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Intraflagellar transport protein 88 homolog (Recessive polycystic kidney disease protein Tg737) (Tetratricopeptide repeat protein 10) (TPR repeat protein 10) (TgN(Imorpk)737Rpw)

 IFT88_MOUSE             Reviewed;         824 AA.
Q61371; E9QKU0; Q3UXY9; Q921J5;
26-SEP-2001, integrated into UniProtKB/Swiss-Prot.
27-JUL-2011, sequence version 2.
30-AUG-2017, entry version 150.
RecName: Full=Intraflagellar transport protein 88 homolog;
AltName: Full=Recessive polycystic kidney disease protein Tg737;
AltName: Full=Tetratricopeptide repeat protein 10;
Short=TPR repeat protein 10;
AltName: Full=TgN(Imorpk)737Rpw;
Name=Ift88; Synonyms=Tg737, Tg737Rpw, TgN737Rpw, Ttc10;
Mus musculus (Mouse).
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
Muroidea; Muridae; Murinae; Mus; Mus.
NCBI_TaxID=10090;
[1]
NUCLEOTIDE SEQUENCE [MRNA], AND INVOLVEMENT IN PKD.
STRAIN=C3HF/RL;
PubMed=8191288; DOI=10.1126/science.8191288;
Moyer J.H., Lee-Tischler M.J., Kwon H.-Y., Schrick J.J., Avner E.D.,
Sweeney W.E., Godfrey V.L., Cacheiro N.L., Wilkinson J.E.,
Woychik R.P.;
"Candidate gene associated with a mutation causing recessive
polycystic kidney disease in mice.";
Science 264:1329-1333(1994).
[2]
NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
STRAIN=C57BL/6J; TISSUE=Olfactory bulb;
PubMed=16141072; DOI=10.1126/science.1112014;
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.;
"The transcriptional landscape of the mammalian genome.";
Science 309:1559-1563(2005).
[3]
NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
STRAIN=C57BL/6J;
PubMed=19468303; DOI=10.1371/journal.pbio.1000112;
Church D.M., Goodstadt L., Hillier L.W., Zody M.C., Goldstein S.,
She X., Bult C.J., Agarwala R., Cherry J.L., DiCuccio M., Hlavina W.,
Kapustin Y., Meric P., Maglott D., Birtle Z., Marques A.C., Graves T.,
Zhou S., Teague B., Potamousis K., Churas C., Place M., Herschleb J.,
Runnheim R., Forrest D., Amos-Landgraf J., Schwartz D.C., Cheng Z.,
Lindblad-Toh K., Eichler E.E., Ponting C.P.;
"Lineage-specific biology revealed by a finished genome assembly of
the mouse.";
PLoS Biol. 7:E1000112-E1000112(2009).
[4]
NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
STRAIN=Czech II; TISSUE=Mammary tumor;
PubMed=15489334; DOI=10.1101/gr.2596504;
The MGC Project Team;
"The status, quality, and expansion of the NIH full-length cDNA
project: the Mammalian Gene Collection (MGC).";
Genome Res. 14:2121-2127(2004).
[5]
FUNCTION, AND INTERACTION WITH IFT57 AND IFT172.
PubMed=11062270; DOI=10.1083/jcb.151.3.709;
Pazour G.J., Dickert B.L., Vucica Y., Seeley E.S., Rosenbaum J.L.,
Witman G.B., Cole D.G.;
"Chlamydomonas IFT88 and its mouse homologue, polycystic kidney
disease gene tg737, are required for assembly of cilia and flagella.";
J. Cell Biol. 151:709-718(2000).
[6]
INTERACTION WITH IFT46.
PubMed=17312020; DOI=10.1083/jcb.200608041;
Hou Y., Qin H., Follit J.A., Pazour G.J., Rosenbaum J.L., Witman G.B.;
"Functional analysis of an individual IFT protein: IFT46 is required
for transport of outer dynein arms into flagella.";
J. Cell Biol. 176:653-665(2007).
[7]
IDENTIFICATION IN THE IFT COMPLEX B, INTERACTION WITH IFT20; IFT22;
HSPB11; IFT27; IFT46; IFT52; TRAF3IP1; IFT57; IFT74; IFT80; IFT81;
IFT88, AND SUBCELLULAR LOCATION.
PubMed=19253336; DOI=10.1002/cm.20346;
Follit J.A., Xu F., Keady B.T., Pazour G.J.;
"Characterization of mouse IFT complex B.";
Cell Motil. Cytoskeleton 66:457-468(2009).
[8]
IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
TISSUE=Testis;
PubMed=21183079; DOI=10.1016/j.cell.2010.12.001;
Huttlin E.L., Jedrychowski M.P., Elias J.E., Goswami T., Rad R.,
Beausoleil S.A., Villen J., Haas W., Sowa M.E., Gygi S.P.;
"A tissue-specific atlas of mouse protein phosphorylation and
expression.";
Cell 143:1174-1189(2010).
