SMG7_DANRE
ID SMG7_DANRE Reviewed; 1180 AA.
AC Q1LVF3; A0A0R4IJJ6;
DT 23-FEB-2022, integrated into UniProtKB/Swiss-Prot.
DT 20-JAN-2016, sequence version 2.
DT 03-AUG-2022, entry version 111.
DE RecName: Full=Nonsense-mediated mRNA decay factor SMG7 {ECO:0000312|ZFIN:ZDB-GENE-030131-9122};
DE AltName: Full=SMG-7 homolog {ECO:0000250|UniProtKB:Q92540};
GN Name=smg7 {ECO:0000312|ZFIN:ZDB-GENE-030131-9122};
OS Danio rerio (Zebrafish) (Brachydanio rerio).
OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes;
OC Danionidae; Danioninae; Danio.
OX NCBI_TaxID=7955 {ECO:0000312|Proteomes:UP000000437};
RN [1] {ECO:0000312|Proteomes:UP000000437}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=Tuebingen {ECO:0000312|Proteomes:UP000000437};
RX PubMed=23594743; DOI=10.1038/nature12111;
RA Howe K., Clark M.D., Torroja C.F., Torrance J., Berthelot C., Muffato M.,
RA Collins J.E., Humphray S., McLaren K., Matthews L., McLaren S., Sealy I.,
RA Caccamo M., Churcher C., Scott C., Barrett J.C., Koch R., Rauch G.J.,
RA White S., Chow W., Kilian B., Quintais L.T., Guerra-Assuncao J.A., Zhou Y.,
RA Gu Y., Yen J., Vogel J.H., Eyre T., Redmond S., Banerjee R., Chi J., Fu B.,
RA Langley E., Maguire S.F., Laird G.K., Lloyd D., Kenyon E., Donaldson S.,
RA Sehra H., Almeida-King J., Loveland J., Trevanion S., Jones M., Quail M.,
RA Willey D., Hunt A., Burton J., Sims S., McLay K., Plumb B., Davis J.,
RA Clee C., Oliver K., Clark R., Riddle C., Elliot D., Threadgold G.,
RA Harden G., Ware D., Begum S., Mortimore B., Kerry G., Heath P.,
RA Phillimore B., Tracey A., Corby N., Dunn M., Johnson C., Wood J., Clark S.,
RA Pelan S., Griffiths G., Smith M., Glithero R., Howden P., Barker N.,
RA Lloyd C., Stevens C., Harley J., Holt K., Panagiotidis G., Lovell J.,
RA Beasley H., Henderson C., Gordon D., Auger K., Wright D., Collins J.,
RA Raisen C., Dyer L., Leung K., Robertson L., Ambridge K., Leongamornlert D.,
RA McGuire S., Gilderthorp R., Griffiths C., Manthravadi D., Nichol S.,
RA Barker G., Whitehead S., Kay M., Brown J., Murnane C., Gray E.,
RA Humphries M., Sycamore N., Barker D., Saunders D., Wallis J., Babbage A.,
RA Hammond S., Mashreghi-Mohammadi M., Barr L., Martin S., Wray P.,
RA Ellington A., Matthews N., Ellwood M., Woodmansey R., Clark G., Cooper J.,
RA Tromans A., Grafham D., Skuce C., Pandian R., Andrews R., Harrison E.,
RA Kimberley A., Garnett J., Fosker N., Hall R., Garner P., Kelly D., Bird C.,
RA Palmer S., Gehring I., Berger A., Dooley C.M., Ersan-Urun Z., Eser C.,
RA Geiger H., Geisler M., Karotki L., Kirn A., Konantz J., Konantz M.,
RA Oberlander M., Rudolph-Geiger S., Teucke M., Lanz C., Raddatz G.,
RA Osoegawa K., Zhu B., Rapp A., Widaa S., Langford C., Yang F.,
RA Schuster S.C., Carter N.P., Harrow J., Ning Z., Herrero J., Searle S.M.,
RA Enright A., Geisler R., Plasterk R.H., Lee C., Westerfield M.,
RA de Jong P.J., Zon L.I., Postlethwait J.H., Nusslein-Volhard C.,
RA Hubbard T.J., Roest Crollius H., Rogers J., Stemple D.L.;
RT "The zebrafish reference genome sequence and its relationship to the human
RT genome.";
RL Nature 496:498-503(2013).
