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Protein

DNA topoisomerase 2-associated protein PAT1

Gene

PAT1

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Activator of decapping that functions as a general and active mechanism of translational repression and required for P-body formation. First decay factor recruited to mRNA, at a time when the mRNA is still associated with translation factors. Subsequently, PAT1 recruits the hepta-heterodimer LSM1-LSM7 complex to P-bodies. In association with the LSM1-LSM7 complex, stabilizes the 3' terminus of mRNAs. This association is also required for mosaic virus genomic RNA translation. Modulates the rates of mRNA-decapping that occur following deadenylation. Might be required for promoting the formation or the stabilization of the preinitiation translation complexes. Required for 40S ribosomal subunit joining to capped and/or polyadenylated mRNA. With other P-body components, enhances the formation of retrotransposition-competent Ty1 virus-like particles. Necessary for accurate chromosome transmission during cell division.19 Publications

Miscellaneous

Present with 656 molecules/cell in log phase SD medium.1 Publication

GO - Molecular functioni

  • chromatin binding Source: SGD
  • mRNA binding Source: SGD
  • RNA binding Source: SGD

GO - Biological processi

  • cell cycle Source: UniProtKB-KW
  • cell division Source: UniProtKB-KW
  • cytoplasmic mRNA processing body assembly Source: SGD
  • deadenylation-dependent decapping of nuclear-transcribed mRNA Source: SGD
  • formation of translation preinitiation complex Source: SGD
  • mRNA processing Source: UniProtKB-KW
  • negative regulation of translational initiation Source: SGD
  • regulation of translational initiation Source: SGD

Keywordsi

Molecular functionRepressor, RNA-binding
Biological processCell cycle, Cell division, mRNA processing, Translation regulation

Enzyme and pathway databases

BioCyciYEAST:G3O-29376-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA topoisomerase 2-associated protein PAT1
Alternative name(s):
Decapping activator and translational repressor PAT1
Topoisomerase II-associated protein PAT1
mRNA turnover protein 1
Gene namesi
Name:PAT1
Synonyms:MRT1
Ordered Locus Names:YCR077C
ORF Names:YCR77C
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome III

Organism-specific databases

EuPathDBiFungiDB:YCR077C.
SGDiS000000673. PAT1.

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedCombined sources
ChainiPRO_00000582352 – 796DNA topoisomerase 2-associated protein PAT1Add BLAST795

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylserineCombined sources1
Modified residuei456PhosphoserineCombined sources1
Modified residuei457PhosphoserineCombined sources1

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

MaxQBiP25644.
PRIDEiP25644.

PTM databases

iPTMnetiP25644.

Interactioni

Subunit structurei

Associates with the 40S ribosomal subunit. Associates with the heptameric LSM1-LSM7 complex. Interacts directly with LSM2 and LSM3 within the LSM1-LSM7 complex. Interacts with DHH1, LSM1, LSM5, RPB4, RPB7 and with topoisomerase TOP2. Interacts with CDC33, PAB1, TIF4631 and TIF4632 in an RNA-dependent manner. Binds mRNAs.9 Publications

Binary interactionsi

Show more details

Protein-protein interaction databases

BioGridi31052. 1142 interactors.
DIPiDIP-883N.
IntActiP25644. 56 interactors.
MINTiMINT-414364.
STRINGi4932.YCR077C.

Structurei

Secondary structure

1796
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi33 – 35Combined sources3
Helixi38 – 41Combined sources4
Helixi475 – 497Combined sources23
Helixi505 – 510Combined sources6
Turni511 – 514Combined sources4
Beta strandi517 – 520Combined sources4
Helixi522 – 526Combined sources5
Helixi530 – 534Combined sources5
Helixi536 – 541Combined sources6
Helixi545 – 558Combined sources14
Helixi559 – 561Combined sources3
Helixi563 – 568Combined sources6
Turni570 – 572Combined sources3
Helixi578 – 599Combined sources22
Beta strandi600 – 602Combined sources3
Helixi605 – 617Combined sources13
Helixi621 – 625Combined sources5
Helixi628 – 642Combined sources15
Turni650 – 652Combined sources3
Helixi656 – 673Combined sources18
Helixi677 – 680Combined sources4
Helixi684 – 693Combined sources10
Helixi702 – 713Combined sources12
Helixi717 – 726Combined sources10
Helixi728 – 749Combined sources22
Beta strandi751 – 753Combined sources3
Helixi756 – 782Combined sources27
Beta strandi785 – 788Combined sources4
Beta strandi791 – 794Combined sources4