[9]
SUBCELLULAR LOCATION.
PubMed=20230748; DOI=10.1016/j.devcel.2009.12.022;
Singla V., Romaguera-Ros M., Garcia-Verdugo J.M., Reiter J.F.;
"Ofd1, a human disease gene, regulates the length and distal structure
of centrioles.";
Dev. Cell 18:410-424(2010).
[10]
DISRUPTION PHENOTYPE, AND FUNCTION.
PubMed=21289087; DOI=10.1091/mbc.E10-07-0596;
Lai C.K., Gupta N., Wen X., Rangell L., Chih B., Peterson A.S.,
Bazan J.F., Li L., Scales S.J.;
"Functional characterization of putative cilia genes by high-content
analysis.";
Mol. Biol. Cell 22:1104-1119(2011).
[11]
SUBCELLULAR LOCATION.
PubMed=23386061; DOI=10.1038/emboj.2013.3;
Kodani A., Salome Sirerol-Piquer M., Seol A., Garcia-Verdugo J.M.,
Reiter J.F.;
"Kif3a interacts with Dynactin subunit p150 Glued to organize
centriole subdistal appendages.";
EMBO J. 32:597-607(2013).
[12]
SUBCELLULAR LOCATION.
PubMed=24089209; DOI=10.1038/nature12639;
Pampliega O., Orhon I., Patel B., Sridhar S., Diaz-Carretero A.,
Beau I., Codogno P., Satir B.H., Satir P., Cuervo A.M.;
"Functional interaction between autophagy and ciliogenesis.";
Nature 502:194-200(2013).
[13]
INTERACTION WITH C2CD3.
PubMed=24469809; DOI=10.1073/pnas.1318737111;
Ye X., Zeng H., Ning G., Reiter J.F., Liu A.;
"C2cd3 is critical for centriolar distal appendage assembly and
ciliary vesicle docking in mammals.";
Proc. Natl. Acad. Sci. U.S.A. 111:2164-2169(2014).
-!- FUNCTION: Involved in primary cilium biogenesis. Also involved in
autophagy since it is required for trafficking of ATG16L and the
expansion of the autophagic compartment.
{ECO:0000269|PubMed:11062270, ECO:0000269|PubMed:21289087}.
-!- SUBUNIT: Component of the IFT complex B, at least composed of
IFT20, IFT22, HSPB11/IFT25, IFT27, IFT46, IFT52, TRAF3IP1/IFT54,
IFT57, IFT74, IFT80, IFT81, and IFT88. Interacts with IFT20,
IFT22, HSPB11, IFT27, IFT46, IFT52, TRAF3IP1, IFT57, IFT74, IFT80,
IFT81, IFT88 AND IFT172. Interacts with C2CD3.
{ECO:0000269|PubMed:11062270, ECO:0000269|PubMed:17312020,
ECO:0000269|PubMed:19253336, ECO:0000269|PubMed:24469809}.
-!- SUBCELLULAR LOCATION: Cytoplasm, cytoskeleton, microtubule
organizing center, centrosome, centriole
{ECO:0000269|PubMed:20230748, ECO:0000269|PubMed:23386061}.
Cytoplasm, cytoskeleton, cilium basal body
{ECO:0000269|PubMed:19253336, ECO:0000269|PubMed:20230748}.
-!- DISEASE: Note=Defects in Ift88 are the cause of recessive
bilateral polycystic kidney disease (PKD) with collecting duct and
tubule ectasia, and a liver lesion involving biliary dysplasia
and/or portal fibrosis.
-!- DISRUPTION PHENOTYPE: Cilia absent or reduced, virtually no cilia
of the normal 5 uM mean length. {ECO:0000269|PubMed:21289087}.
-!- SEQUENCE CAUTION:
Sequence=BAE22424.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};
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EMBL; L31959; AAB59705.1; -; mRNA.
EMBL; AK135110; BAE22424.1; ALT_INIT; mRNA.
EMBL; AC124462; -; NOT_ANNOTATED_CDS; Genomic_DNA.
EMBL; AC154675; -; NOT_ANNOTATED_CDS; Genomic_DNA.
EMBL; BC012250; AAH12250.1; -; mRNA.
PIR; I49564; I49564.
RefSeq; NP_033402.2; NM_009376.2.
UniGene; Mm.4653; -.
ProteinModelPortal; Q61371; -.
BioGrid; 204171; 13.
STRING; 10090.ENSMUSP00000113768; -.
iPTMnet; Q61371; -.
PhosphoSitePlus; Q61371; -.
MaxQB; Q61371; -.
PaxDb; Q61371; -.
PRIDE; Q61371; -.
