UniProtKB - P59326 (YTHD1_MOUSE)
Protein
YTH domain-containing family protein 1
Gene
Ythdf1
Organism
Mus musculus (Mouse)
Status
Functioni
Specifically recognizes and binds N6-methyladenosine (m6A)-containing mRNAs, and promotes mRNA translation efficiency (PubMed:30401835). M6A is a modification present at internal sites of mRNAs and some non-coding RNAs and plays a role in the efficiency of mRNA splicing, processing and stability (PubMed:30401835). Acts as a regulator of mRNA translation efficiency: promotes ribosome loading to m6A-containing mRNAs and interacts with translation initiation factors eIF3 (EIF3A or EIF3B) to facilitate translation initiation (By similarity). Required to facilitate learning and memory formation in the hippocampus by enhancing protein synthesis upon neuronal stimulation: in response to neuronal stimulation, binds to m6A-containing neuronal mRNAs, promoting their translation, thereby contributing to learning and memory (PubMed:30401835). Acts as a regulator of axon guidance by binding to m6A-containing ROBO3 transcripts, thereby promoting their translation (PubMed:30843071). Acts as a negative regulator of antigen cross-presentation in myeloid dendritic cells (PubMed:30728504). Acts by binding and promoting translation of m6A-containing transcripts encoding proteins involved in lysosomal degradation and phagosome maturation, leading to increased antigen degradation in myeloid dendritic cells (PubMed:30728504). In the context of tumorigenesis, negative regulation of antigen cross-presentation limits the anti-tumor response by reducing efficiency of tumor-antigen cross-presentation (PubMed:30728504).By similarity3 Publications
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Binding sitei | 401 | N6-methyladenosineBy similarity | 1 | |
Binding sitei | 441 | N6-methyladenosineBy similarity | 1 | |
Binding sitei | 465 | N6-methyladenosineBy similarity | 1 | |
Binding sitei | 470 | N6-methyladenosineBy similarity | 1 |
GO - Molecular functioni
- mRNA binding Source: GO_Central
- N6-methyladenosine-containing RNA binding Source: UniProtKB
- ribosome binding Source: UniProtKB
GO - Biological processi
- immune system process Source: UniProtKB-KW
- learning Source: UniProtKB
- memory Source: UniProtKB
- mRNA destabilization Source: GO_Central
- positive regulation of translation Source: UniProtKB
- positive regulation of translational initiation Source: UniProtKB
- regulation of antigen processing and presentation Source: UniProtKB
- regulation of axon guidance Source: UniProtKB
- regulation of long-term synaptic potentiation Source: UniProtKB
Keywordsi
Molecular function | RNA-binding |
Biological process | Immunity |
Names & Taxonomyi
Protein namesi | Recommended name: YTH domain-containing family protein 1CuratedAlternative name(s): Dermatomyositis associated with cancer putative autoantigen 1 homologBy similarity Short name: DACA-1 homologBy similarity |
Gene namesi | Name:Ythdf1Imported |
Organismi | Mus musculus (Mouse) |
Taxonomic identifieri | 10090 [NCBI] |
Taxonomic lineagei | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Glires › Rodentia › Myomorpha › Muroidea › Muridae › Murinae › Mus › Mus |
Proteomesi |
|
Organism-specific databases
MGIi | MGI:1917431, Ythdf1 |
Subcellular locationi
Keywords - Cellular componenti
CytoplasmPathology & Biotechi
Disruption phenotypei
