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Protein

YTH domain-containing family protein 2

Gene

Ythdf2

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Specifically recognizes and binds N6-methyladenosine (m6A)-containing RNAs, and regulates mRNA stability. 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. Acts as a regulator of mRNA stability: binding to m6A-containing mRNAs results in the localization to mRNA decay sites, such as processing bodies (P-bodies), leading to mRNA degradation. Also acts as a promoter of cap-independent mRNA translation following heat shock stress: upon stress, relocalizes to the nucleus and specifically binds mRNAs with some m6A methylation mark at their 5'-UTR, protecting demethylation of mRNAs by FTO, thereby promoting cap-independent mRNA translation.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei422 – 4221N6-methyladenosineBy similarity
Binding sitei462 – 4621N6-methyladenosineBy similarity
Binding sitei486 – 4861N6-methyladenosineBy similarity
Binding sitei491 – 4911N6-methyladenosineBy similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Ligandi

RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
YTH domain-containing family protein 2Curated
Gene namesi
Name:Ythdf2Imported
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 4

Organism-specific databases

MGIiMGI:2444233. Ythdf2.

Subcellular locationi

  • Cytoplasmcytosol By similarity
  • Nucleus By similarity
  • CytoplasmP-body By similarity

  • Note: Localizes to the cytosol and relocates to the nucleus following heat shock stress.By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methionineiRemovedBy similarity
Chaini2 – 579578YTH domain-containing family protein 2PRO_0000425544Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei2 – 21N-acetylserineBy similarity
Modified residuei22 – 221PhosphoserineBy similarity
Modified residuei39 – 391PhosphoserineBy similarity
Modified residuei359 – 3591PhosphoserineBy similarity
Modified residuei394 – 3941PhosphoserineBy similarity

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

EPDiQ91YT7.
MaxQBiQ91YT7.
PaxDbiQ91YT7.
PRIDEiQ91YT7.

PTM databases

iPTMnetiQ91YT7.

Expressioni

Gene expression databases

ExpressionAtlasiQ91YT7. baseline and differential.
GenevisibleiQ91YT7. MM.

Interactioni

Protein-protein interaction databases

BioGridi229450. 1 interaction.
IntActiQ91YT7. 2 interactions.
STRINGi10090.ENSMUSP00000120414.

Structurei

3D structure databases

ProteinModelPortaliQ91YT7.
SMRiQ91YT7. Positions 386-573.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini410 – 544135YTHPROSITE-ProRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni2 – 384383Localization to mRNA processing bodies (P-bodies)By similarityAdd
BLAST
Regioni385 – 579195Interaction with m6A-containing mRNAsBy similarityAdd
BLAST
Regioni416 – 4183N6-methyladenosine bindingBy similarity
Regioni432 – 4332N6-methyladenosine bindingBy similarity

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi290 – 34758Gln-richAdd
BLAST

Sequence similaritiesi

Contains 1 YTH domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG1901. Eukaryota.
ENOG410YABQ. LUCA.
GeneTreeiENSGT00390000017549.
HOVERGENiHBG060315.
InParanoidiQ91YT7.
OMAiTGGDPPM.
OrthoDBiEOG71VSSM.
PhylomeDBiQ91YT7.
TreeFamiTF323736.

Family and domain databases

InterProiIPR007275. YTH_domain.
[Graphical view]
PfamiPF04146. YTH. 1 hit.
[Graphical view]
PROSITEiPS50882. YTH. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