RN [2] {ECO:0000305}
RP FUNCTION, DEVELOPMENTAL STAGE, AND DISRUPTION PHENOTYPE.
RX PubMed=19414594; DOI=10.1128/mcb.00177-09;
RA Wittkopp N., Huntzinger E., Weiler C., Sauliere J., Schmidt S.,
RA Sonawane M., Izaurralde E.;
RT "Nonsense-mediated mRNA decay effectors are essential for zebrafish
RT embryonic development and survival.";
RL Mol. Cell. Biol. 29:3517-3528(2009).
CC -!- FUNCTION: Plays a role in nonsense-mediated mRNA decay (By similarity).
CC Recruits UPF1 to cytoplasmic mRNA decay bodies (By similarity).
CC Together with SMG5 is thought to provide a link to the mRNA degradation
CC machinery involving exonucleolytic pathways, and to serve as an adapter
CC for UPF1 to protein phosphatase 2A (PP2A), thereby triggering UPF1
CC dephosphorylation (By similarity). Required for normal embryonic
CC development (PubMed:19414594). {ECO:0000250|UniProtKB:Q92540,
CC ECO:0000269|PubMed:19414594}.
CC -!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000250|UniProtKB:Q92540}. Nucleus
CC {ECO:0000250|UniProtKB:Q92540}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=Q1LVF3-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q1LVF3-2; Sequence=VSP_061251;
CC -!- DEVELOPMENTAL STAGE: Expressed during early cleavage, gastrulation and
CC at 1 day post-fertilization. {ECO:0000269|PubMed:19414594}.
CC -!- DISRUPTION PHENOTYPE: Morpholino knockdown leads to a phenotype ranging
CC in severity from weak to severe that includes an elongated hindbrain,
CC altered midbrain-hindbrain boundary, stacked somites in severe
CC phenotypes and a mortality rate of 97% at 5 days post-fertilization.
CC {ECO:0000269|PubMed:19414594}.
CC ---------------------------------------------------------------------------
CC Copyrighted by the UniProt Consortium, see https://www.uniprot.org/terms
CC Distributed under the Creative Commons Attribution (CC BY 4.0) License
CC ---------------------------------------------------------------------------
DR EMBL; BX681417; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR RefSeq; XP_005171365.1; XM_005171308.3.
DR AlphaFoldDB; Q1LVF3; -.
DR SMR; Q1LVF3; -.
DR STRING; 7955.ENSDARP00000080411; -.
DR Ensembl; ENSDART00000085976; ENSDARP00000080411; ENSDARG00000060767. [Q1LVF3-1]
DR Ensembl; ENSDART00000171680; ENSDARP00000135427; ENSDARG00000060767. [Q1LVF3-2]
DR GeneID; 565575; -.
DR CTD; 9887; -.
DR ZFIN; ZDB-GENE-030131-9122; smg7.
DR eggNOG; KOG2162; Eukaryota.
DR GeneTree; ENSGT00940000158333; -.
DR InParanoid; Q1LVF3; -.
DR OMA; TWAGHGP; -.
DR OrthoDB; 556396at2759; -.
DR TreeFam; TF327119; -.
DR Reactome; R-DRE-975957; Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC).
DR Proteomes; UP000000437; Genome assembly.
DR Proteomes; UP000814640; Chromosome 2.
DR Bgee; ENSDARG00000060767; Expressed in mature ovarian follicle and 27 other tissues.
DR ExpressionAtlas; Q1LVF3; baseline and differential.
DR GO; GO:0005737; C:cytoplasm; IEA:UniProtKB-SubCell.
DR GO; GO:0005697; C:telomerase holoenzyme complex; IBA:GO_Central.
DR GO; GO:0070034; F:telomerase RNA binding; IBA:GO_Central.
DR GO; GO:0042162; F:telomeric DNA binding; IBA:GO_Central.
DR GO; GO:0043009; P:chordate embryonic development; IMP:ZFIN.
DR GO; GO:0000184; P:nuclear-transcribed mRNA catabolic process, nonsense-mediated decay; IBA:GO_Central.
DR Gene3D; 1.25.40.10; -; 1.
DR InterPro; IPR018834; DNA/RNA-bd_Est1-type.
DR InterPro; IPR045153; Est1/Ebs1-like.
DR InterPro; IPR019458; Est1_N.
DR InterPro; IPR011990; TPR-like_helical_dom_sf.
DR PANTHER; PTHR15696; PTHR15696; 1.
DR Pfam; PF10374; EST1; 1.
DR Pfam; PF10373; EST1_DNA_bind; 1.
DR SUPFAM; SSF48452; SSF48452; 1.
PE 2: Evidence at transcript level;
KW Alternative splicing; Cytoplasm; Nonsense-mediated mRNA decay; Nucleus;
KW Reference proteome; Repeat; TPR repeat.
FT CHAIN 1..1180
FT /note="Nonsense-mediated mRNA decay factor SMG7"
FT /id="PRO_0000454184"
FT REPEAT 151..184
FT /note="TPR 1"
FT /evidence="ECO:0000250|UniProtKB:Q5RJH6"
FT REPEAT 186..218
FT /note="TPR 2"
FT /evidence="ECO:0000250|UniProtKB:Q5RJH6"
FT REGION 496..636
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 692..795
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 893..913
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 1019..1127
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 1148..1180
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 502..538
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 543..572
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 582..623
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 692..729
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 739..795
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 1020..1067
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 1100..1127
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT VAR_SEQ 907..956
FT /note="Missing (in isoform 2)"
FT /id="VSP_061251"
SQ SEQUENCE 1180 AA; 132344 MW; 12F92CBF4D1440D3 CRC64;
MNLCAQYLRQ AEALKADMTD SKLGAAEVWT SRQALQDLYQ KMLVTDLEYA LDKKVEQDLW
NHAFKNQITT LQSQAKNRAN PNRSEVQANL SLFLEAASGF YTQLLQELCT VFNVDLPCRV
KSSQLGIISN KQSSTSAIVK PQPSSCSYIC QHCLVHLGDI ARYRNQTSQA ESYYRHAAQL
VPSNGQPYNQ LAILASSKGD HLTTIFYYCR SIAVKFPFPA ASTNLQKALS KALESRDEVK
TKWSVSDFIK AFIKFHGHVY LCKSLDKLNT LREKLEEQFQ RLILQKAFSS QQLVHITVIN
LFELHHLRDL SNEADEHSYS SDEQISWIQL LGLFMSFLGV MLSRALLNKN REEIMGECPL
PAIKVSLDWL RLRPTVFNES AMDKRQYIWP WLVSILNSFQ PKEEDVSNAS VIPLPEEFEL
QGFLALRPAL RMLDFSKGHQ GIVIGKESLL IHARHQRLIS LGKWVADNQP RLIQCRMSDG
LVLFITDIPE IVVEEPQEKD TPVLQESSNG EQTPNESTHG LKSVLSAGKN QNSGLDGSER
PVVTFKENIK PREQSREQNR NQNQRDTGKD RAGFNKGNGV QGKNEQKKEG KRKSEVKKNS
HDKTTDAGKQ VKTQTELRKT PVSEARKTPV TQTQTTCSSQ FIPIHHPGAF PPLPSRPGFP
PPAYVIPPPV AFSMSPGFTF PTGVSVPAPF LQTASHPQSA NPVQTGKPSH IPYSQQRPSG
PVALNQGPPQ PQQTQPPPPQ TSQQALQQSV QLQLQQQQQQ QQQQQQQQQQ SPTKQSSQLG
KSPPHHHSMQ QSYMQVPEQP GQMWNQHQNQ PGMQKMPMQM PVKQPFFMPT QDPMKLFEHP
MSMQPQQPSM DKKMKFPEVK VQDFYWDPPY HMAGEGRSTM ADRMGKRQPG VFCSDQENMP
RGPPYEDNKS SPLLPPDLLK TLADFEEEEE LLFTKPHDFY QALAGPLNSA PGRNMFLPNQ
SRLDSGADVI GQSSLLPRFS IQDNSYQNNS IFSEAYGKNM TPSSKPDAPM MHQEPSLYSL
FEGNPWSPSL PASSDHSTPA SQSPHSSNPS SLPSSPPTHS HGSMPFSNFG PIGTPDSRDR
RANDRWKAEK TGVSGFGLDY LPSASTSSVP ETNSWHQGAP TSTWAAQDMP MEDSSTVLLD
SFKSIWSSSM MQPGPSALEQ LLMQQKQKQQ RGHGNMNPPH