Learning and memory defects (PubMed:30401835). Mice develop normally up to four months of age and have normal gross hippocampal histology (PubMed:30401835). They however show learning and memory defects as well as impaired hippocampal synaptic transmission and long-term potentiation (PubMed:30401835). Hippocampal CA1 neurons show reduced dendritic spine density but unaltered spine size (PubMed:30401835). Conditional deletion in spinal commissural neurons results in pre-crossing axon guidance defects (PubMed:30843071). Knockout mice show an improved tumor control associated with increased infiltration of the tumor by T-cells, due to elevated antigen-specific CD8+ T-cell anti-tumor response (PubMed:30728504). Conditional deletion in myeloid dendritic cells causes increased cross-presentation of tumor antigens and the cross-priming of CD8+ T-cells (PubMed:30728504).3 Publications
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Initiator methioninei | RemovedBy similarity | |||
ChainiPRO_0000223074 | 2 – 559 | YTH domain-containing family protein 1Add BLAST | 558 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Modified residuei | 2 | N-acetylserineBy similarity | 1 | |
Modified residuei | 182 | PhosphoserineBy similarity | 1 |
Keywords - PTMi
Acetylation, PhosphoproteinProteomic databases
EPDi | P59326 |
MaxQBi | P59326 |
PaxDbi | P59326 |
PRIDEi | P59326 |
PTM databases
iPTMneti | P59326 |
PhosphoSitePlusi | P59326 |
Expressioni
Tissue specificityi
In brain, preferentially expressed in the hippocampus.1 Publication
Gene expression databases
Bgeei | ENSMUSG00000038848, Expressed in urinary bladder and 305 other tissues |
ExpressionAtlasi | P59326, baseline and differential |
Genevisiblei | P59326, MM |
Interactioni
Subunit structurei
Interacts with ribosomes.
Interacts with eIF3 (EIF3A or EIF3B).
Interacts with YTHDF3.
By similarityProtein-protein interaction databases
BioGRIDi | 230804, 6 interactors |
STRINGi | 10090.ENSMUSP00000037808 |
Miscellaneous databases
RNActi | P59326, protein |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 389 – 523 | YTHPROSITE-ProRule annotationAdd BLAST | 135 |
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 395 – 397 | N6-methyladenosine bindingBy similarity | 3 | |
Regioni | 411 – 412 | N6-methyladenosine bindingBy similarity | 2 |
Compositional bias
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Compositional biasi | 241 – 334 | Gln/Pro-richAdd BLAST | 94 |
Phylogenomic databases
eggNOGi | KOG1901, Eukaryota |
GeneTreei | ENSGT00940000156911 |
HOGENOMi | CLU_022715_0_0_1 |
InParanoidi | P59326 |
OMAi | QNRWIAP |
OrthoDBi | 1523251at2759 |
PhylomeDBi | P59326 |
TreeFami | TF323736 |
Family and domain databases
InterProi | View protein in InterPro IPR007275, YTH_domain |
Pfami | View protein in Pfam PF04146, YTH, 1 hit |
PROSITEi | View protein in PROSITE PS50882, YTH, 1 hit |
(1+)i Sequence
Sequence statusi: Complete.
: The displayed sequence is further processed into a mature form. Sequence processingi
This entry has 1 described isoform and 2 potential isoforms that are computationally mapped.Show allAlign All
P59326-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MSATSVDPQR TKGQDNKVQN GSLHQKDAVH DNDFEPYLSG QSNPSNSYPS
60 70 80 90 100
MSDPYLSSYY PPSIGFPYSL SEAPWSTAGD PPIPYLTTYG QLSNGDHHFM
110 120 130 140 150
HDAVFGQPGG LGNNIYQHRF NFFPENPAFS AWGTSGSQGQ QTQSSAYGSS
160 170 180 190 200
YTYPPSSLGG TVVDGQTGFH SDSLNKAPGM NSLEQGMVGL KIGDVTTSAV
210 220 230 240 250
KTVGSVVNSV ALTGVLSGNG GTNVNMPVSK PTSWAAIASK PAKPQPKMKT