Q91YT7-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSASSLLEQR PKGQGNKVQN GSVHQKDGLN DDDFEPYLSP QARPNNAYTA
60 70 80 90 100
MSDSYLPSYY SPSIGFSYSL GEAAWSTGGD TAMPYLTSYG QLSNGEPHFL
110 120 130 140 150
PDAMFGQPGA LGSTPFLGQH GFNFFPSGID FSAWGNNSSQ GQSTQSSGYS
160 170 180 190 200
SNYAYAPSSL GGAMIDGQSA FANETLNKAP GMNTIDQGMA ALKLGSTEVA
210 220 230 240 250
SSVPKVVGSA VGSGSITSNI VASSSLPPAT IAPPKPASWA DIASKPAKQQ
260 270 280 290 300
PKLKTKNGIA GSSLPPPPIK HNMDIGTWDN KGPVAKAPSQ ALVQNIGQPT
310 320 330 340 350
QGSPQPVGQQ ANNSPPVAQA SVGQQTQPLP PPPPQPAQLS VQQQAAQPTR
360 370 380 390 400
WVAPRNRGSG FGHNGVDGNG VGQSQAGSGS TPSEPHPVLE KLRSINNYNP
410 420 430 440 450
KDFDWNLKHG RVFIIKSYSE DDIHRSIKYN IWCSTEHGNK RLDAAYRSMN
460 470 480 490 500
GKGPVYLLFS VNGSGHFCGV AEMKSAVDYN TCAGVWSQDK WKGRFDVRWI
510 520 530 540 550
FVKDVPNSQL RHIRLENNEN KPVTNSRDTQ EVPLEKAKQV LKIIASYKHT
560 570
TSIFDDFSHY EKRQEEEESV KKERQGRGK
Length:579
Mass (Da):62,280
Last modified:December 1, 2001 - v1
Checksum:i9D79DF630593C7AB
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti82 – 821A → P in AAH28994 (PubMed:15489334).Curated
Sequence conflicti165 – 1651I → V in BAE35173 (PubMed:16141072).Curated
Sequence conflicti210 – 2101A → V in BAE35173 (PubMed:16141072).Curated
Sequence conflicti309 – 3091Q → R in BAC28785 (PubMed:16141072).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK031616 mRNA. Translation: BAC27480.1.
AK034655 mRNA. Translation: BAC28785.1.
AK083882 mRNA. Translation: BAC39048.1.
AK150350 mRNA. Translation: BAE29487.1.
AK150669 mRNA. Translation: BAE29751.1.
AK151392 mRNA. Translation: BAE30361.1.
AK151862 mRNA. Translation: BAE30751.1.
AK159548 mRNA. Translation: BAE35173.1.
BX537301 Genomic DNA. No translation available.
CH466552 Genomic DNA. Translation: EDL30120.1.
BC014797 mRNA. Translation: AAH14797.1.
BC028994 mRNA. Translation: AAH28994.1.
CCDSiCCDS18719.1.
RefSeqiNP_663368.3. NM_145393.4.
UniGeneiMm.23998.
Mm.460463.

Genome annotation databases

EnsembliENSMUST00000152796; ENSMUSP00000120414; ENSMUSG00000040025.
GeneIDi213541.
KEGGimmu:213541.
UCSCiuc008vas.2. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK031616 mRNA. Translation: BAC27480.1.
AK034655 mRNA. Translation: BAC28785.1.
AK083882 mRNA. Translation: BAC39048.1.
AK150350 mRNA. Translation: BAE29487.1.
AK150669 mRNA. Translation: BAE29751.1.
AK151392 mRNA. Translation: BAE30361.1.
AK151862 mRNA. Translation: BAE30751.1.
AK159548 mRNA. Translation: BAE35173.1.
BX537301 Genomic DNA. No translation available.
CH466552 Genomic DNA. Translation: EDL30120.1.
BC014797 mRNA. Translation: AAH14797.1.
BC028994 mRNA. Translation: AAH28994.1.
CCDSiCCDS18719.1.
RefSeqiNP_663368.3. NM_145393.4.
UniGeneiMm.23998.
Mm.460463.

3D structure databases

ProteinModelPortaliQ91YT7.
SMRiQ91YT7. Positions 386-573.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi229450. 1 interaction.
IntActiQ91YT7. 2 interactions.
STRINGi10090.ENSMUSP00000120414.

PTM databases

iPTMnetiQ91YT7.

Proteomic databases

EPDiQ91YT7.
MaxQBiQ91YT7.
PaxDbiQ91YT7.
PRIDEiQ91YT7.

Protocols and materials databases

DNASUi213541.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000152796; ENSMUSP00000120414; ENSMUSG00000040025.
GeneIDi213541.
KEGGimmu:213541.
UCSCiuc008vas.2. mouse.

Organism-specific databases

CTDi51441.
MGIiMGI:2444233. Ythdf2.

Phylogenomic databases

eggNOGiKOG1901. Eukaryota.
ENOG410YABQ. LUCA.
GeneTreeiENSGT00390000017549.
HOVERGENiHBG060315.
InParanoidiQ91YT7.
OMAiTGGDPPM.
OrthoDBiEOG71VSSM.
PhylomeDBiQ91YT7.
TreeFamiTF323736.

Miscellaneous databases

NextBioi374033.
PROiQ91YT7.
SOURCEiSearch...

Gene expression databases

ExpressionAtlasiQ91YT7. baseline and differential.
GenevisibleiQ91YT7. MM.

Family and domain databases

InterProiIPR007275. YTH_domain.
[Graphical view]
PfamiPF04146. YTH. 1 hit.
[Graphical view]
PROSITEiPS50882. YTH. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "The transcriptional landscape of the mammalian genome."
    Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
    , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
    Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: C57BL/6J.
    Tissue: Embryo and Testis.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: C57BL/6J.
  3. Mural R.J., Adams M.D., Myers E.W., Smith H.O., Venter J.C.
    Submitted (SEP-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  4. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Mammary tumor.
  5. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Kidney and Spleen.

Entry informationi

Entry nameiYTHD2_MOUSE
AccessioniPrimary (citable) accession number: Q91YT7
Secondary accession number(s): Q3TWU3, Q8BM70, Q8K325
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 19, 2014
Last sequence update: December 1, 2001
Last modified: March 16, 2016
This is version 112 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.