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4BRWX-ray2.80B5-79[»]
4C8QX-ray3.70H456-783[»]
4N0AX-ray3.15H/I/J422-796[»]
4OGPX-ray2.15A/B473-796[»]
4OJJX-ray2.32A/B/C473-796[»]
ProteinModelPortaliP25644.
SMRiP25644.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi114 – 235Pro-richAdd BLAST122
Compositional biasi133 – 192Gln-richAdd BLAST60

Domaini

The region at residues 254 to 422 is required for stimulation of decapping. The region at residues 422 to 763 is required for PAT1 and LSM1 to accumulate in P-bodies and responsible for translation repression and P-body assembly.1 Publication

Sequence similaritiesi

Belongs to the PAT1 family.Curated

Phylogenomic databases

HOGENOMiHOG000246501.
InParanoidiP25644.
KOiK12617.
OMAiPHPFIAF.
OrthoDBiEOG092C0SJ9.

Family and domain databases

InterProiView protein in InterPro
IPR019167. Topo_II-assoc_PAT1.
PfamiView protein in Pfam
PF09770. PAT1. 2 hits.

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P25644-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSFFGLENSG NARDGPLDFE ESYKGYGEHE LEENDYLNDE TFGDNVQVGT
60 70 80 90 100
DFDFGNPHSS GSSGNAIGGN GVGATARSYV AATAEGISGP RTDGTAAAGP
110 120 130 140 150
LDLKPMESLW STAPPPAMAP SPQSTMAPAP APQQMAPLQP ILSMQDLERQ
160 170 180 190 200
QRQMQQQFMN FHAMGHPQGL PQGPPQQQFP MQPASGQPGP SQFAPPPPPP
210 220 230 240 250
GVNVNMNQMP MGPVQVPVQA SPSPIGMSNT PSPGPVVGAT KMPLQSGRRS
260 270 280 290 300
KRDLSPEEQR RLQIRHAKVE KILKYSGLMT PRDKDFITRY QLSQIVTEDP
310 320 330 340 350
YNEDFYFQVY KIIQRGGITS ESNKGLIARA YLEHSGHRLG GRYKRTDIAL
360 370 380 390 400
QRMQSQVEKA VTVAKERPSK LKDQQAAAGN SSQDNKQANT VLGKISSTLN
410 420 430 440 450
SKNPRRQLQI PRQQPSDPDA LKDVTDSLTN VDLASSGSSS TGSSAAAVAS
460 470 480 490 500
KQRRRSSYAF NNGNGATNLN KSGGKKFILE LIETVYEEIL DLEANLRNGQ
510 520 530 540 550
QTDSTAMWEA LHIDDSSYDV NPFISMLSFD KGIKIMPRIF NFLDKQQKLK
560 570 580 590 600
ILQKIFNELS HLQIIILSSY KTTPKPTLTQ LKKVDLFQMI ILKIIVSFLS
610 620 630 640 650
NNSNFIEIMG LLLQLIRNNN VSFLTTSKIG LNLITILISR AALIKQDSSR
660 670 680 690 700
SNILSSPEIS TWNEIYDKLF TSLESKIQLI FPPREYNDHI MRLQNDKFMD
710 720 730 740 750
EAYIWQFLAS LALSGKLNHQ RIIIDEVRDE IFATINEAET LQKKEKELSV
760 770 780 790
LPQRSQELDT ELKSIIYNKE KLYQDLNLFL NVMGLVYRDG EISELK
Length:796
Mass (Da):88,511
Last modified:July 27, 2011 - v4
Checksum:i2DBE1210C173E468
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti688D → V in CAC42990 (PubMed:1574125).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X59720 Genomic DNA. Translation: CAC42990.1.
BK006937 Genomic DNA. Translation: DAA07549.2.
PIRiS53590.
RefSeqiNP_010002.3. NM_001178786.2.

Genome annotation databases

EnsemblFungiiCAC42990; CAC42990; CAC42990.
YCR077C; YCR077C; YCR077C.
GeneIDi850440.
KEGGisce:YCR077C.

Similar proteinsi

Entry informationi

Entry nameiPAT1_YEAST
AccessioniPrimary (citable) accession number: P25644
Secondary accession number(s): D6VR80, Q8NKJ3
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 1, 1992
Last sequence update: July 27, 2011
Last modified: September 27, 2017
This is version 149 of the entry and version 4 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
  3. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  4. Yeast chromosome III
    Yeast (Saccharomyces cerevisiae) chromosome III: entries and gene names