GeneID; 21821; -.
KEGG; mmu:21821; -.
CTD; 8100; -.
MGI; MGI:98715; Ift88.
eggNOG; KOG2003; Eukaryota.
eggNOG; ENOG410XPPW; LUCA.
HOGENOM; HOG000258203; -.
HOVERGEN; HBG059328; -.
InParanoid; Q61371; -.
KO; K16474; -.
OMA; ENVECLR; -.
Reactome; R-MMU-5620924; Intraflagellar transport.
ChiTaRS; Ift88; mouse.
PRO; PR:Q61371; -.
Proteomes; UP000000589; Unplaced.
GO; GO:0002080; C:acrosomal membrane; IDA:MGI.
GO; GO:0097541; C:axonemal basal plate; IDA:MGI.
GO; GO:0005930; C:axoneme; IDA:MGI.
GO; GO:0005814; C:centriole; IDA:UniProtKB.
GO; GO:0005813; C:centrosome; IDA:MGI.
GO; GO:0036064; C:ciliary basal body; IDA:UniProtKB.
GO; GO:0097546; C:ciliary base; IDA:MGI.
GO; GO:0097542; C:ciliary tip; IDA:MGI.
GO; GO:0005929; C:cilium; IDA:UniProtKB.
GO; GO:0030992; C:intraciliary transport particle B; IDA:UniProtKB.
GO; GO:0060091; C:kinocilium; IDA:MGI.
GO; GO:0031514; C:motile cilium; IDA:MGI.
GO; GO:0097730; C:non-motile cilium; IDA:MGI.
GO; GO:0002081; C:outer acrosomal membrane; ISO:MGI.
GO; GO:0032391; C:photoreceptor connecting cilium; IDA:UniProtKB.
GO; GO:0005802; C:trans-Golgi network; ISO:MGI.
GO; GO:0019894; F:kinesin binding; IPI:MGI.
GO; GO:0009887; P:animal organ morphogenesis; IMP:MGI.
GO; GO:0009952; P:anterior/posterior pattern specification; IMP:MGI.
GO; GO:0007420; P:brain development; IMP:MGI.
GO; GO:0055007; P:cardiac muscle cell differentiation; IMP:MGI.
GO; GO:0060411; P:cardiac septum morphogenesis; IMP:MGI.
GO; GO:0060271; P:cilium assembly; IMP:UniProtKB.
GO; GO:0090102; P:cochlea development; IGI:MGI.
GO; GO:0031122; P:cytoplasmic microtubule organization; IMP:MGI.
GO; GO:0007368; P:determination of left/right symmetry; IMP:MGI.
GO; GO:0009953; P:dorsal/ventral pattern formation; IMP:MGI.
GO; GO:0042733; P:embryonic digit morphogenesis; IMP:MGI.
GO; GO:0001886; P:endothelial cell morphogenesis; IMP:MGI.
GO; GO:0036334; P:epidermal stem cell homeostasis; IMP:MGI.
GO; GO:0008544; P:epidermis development; IMP:MGI.
GO; GO:0001654; P:eye development; IGI:MGI.
GO; GO:0048853; P:forebrain morphogenesis; IMP:MGI.
GO; GO:0007507; P:heart development; IGI:MGI.
GO; GO:0060914; P:heart formation; IMP:MGI.
GO; GO:0060122; P:inner ear receptor stereocilium organization; IMP:MGI.
GO; GO:0035735; P:intraciliary transport involved in cilium assembly; TAS:Reactome.
GO; GO:0001822; P:kidney development; IMP:MGI.
GO; GO:0060173; P:limb development; IGI:MGI.
GO; GO:0001889; P:liver development; IMP:MGI.
GO; GO:0030324; P:lung development; IMP:MGI.
GO; GO:0060426; P:lung vasculature development; IMP:MGI.
GO; GO:0050680; P:negative regulation of epithelial cell proliferation; IMP:MGI.
GO; GO:0007399; P:nervous system development; IMP:MGI.
GO; GO:0061351; P:neural precursor cell proliferation; IMP:MGI.
GO; GO:1905515; P:non-motile cilium assembly; IMP:MGI.
GO; GO:0007219; P:Notch signaling pathway; IMP:MGI.
GO; GO:0060021; P:palate development; IGI:MGI.
GO; GO:0031016; P:pancreas development; IMP:MGI.
GO; GO:0043568; P:positive regulation of insulin-like growth factor receptor signaling pathway; IMP:MGI.
GO; GO:0008104; P:protein localization; IMP:MGI.
GO; GO:2000785; P:regulation of autophagosome assembly; IMP:UniProtKB.
GO; GO:1902017; P:regulation of cilium assembly; IMP:UniProtKB.
GO; GO:0045598; P:regulation of fat cell differentiation; IMP:MGI.
GO; GO:0060259; P:regulation of feeding behavior; IMP:MGI.
GO; GO:0042487; P:regulation of odontogenesis of dentin-containing tooth; IMP:MGI.
GO; GO:0070613; P:regulation of protein processing; IMP:MGI.
GO; GO:0008589; P:regulation of smoothened signaling pathway; IMP:MGI.
GO; GO:0034405; P:response to fluid shear stress; IMP:MGI.
GO; GO:0007224; P:smoothened signaling pathway; IMP:MGI.
GO; GO:0007288; P:sperm axoneme assembly; IMP:MGI.
GO; GO:0007290; P:spermatid nucleus elongation; IMP:MGI.
GO; GO:0021513; P:spinal cord dorsal/ventral patterning; IMP:MGI.
GO; GO:0021537; P:telencephalon development; IMP:MGI.
Gene3D; 1.25.40.10; -; 7.
InterPro; IPR013026; TPR-contain_dom.
InterPro; IPR011990; TPR-like_helical_dom.
InterPro; IPR019734; TPR_repeat.
Pfam; PF13174; TPR_6; 1.
Pfam; PF13181; TPR_8; 1.
SMART; SM00028; TPR; 11.
SUPFAM; SSF48452; SSF48452; 3.
PROSITE; PS50005; TPR; 10.
PROSITE; PS50293; TPR_REGION; 2.
1: Evidence at protein level;
Cell projection; Cilium; Cilium biogenesis/degradation;
Complete proteome; Cytoplasm; Cytoskeleton; Reference proteome;
Repeat; TPR repeat.
CHAIN 1 824 Intraflagellar transport protein 88
homolog.
/FTId=PRO_0000106392.
REPEAT 196 229 TPR 1.
REPEAT 232 265 TPR 2.
REPEAT 271 304 TPR 3.
REPEAT 415 448 TPR 4.
REPEAT 450 483 TPR 5.
REPEAT 484 517 TPR 6.
REPEAT 518 551 TPR 7.
REPEAT 552 585 TPR 8.
REPEAT 586 619 TPR 9.
REPEAT 620 653 TPR 10.
REPEAT 654 687 TPR 11.
CONFLICT 64 64 I -> T (in Ref. 4; AAH12250).
{ECO:0000305}.
CONFLICT 242 242 Y -> H (in Ref. 4; AAH12250).
{ECO:0000305}.
CONFLICT 459 459 L -> M (in Ref. 2; BAE22424).
{ECO:0000305}.
CONFLICT 700 700 D -> E (in Ref. 4; AAH12250).
{ECO:0000305}.
CONFLICT 823 823 P -> S (in Ref. 1; AAB59705).
{ECO:0000305}.
SEQUENCE 824 AA; 92994 MW; BC239BA4B8FE3B5D CRC64;
MENVHLAPET DEDDLYSGFN DYNPAYDTEE LENDTGFQQA VRTSHGRRPP VTAKIPSTAV
SRPIATGYGS KTSLTSSMGR PMTGTIQDGV ARPMTAVRAA GFSKAALRGS AFDPLGQSRG
PAPPLEAKNE DSPEEKIRQL EKKVNELVEE SCIANSCGDL KLALEKAKDA GRKERVLVRQ
REQVTSPENI NLDLTYSVLF NLASQYSANE MYAEALNTYQ VIVKNKMFSN AGRLKVNMGN
IYLKQRNYSK AIKFYRMALD QIPSVHKEMR IKIMQNIGIT FIKTGQYSDA INSFEHIMSM
APSLKAGFNL ILSCFAIGDR EKMKKAFQKL IAVPLEIDED DKYISPSDDP HTNLLIEAIK
NDHLRQMERE RKAMAEKYIM TAAKLIAPVI EASFAVGYNW CVEVVKASQY VELANDLEIN
KAITYLRQKD FNQAVDTLKM FEKKDSRVKS AAATNLSFLY YLENEFAQAS SYADLAVNSD
RYNPSALTNK GNTVFANGDY EKAAEFYKEA LRNDSSCTEA LYNIGLTYKK LNRLDEALDS
FLKLHAILRN SAQVLCQIAN IYELMEDPNQ AIEWLMQLIS VVPTDSQALS KLGELYDSEG
DKSQAFQYYY ESYRYFPSNI EVIEWLGAYY IDTQFCEKAI QYFERASLIQ PTQVKWQLMV
ASCFRRSGNY QKALDTYKEI HRKFPENVEC LRFLVRLCTD IGLKEVQEYA TKLKRLEKMK
EMREQRIKSG RDSSGGSRSK REGSAGSDSG QNNSASSKSE RLSAKLRALP GTDEPYESSG
NKEIDASYVD PLGPQIERPK TAAKKRIDED DFADEELGDD LLPE


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