260 270 280 290 300
KSGPIVGGAL PPPPIKHNMD IGTWDNKGPA PKASAPQQTP SPQAAPQPQQ
310 320 330 340 350
VAQPLPVQPP PLVQPQYQSP QQPLQPRWVA PRNRNAAFGQ SGGANSDSNS
360 370 380 390 400
VGNAQPTSAP SVESHPVLEK LKAAHSYNPK EFDWNLKSGR VFIIKSYSED
410 420 430 440 450
DIHRSIKYSI WCSTEHGNKR LDGAFRSMSS KGPVYLLFSV NGSGHFCGVA
460 470 480 490 500
EMKSPVDYGT SAGVWSQDKW KGKFDVKWIF VKDVPNNQLR HIRLENNDNK
510 520 530 540 550
PVTNSRDTQE VPLEKAKQVL KIIASYKHTT SIFDDFSHYE KRQEEEEVVR
KERQNRNKQ
Computationally mapped potential isoform sequencesi
There are 2 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basketA2AWN7 | A2AWN7_MOUSE | YTH domain-containing family protei... | Ythdf1 | 183 | Annotation score: | ||
A2AWN8 | A2AWN8_MOUSE | YTH domain-containing family protei... | Ythdf1 | 586 | Annotation score: |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AK046768 mRNA Translation: BAC32861.1 AK172582 mRNA Translation: BAE43080.1 BC061479 mRNA Translation: AAH61479.1 BC065050 mRNA Translation: AAH65050.1 |
CCDSi | CCDS17188.1 |
RefSeqi | NP_776122.1, NM_173761.3 |
Genome annotation databases
Ensembli | ENSMUST00000037299; ENSMUSP00000037808; ENSMUSG00000038848 |
GeneIDi | 228994 |
KEGGi | mmu:228994 |
UCSCi | uc008okd.1, mouse |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AK046768 mRNA Translation: BAC32861.1 AK172582 mRNA Translation: BAE43080.1 BC061479 mRNA Translation: AAH61479.1 BC065050 mRNA Translation: AAH65050.1 |
CCDSi | CCDS17188.1 |
RefSeqi | NP_776122.1, NM_173761.3 |
3D structure databases
SMRi | P59326 |
ModBasei | Search... |
Protein-protein interaction databases
BioGRIDi | 230804, 6 interactors |
STRINGi | 10090.ENSMUSP00000037808 |
PTM databases
iPTMneti | P59326 |
PhosphoSitePlusi | P59326 |
Proteomic databases
EPDi | P59326 |
MaxQBi | P59326 |
PaxDbi | P59326 |
PRIDEi | P59326 |
Protocols and materials databases
Antibodypediai | 44459, 126 antibodies |
Genome annotation databases
Ensembli | ENSMUST00000037299; ENSMUSP00000037808; ENSMUSG00000038848 |
GeneIDi | 228994 |
KEGGi | mmu:228994 |
UCSCi | uc008okd.1, mouse |
Organism-specific databases
CTDi | 54915 |
MGIi | MGI:1917431, Ythdf1 |
Phylogenomic databases
eggNOGi | KOG1901, Eukaryota |
GeneTreei | ENSGT00940000156911 |
HOGENOMi | CLU_022715_0_0_1 |
InParanoidi | P59326 |
OMAi | QNRWIAP |
OrthoDBi | 1523251at2759 |
PhylomeDBi | P59326 |
TreeFami | TF323736 |
Miscellaneous databases
BioGRID-ORCSi | 228994, 2 hits in 17 CRISPR screens |
PROi | PR:P59326 |
RNActi | P59326, protein |
SOURCEi | Search... |
Gene expression databases
Bgeei | ENSMUSG00000038848, Expressed in urinary bladder and 305 other tissues |
ExpressionAtlasi | P59326, baseline and differential |
Genevisiblei | P59326, MM |
Family and domain databases
InterProi | View protein in InterPro IPR007275, YTH_domain |
Pfami | View protein in Pfam PF04146, YTH, 1 hit |
PROSITEi | View protein in PROSITE PS50882, YTH, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | YTHD1_MOUSE | |
Accessioni | P59326Primary (citable) accession number: P59326 Secondary accession number(s): Q3T9E2 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | February 12, 2003 |
Last sequence update: | February 12, 2003 | |
Last modified: | December 2, 2020 | |
This is version 115 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Chordata Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
Reference proteomeDocuments
- MGD cross-references
Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot