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IPR031646 is a Vacuolar protein sorting-associated protein 13, extended chorein.
<p>This entry covers RBG modules that lie towards the N terminus, just downstream from [interpro:IPR026854] and has been described as extended chorein in [[cite:PUB00101953]]. These modules are involved in lipid binding and transport [[cite:PUB00061937], [cite:PUB00075977], [cite:PUB00100769]] which specifically interacts with phosphatidic acid and phosphorylated forms of phosphatidyl inositol [[cite:PUB00100859]].</p> <p>VPS13 proteins have been implicated in processes including vesicle fusion, autophagy, and actin regulation. They bind phospholipids and act as channels that mediate the transfer of lipids between membranes at organelle contact sites [[cite:PUB00100726], [cite:PUB00100766], [cite:PUB00100863]]. It has been proposed that members of this entry have the capacity to bind and likely transfer tens of glycerolipids at once. Yeast VPS13 acts at multiple cellular sites, namely the interface between mitochondria and the vacuole, on endosomes, on the nuclear-vacuole junction and the vacuole, depending on the carbon source and metabolic state. Most evidence showed that mammalian VPS13A, VPS13C and VPS13D localize at contacts between the ER and other organelles, i.e. VPS13A and VPS13D bridge the ER to mitochondria, VPS13C bridges the ER to late endosomes and lysosomes and VPS13B may localize to endosome-endosome contacts [[cite:PUB00100863], [cite:PUB00100766], [cite:PUB00100768]]. Mutations in human VPS13 proteins (VPS13A-D) cause different diseases such as Chorea-acanthocytosis, Cohen syndrome, Parkinson's disease, and spastic ataxia, respectively which suggests they have different functions [[cite:PUB00100501], [cite:PUB00100769]]. Members of this entry belong to the repeating β-groove (RBG) superfamily. These proteins share a structure made of multiple repeating modules consisting of five β-sheets followed by a loop [[cite:PUB00101861]].</p>
This description is obtained from EB-eye REST.
| Transcript | Name | Description | Predicted domains | Domain count |
|---|---|---|---|---|
| – | Calcium-dependent lipid-binding family protein isoform 1 [Theobroma cacao] gi|508714943|gb|EOY06840.1| | 10 | ||
| – | Calcium-dependent lipid-binding family protein isoform 1 [Theobroma cacao] gi|508714943|gb|EOY06840.1| | 5 | ||
| – | Os08g0116700 [Oryza sativa Japonica Group] gi|115474517|ref|NP_001060855.1| | 6 | ||
| – | Vacuolar protein sorting-associated protein 13A [Medicago truncatula] gi|357482269|ref|XP_003611420.1| | 7 | ||
| – | Pleckstrin (PH) domain-containing protein isoform 2 [Theobroma cacao] gi|508776870|gb|EOY24126.1| | 24 | ||
| – | Vacuolar protein sorting-associated protein, putative; TAIR: AT5G24740.2 vacuolar protein sorting-associated protein, putative (DUF1162); Swiss-Prot: sp|Q54LB8|VP13A_DICDI Putative vacuolar protein sorting-associated protein 13A; TrEMBL-Plants: tr|G7IJW3|G7IJW3_MEDTR Vacuolar protein sorting-associated protein, putative; Found in the gene: LotjaGi1g1v0116300 | 15 | ||
| – | Pleckstrin (PH) domain-containing protein isoform 2; TAIR: AT4G17140.3 pleckstrin homology (PH) domain-containing protein; Swiss-Prot: sp|Q8BX70|VP13C_MOUSE Vacuolar protein sorting-associated protein 13C; TrEMBL-Plants: tr|G7JYP4|G7JYP4_MEDTR Vacuolar protein sorting protein; Found in the gene: LotjaGi2g1v0417400 | 24 | ||
| – | Vacuolar protein sorting-associated protein, putative; TAIR: AT5G24740.2 vacuolar protein sorting-associated protein, putative (DUF1162); Swiss-Prot: sp|Q54LB8|VP13A_DICDI Putative vacuolar protein sorting-associated protein 13A; TrEMBL-Plants: tr|G7IJW3|G7IJW3_MEDTR Vacuolar protein sorting-associated protein, putative; Found in the gene: LotjaGi4g1v0279000 | 15 | ||
| – | Calcium-dependent lipid-binding family protein isoform protein; TAIR: AT1G48090.4 calcium-dependent lipid-binding family protein; Swiss-Prot: sp|Q54LB8|VP13A_DICDI Putative vacuolar protein sorting-associated protein 13A; TrEMBL-Plants: tr|A0A072V2R4|A0A072V2R4_MEDTR Calcium-dependent lipid-binding-like protein; Found in the gene: LotjaGi4g1v0334900 | 28 | ||
| – | Calcium-dependent lipid-binding family protein isoform protein; TAIR: AT1G48090.4 calcium-dependent lipid-binding family protein; Swiss-Prot: sp|Q709C8|VP13C_HUMAN Vacuolar protein sorting-associated protein 13C; TrEMBL-Plants: tr|A0A072V2R4|A0A072V2R4_MEDTR Calcium-dependent lipid-binding-like protein; Found in the gene: LotjaGi4g1v0334900 | 26 | ||
| – | Calcium-dependent lipid-binding family protein isoform protein; TAIR: AT1G48090.4 calcium-dependent lipid-binding family protein; Swiss-Prot: sp|Q709C8|VP13C_HUMAN Vacuolar protein sorting-associated protein 13C; TrEMBL-Plants: tr|A0A072V2R4|A0A072V2R4_MEDTR Calcium-dependent lipid-binding-like protein; Found in the gene: LotjaGi4g1v0334900 | 26 | ||
| – | Calcium-dependent lipid-binding family protein isoform protein; TAIR: AT1G48090.4 calcium-dependent lipid-binding family protein; Swiss-Prot: sp|Q54LB8|VP13A_DICDI Putative vacuolar protein sorting-associated protein 13A; TrEMBL-Plants: tr|A0A072V2R4|A0A072V2R4_MEDTR Calcium-dependent lipid-binding-like protein; Found in the gene: LotjaGi4g1v0334900 | 28 |
A list of co-occurring predicted domains within the L. japonicus gene space:
| Predicted domain | Source | Observations | Saturation (%) |
|---|---|---|---|
| mobidb-lite | MobiDBLite | 1 | 8.33 |