | 17 | ||
| – | Pumilio-like protein; TAIR: AT2G29190.1 pumilio 2; Swiss-Prot: sp|Q9ZW06|PUM2_ARATH Pumilio homolog 2; TrEMBL-Plants: tr|I1MDC9|I1MDC9_SOYBN Uncharacterized protein; Found in the gene: LotjaGi3g1v0285800 | 17 | ||
| – | Pumilio-like protein; TAIR: AT2G29190.1 pumilio 2; Swiss-Prot: sp|Q9ZW06|PUM2_ARATH Pumilio homolog 2; TrEMBL-Plants: tr|I1MDC9|I1MDC9_SOYBN Uncharacterized protein; Found in the gene: LotjaGi3g1v0285800 | 17 | ||
| – | Pumilio-like protein; TAIR: AT2G29190.1 pumilio 2; Swiss-Prot: sp|Q9ZW06|PUM2_ARATH Pumilio homolog 2; TrEMBL-Plants: tr|I1MDC9|I1MDC9_SOYBN Uncharacterized protein; Found in the gene: LotjaGi3g1v0285800 | 17 | ||
| – | Pumilio-like protein; TAIR: AT2G29190.1 pumilio 2; Swiss-Prot: sp|Q9ZW06|PUM2_ARATH Pumilio homolog 2; TrEMBL-Plants: tr|A0A0B2RMP3|A0A0B2RMP3_GLYSO Pumilio like 2; Found in the gene: LotjaGi3g1v0285800 | 17 | ||
| – | Pumilio-like protein; TAIR: AT2G29190.1 pumilio 2; Swiss-Prot: sp|Q9ZW06|PUM2_ARATH Pumilio homolog 2; TrEMBL-Plants: tr|I1MDC9|I1MDC9_SOYBN Uncharacterized protein; Found in the gene: LotjaGi3g1v0285800 | 17 | ||
| – | Pumilio, putative; TAIR: AT4G25880.4 pumilio 6; Swiss-Prot: sp|Q9C5E7|PUM6_ARATH Pumilio homolog 6, chloroplastic; TrEMBL-Plants: tr|K7LWU3|K7LWU3_SOYBN Uncharacterized protein; Found in the gene: LotjaGi4g1v0304100 | 15 | ||
| – | Pumilio, putative; TAIR: AT4G25880.1 pumilio 6; Swiss-Prot: sp|Q9C5E7|PUM6_ARATH Pumilio homolog 6, chloroplastic; TrEMBL-Plants: tr|K7LWU3|K7LWU3_SOYBN Uncharacterized protein; Found in the gene: LotjaGi4g1v0304100 | 15 | ||
| – | Pumilio, putative; TAIR: AT4G25880.1 pumilio 6; Swiss-Prot: sp|Q9C5E7|PUM6_ARATH Pumilio homolog 6, chloroplastic; TrEMBL-Plants: tr|K7LWU3|K7LWU3_SOYBN Uncharacterized protein; Found in the gene: LotjaGi4g1v0304100 | 15 | ||
| – | Pumilio-like protein; TAIR: AT3G16810.1 pumilio 24; Swiss-Prot: sp|Q9LRZ3|PUM24_ARATH Pumilio homolog 24; TrEMBL-Plants: tr|I1MRL9|I1MRL9_SOYBN Uncharacterized protein; Found in the gene: LotjaGi4g1v0337600 | 12 | ||
| – | Pumilio-like protein; TAIR: AT3G16810.1 pumilio 24; Swiss-Prot: sp|Q9LRZ3|PUM24_ARATH Pumilio homolog 24; TrEMBL-Plants: tr|I1MRL9|I1MRL9_SOYBN Uncharacterized protein; Found in the gene: LotjaGi4g1v0337600 | 12 | ||
| – | Pumilio-like protein; TAIR: AT3G16810.1 pumilio 24; Swiss-Prot: sp|Q9LRZ3|PUM24_ARATH Pumilio homolog 24; TrEMBL-Plants: tr|I1MRL9|I1MRL9_SOYBN Uncharacterized protein; Found in the gene: LotjaGi4g1v0337600 | 12 | ||
| – | Pumilio, putative; TAIR: AT3G10360.1 pumilio 4; Swiss-Prot: sp|Q9SS47|PUM4_ARATH Pumilio homolog 4; TrEMBL-Plants: tr|I1NHH7|I1NHH7_SOYBN Uncharacterized protein; Found in the gene: LotjaGi5g1v0271700 | 17 | ||
| – | Pumilio, putative; TAIR: AT3G10360.1 pumilio 4; Swiss-Prot: sp|Q9SS47|PUM4_ARATH Pumilio homolog 4; TrEMBL-Plants: tr|I1NHH7|I1NHH7_SOYBN Uncharacterized protein; Found in the gene: LotjaGi5g1v0271700 | 17 | ||
| – | Pumilio-like protein; TAIR: AT1G78160.1 pumilio 7; Swiss-Prot: sp|Q09829|YAD3_SCHPO Pumilio domain-containing protein C4G8.03c; TrEMBL-Plants: tr|V7BDT2|V7BDT2_PHAVU Uncharacterized protein; Found in the gene: LotjaGi6g1v0217800_LC | 10 | ||
| – | Pumilio; TAIR: AT2G29200.1 pumilio 1; Swiss-Prot: sp|Q9ZW07|PUM1_ARATH Pumilio homolog 1; TrEMBL-Plants: tr|A0A067F6T8|A0A067F6T8_CITSI Uncharacterized protein; Found in the gene: LotjaGi6g1v0217800_LC | 6 | ||
| – | Pumilio, putative; TAIR: AT3G20250.2 pumilio 5; Swiss-Prot: sp|Q9LJX4|PUM5_ARATH Pumilio homolog 5; TrEMBL-Plants: tr|I1L1B8|I1L1B8_SOYBN Uncharacterized protein; Found in the gene: LotjaGi6g1v0239800 | 15 | ||
| – | Pumilio, putative; TAIR: AT3G20250.2 pumilio 5; Swiss-Prot: sp|Q9LJX4|PUM5_ARATH Pumilio homolog 5; TrEMBL-Plants: tr|A0A0B2RRT4|A0A0B2RRT4_GLYSO Pumilio like 5; Found in the gene: LotjaGi6g1v0239800 | 15 | ||
| – | Pumilio; TAIR: AT1G78160.1 pumilio 7; Swiss-Prot: sp|Q9C9R6|PUM7_ARATH Putative pumilio homolog 7, chloroplastic; TrEMBL-Plants: tr|A0A0B2RFZ1|A0A0B2RFZ1_GLYSO Putative pumilio like 7, chloroplastic; Found in the gene: LotjaGi6g1v0353100 | 15 |
A list of co-occurring predicted domains within the L. japonicus gene space:
| Predicted domain | Source | Observations | Saturation (%) |
|---|---|---|---|
| mobidb-lite | MobiDBLite | 1 | 2.27 |