P25644
PR
Gene name |
PAT1 (MRT1, YCR077C, YCR77C) |
Protein name |
DNA topoisomerase 2-associated protein PAT1 |
Names |
Decapping activator and translational repressor PAT1, Topoisomerase II-associated protein PAT1, mRNA turnover protein 1 |
Species |
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) |
KEGG Pathway |
sce:YCR077C |
EC number |
|
Protein Class |
|
Descriptions
The autoinhibited protein was predicted that may have potential autoinhibitory elements via cis-regPred.
Autoinhibitory domains (AIDs)
Target domain |
|
Relief mechanism |
|
Assay |
cis-regPred |
Accessory elements
No accessory elements
Autoinhibited structure
Activated structure
9 structures for P25644
| Entry ID | Method | Resolution | Chain | Position | Source |
|---|---|---|---|---|---|
| 4BRW | X-ray | 280 A | B | 5-79 | PDB |
| 4C8Q | X-ray | 370 A | H | 456-783 | PDB |
| 4N0A | X-ray | 315 A | H/I/J | 422-796 | PDB |
| 4OGP | X-ray | 215 A | A/B | 473-796 | PDB |
| 4OJJ | X-ray | 232 A | A/B/C | 473-796 | PDB |
| 5LM5 | X-ray | 260 A | A/B | 435-796 | PDB |
| 5LMF | X-ray | 215 A | A/B | 435-796 | PDB |
| 5LMG | X-ray | 189 A | A/B | 435-796 | PDB |
| AF-P25644-F1 | Predicted | AlphaFoldDB |
13 variants for P25644
| Variant ID(s) | Position | Change | Description | Diseaes Association | Provenance |
|---|---|---|---|---|---|
| s03-252438 | 63 | S>N | No | SGRP | |
| s03-252342 | 95 | T>M | No | SGRP | |
| s03-252219 | 136 | A>V | No | SGRP | |
| s03-252147 | 160 | N>S | No | SGRP | |
| s03-252088 | 180 | P>S | No | SGRP | |
| s03-252076 | 184 | A>T | No | SGRP | |
| s03-251890 | 246 | S>G | No | SGRP | |
| s03-251320 | 436 | S>P | No | SGRP | |
| s03-251271 | 452 | Q>R | No | SGRP | |
| s03-251089 | 513 | I>V | No | SGRP | |
| s03-250914 | 571 | K>R | No | SGRP | |
| s03-250419 | 736 | N>S | No | SGRP | |
| s03-250378 | 750 | V>L | No | SGRP |
No associated diseases with P25644
2 regional properties for P25644
| Type | Name | Position | InterPro Accession |
|---|---|---|---|
| domain | mRNA decay factor PAT1 domain | 3 - 55 | IPR019167-1 |
| domain | mRNA decay factor PAT1 domain | 257 - 743 | IPR019167-2 |
Functions
7 GO annotations of cellular component
| Name | Definition |
|---|---|
| cytoplasm | The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures. |
| cytoplasmic stress granule | A dense aggregation in the cytosol composed of proteins and RNAs that appear when the cell is under stress. |
| cytosolic small ribosomal subunit | The small subunit of a ribosome located in the cytosol. |
| kinetochore | A multisubunit complex that is located at the centromeric region of DNA and provides an attachment point for the spindle microtubules. |
| Lsm1-7-Pat1 complex | A conserved, heteroheptameric, cytoplasmic protein complex composed of Lsm1, Lsm2, Lsm3, Lsm4, Lsm5, Lsm6, Lsm7, and Pat1, or orthologs thereof, that shows a strong binding preference for oligoadenylated RNAs over polyadenylated RNAs. May bind further associated proteins. Facilitates the deadenylation-dependent decapping of mRNA in the P-body thereby regulating mRNA decay and subsequent degradation by the 5' to 3' pathway. |
| nucleus | A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent. |
| P-body | A focus in the cytoplasm where mRNAs may become inactivated by decapping or some other mechanism. Protein and RNA localized to these foci are involved in mRNA degradation, nonsense-mediated mRNA decay (NMD), translational repression, and RNA-mediated gene silencing. |
3 GO annotations of molecular function
| Name | Definition |
|---|---|
| chromatin binding | Binding to chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase. |
| mRNA binding | Binding to messenger RNA (mRNA), an intermediate molecule between DNA and protein. mRNA includes UTR and coding sequences, but does not contain introns. |
| RNA binding | Binding to an RNA molecule or a portion thereof. |
8 GO annotations of biological process
| Name | Definition |
|---|---|
| cell cycle | The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division. |
| cell division | The process resulting in division and partitioning of components of a cell to form more cells; may or may not be accompanied by the physical separation of a cell into distinct, individually membrane-bounded daughter cells. |
| deadenylation-dependent decapping of nuclear-transcribed mRNA | Cleavage of the 5'-cap of a nuclear mRNA triggered by shortening of the poly(A) tail to below a minimum functional length. |
| formation of translation preinitiation complex | The joining of the small ribosomal subunit, ternary complex, and mRNA. |
| mRNA processing | Any process involved in the conversion of a primary mRNA transcript into one or more mature mRNA(s) prior to translation into polypeptide. |
| negative regulation of translational initiation | Any process that stops, prevents, or reduces the frequency, rate or extent of translational initiation. |
| P-body assembly | The aggregation, arrangement and bonding together of proteins and RNA molecules to form a cytoplasmic mRNA processing body. |
| regulation of translational initiation | Any process that modulates the frequency, rate or extent of translational initiation. |
1 homologous proteins in AiPD
| UniProt AC | Gene Name | Protein Name | Species | Evidence Code |
|---|---|---|---|---|
| Q20374 | patr-1 | Protein PAT1 homolog 1 | Caenorhabditis elegans | PR |
| 10 | 20 | 30 | 40 | 50 | 60 |
| MSFFGLENSG | NARDGPLDFE | ESYKGYGEHE | LEENDYLNDE | TFGDNVQVGT | DFDFGNPHSS |
| 70 | 80 | 90 | 100 | 110 | 120 |
| GSSGNAIGGN | GVGATARSYV | AATAEGISGP | RTDGTAAAGP | LDLKPMESLW | STAPPPAMAP |
| 130 | 140 | 150 | 160 | 170 | 180 |
| SPQSTMAPAP | APQQMAPLQP | ILSMQDLERQ | QRQMQQQFMN | FHAMGHPQGL | PQGPPQQQFP |
| 190 | 200 | 210 | 220 | 230 | 240 |
| MQPASGQPGP | SQFAPPPPPP | GVNVNMNQMP | MGPVQVPVQA | SPSPIGMSNT | PSPGPVVGAT |
| 250 | 260 | 270 | 280 | 290 | 300 |
| KMPLQSGRRS | KRDLSPEEQR | RLQIRHAKVE | KILKYSGLMT | PRDKDFITRY | QLSQIVTEDP |
| 310 | 320 | 330 | 340 | 350 | 360 |
| YNEDFYFQVY | KIIQRGGITS | ESNKGLIARA | YLEHSGHRLG | GRYKRTDIAL | QRMQSQVEKA |
| 370 | 380 | 390 | 400 | 410 | 420 |
| VTVAKERPSK | LKDQQAAAGN | SSQDNKQANT | VLGKISSTLN | SKNPRRQLQI | PRQQPSDPDA |
| 430 | 440 | 450 | 460 | 470 | 480 |
| LKDVTDSLTN | VDLASSGSSS | TGSSAAAVAS | KQRRRSSYAF | NNGNGATNLN | KSGGKKFILE |
| 490 | 500 | 510 | 520 | 530 | 540 |
| LIETVYEEIL | DLEANLRNGQ | QTDSTAMWEA | LHIDDSSYDV | NPFISMLSFD | KGIKIMPRIF |
| 550 | 560 | 570 | 580 | 590 | 600 |
| NFLDKQQKLK | ILQKIFNELS | HLQIIILSSY | KTTPKPTLTQ | LKKVDLFQMI | ILKIIVSFLS |
| 610 | 620 | 630 | 640 | 650 | 660 |
| NNSNFIEIMG | LLLQLIRNNN | VSFLTTSKIG | LNLITILISR | AALIKQDSSR | SNILSSPEIS |
| 670 | 680 | 690 | 700 | 710 | 720 |
| TWNEIYDKLF | TSLESKIQLI | FPPREYNDHI | MRLQNDKFMD | EAYIWQFLAS | LALSGKLNHQ |
| 730 | 740 | 750 | 760 | 770 | 780 |
| RIIIDEVRDE | IFATINEAET | LQKKEKELSV | LPQRSQELDT | ELKSIIYNKE | KLYQDLNLFL |
| 790 | |||||
| NVMGLVYRDG | EISELK |