Entry sw:TT21B_MOUSE

ID   TT21B_MOUSE             Reviewed;        1315 AA.
AC   Q0HA38; Q3V1U7; Q69Z46;
DT   26-JUN-2007, integrated into UniProtKB/Swiss-Prot.
DT   03-OCT-2006, sequence version 1.
DT   18-JAN-2017, entry version 91.
DE   RecName: Full=Tetratricopeptide repeat protein 21B;
DE            Short=TPR repeat protein 21B;
DE   AltName: Full=Intraflagellar transport 139 homolog;
DE   AltName: Full=Tetratricopeptide repeat-containing hedgehog modulator 1;
GN   Name=Ttc21b;
GN   Synonyms=Ift139 {ECO:0000303|PubMed:25860617}, Kiaa1992, Thm1;
OS   Mus musculus (Mouse).
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC   Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Sciurognathi;
OC   Muroidea; Muridae; Murinae; Mus; Mus.
OX   NCBI_TaxID=10090;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, SUBCELLULAR LOCATION, AND
RP   DEVELOPMENTAL STAGE.
RC   STRAIN=A/J;
RX   PubMed=18327258; DOI=10.1038/ng.105;
RA   Tran P.V., Haycraft C.J., Besschetnova T.Y., Turbe-Doan A.,
RA   Stottmann R.W., Herron B.J., Chesebro A.L., Qiu H., Scherz P.J.,
RA   Shah J.V., Yoder B.K., Beier D.R.;
RT   "THM1 negatively modulates mouse sonic hedgehog signal transduction
RT   and affects retrograde intraflagellar transport in cilia.";
RL   Nat. Genet. 40:403-410(2008).
RN   [2]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=C57BL/6J;
RX   PubMed=19468303; DOI=10.1371/journal.pbio.1000112;
RA   Church D.M., Goodstadt L., Hillier L.W., Zody M.C., Goldstein S.,
RA   She X., Bult C.J., Agarwala R., Cherry J.L., DiCuccio M., Hlavina W.,
RA   Kapustin Y., Meric P., Maglott D., Birtle Z., Marques A.C., Graves T.,
RA   Zhou S., Teague B., Potamousis K., Churas C., Place M., Herschleb J.,
RA   Runnheim R., Forrest D., Amos-Landgraf J., Schwartz D.C., Cheng Z.,
RA   Lindblad-Toh K., Eichler E.E., Ponting C.P.;
RT   "Lineage-specific biology revealed by a finished genome assembly of
RT   the mouse.";
RL   PLoS Biol. 7:E1000112-E1000112(2009).
RN   [3]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 667-1315.
RC   STRAIN=C57BL/6J; TISSUE=Brain;
RX   PubMed=16141072; DOI=10.1126/science.1112014;
RA   Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N.,
RA   Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K.,
RA   Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M.,
RA   Davis M.J., Wilming L.G., Aidinis V., Allen J.E.,
RA   Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L.,
RA   Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M.,
RA   Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R.,
RA   Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G.,
RA   di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G.,
RA   Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M.,
RA   Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E.,
RA   Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N.,
RA   Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T.,
RA   Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H.,
RA   Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K.,
RA   Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J.,
RA   Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L.,
RA   Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K.,
RA   Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P.,
RA   Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O.,
RA   Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G.,
RA   Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M.,
RA   Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C.,
RA   Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y.,
RA   Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B.,
RA   Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K.,
RA   Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A.,
RA   Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K.,
RA   Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C.,
RA   Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J.,
RA   Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y.,
RA   Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T.,
RA   Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N.,
RA   Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N.,
RA   Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S.,
RA   Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J.,
RA   Hayashizaki Y.;
RT   "The transcriptional landscape of the mammalian genome.";
RL   Science 309:1559-1563(2005).
RN   [4]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 994-1315.
RC   TISSUE=Embryonic tail;
RX   PubMed=15368895; DOI=10.1093/dnares/11.3.205;
RA   Okazaki N., Kikuno R., Ohara R., Inamoto S., Koseki H., Hiraoka S.,
RA   Saga Y., Seino S., Nishimura M., Kaisho T., Hoshino K., Kitamura H.,
RA   Nagase T., Ohara O., Koga H.;
RT   "Prediction of the coding sequences of mouse homologues of KIAA gene:
RT   IV. The complete nucleotide sequences of 500 mouse KIAA-homologous
RT   cDNAs identified by screening of terminal sequences of cDNA clones
RT   randomly sampled from size-fractionated libraries.";
RL   DNA Res. 11:205-218(2004).
RN   [5]
RP   IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
RC   TISSUE=Kidney, and Testis;
RX   PubMed=21183079; DOI=10.1016/j.cell.2010.12.001;
RA   Huttlin E.L., Jedrychowski M.P., Elias J.E., Goswami T., Rad R.,
RA   Beausoleil S.A., Villen J., Haas W., Sowa M.E., Gygi S.P.;
RT   "A tissue-specific atlas of mouse protein phosphorylation and
RT   expression.";
RL   Cell 143:1174-1189(2010).
RN   [6]
RP   INTERACTION WITH TTC25.
RX   PubMed=25860617; DOI=10.1371/journal.pone.0124378;
RA   Xu Y., Cao J., Huang S., Feng D., Zhang W., Zhu X., Yan X.;
RT   "Characterization of tetratricopeptide repeat-containing proteins
RT   critical for cilia formation and function.";
RL   PLoS ONE 10:E0124378-E0124378(2015).
CC   -!- FUNCTION: Component of the IFT complex A (IFT-A), a complex
CC       required for retrograde ciliary transport. Negatively modulates
CC       the SHH signal transduction. {ECO:0000269|PubMed:18327258}.
CC   -!- SUBUNIT: Component of the IFT complex A (IFT-A) (By similarity).
CC       Interacts with TTC25 (PubMed:25860617). {ECO:0000250,
CC       ECO:0000269|PubMed:25860617}.
CC   -!- SUBCELLULAR LOCATION: Cytoplasm, cytoskeleton, cilium axoneme
CC       {ECO:0000269|PubMed:18327258}. Note=In polarized epithelial inner
CC       medullary collecting ducts cells and in the nodes of mice at 8.0
CC       dpc, colocalizes with alpha-tubulin in cilia. Expressed in a
CC       punctate manner throughout the axoneme from the cilia base to the
CC       tip.
CC   -!- DEVELOPMENTAL STAGE: At 10.5 dpc, widely expressed with more
CC       intense expression in the maxillary prominence, branchial arches,
CC       limb buds, somites and spinal cord. {ECO:0000269|PubMed:18327258}.
CC   -!- SIMILARITY: Belongs to the TTC21 family. {ECO:0000305}.
CC   -!- SIMILARITY: Contains 19 TPR repeats. {ECO:0000255|PROSITE-
CC       ProRule:PRU00339}.
CC   -!- SEQUENCE CAUTION:
CC       Sequence=BAD32598.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};
CC       Sequence=BAD32598.1; Type=Miscellaneous discrepancy; Note=Probable cloning artifact. Aberrant splice sites.; Evidence={ECO:0000305};
DR   EMBL; DQ011164; AAY79164.1; -; mRNA.
DR   EMBL; AL844526; CAM17348.1; -; Genomic_DNA.
DR   EMBL; AL928586; CAM17348.1; JOINED; Genomic_DNA.
DR   EMBL; AL928586; CAM21880.1; -; Genomic_DNA.
DR   EMBL; AL844526; CAM21880.1; JOINED; Genomic_DNA.
DR   EMBL; AK132240; BAE21052.1; -; mRNA.
DR   EMBL; AK173320; BAD32598.1; ALT_SEQ; mRNA.
DR   CCDS; CCDS16076.1; -.
DR   RefSeq; NP_001041069.1; NM_001047604.2.
DR   UniGene; Mm.250868; -.
DR   ProteinModelPortal; Q0HA38; -.
DR   SMR; Q0HA38; -.
DR   BioGrid; 216179; 2.
DR   STRING; 10090.ENSMUSP00000099779; -.
DR   iPTMnet; Q0HA38; -.
DR   PhosphoSitePlus; Q0HA38; -.
DR   MaxQB; Q0HA38; -.
DR   PaxDb; Q0HA38; -.
DR   PRIDE; Q0HA38; -.
DR   Ensembl; ENSMUST00000102718; ENSMUSP00000099779; ENSMUSG00000034848.
DR   GeneID; 73668; -.
DR   KEGG; mmu:73668; -.
DR   UCSC; uc008jwv.2; mouse.
DR   CTD; 79809; -.
DR   MGI; MGI:1920918; Ttc21b.
DR   eggNOG; ENOG410IEX1; Eukaryota.
DR   eggNOG; ENOG410XV69; LUCA.
DR   GeneTree; ENSGT00390000005979; -.
DR   HOGENOM; HOG000004809; -.
DR   HOVERGEN; HBG108607; -.
DR   InParanoid; Q0HA38; -.
DR   KO; K19673; -.
DR   OMA; VYNMIEI; -.
DR   OrthoDB; EOG091G00TY; -.
DR   PhylomeDB; Q0HA38; -.
DR   TreeFam; TF314664; -.
DR   Reactome; R-MMU-5610787; Hedgehog 'off' state.
DR   Reactome; R-MMU-5620924; Intraflagellar transport.
DR   PRO; PR:Q0HA38; -.
DR   Proteomes; UP000000589; Chromosome 2.
DR   Bgee; ENSMUSG00000034848; -.
DR   CleanEx; MM_TTC21B; -.
DR   ExpressionAtlas; Q0HA38; baseline and differential.
DR   Genevisible; Q0HA38; MM.
DR   GO; GO:0005929; C:cilium; IEA:UniProtKB-KW.
DR   GO; GO:0005737; C:cytoplasm; IEA:UniProtKB-KW.
DR   GO; GO:0005856; C:cytoskeleton; IEA:UniProtKB-KW.
DR   GO; GO:0030991; C:intraciliary transport particle A; ISS:UniProtKB.
DR   GO; GO:0000790; C:nuclear chromatin; IEA:Ensembl.
DR   GO; GO:0021798; P:forebrain dorsal/ventral pattern formation; IMP:MGI.
DR   GO; GO:0035721; P:intraciliary retrograde transport; IMP:MGI.
DR   GO; GO:0035735; P:intraciliary transport involved in cilium assembly; IEA:Ensembl.
DR   GO; GO:0061512; P:protein localization to cilium; IBA:GO_Central.
DR   GO; GO:0008589; P:regulation of smoothened signaling pathway; IMP:MGI.
DR   GO; GO:0006357; P:regulation of transcription from RNA polymerase II promoter; ISO:MGI.
DR   GO; GO:0007224; P:smoothened signaling pathway; IMP:MGI.
DR   GO; GO:0021591; P:ventricular system development; IMP:MGI.
DR   Gene3D; 1.25.40.10; -; 8.
DR   InterPro; IPR013026; TPR-contain_dom.
DR   InterPro; IPR011990; TPR-like_helical_dom.
DR   InterPro; IPR019734; TPR_repeat.
DR   Pfam; PF13174; TPR_6; 1.
DR   Pfam; PF13181; TPR_8; 2.
DR   SMART; SM00028; TPR; 15.
DR   SUPFAM; SSF48452; SSF48452; 5.
DR   PROSITE; PS50005; TPR; 11.
DR   PROSITE; PS50293; TPR_REGION; 4.
PE   1: Evidence at protein level;
KW   Cell projection; Cilium; Complete proteome; Cytoplasm; Cytoskeleton;
KW   Reference proteome; Repeat; TPR repeat.
FT   CHAIN         1   1315       Tetratricopeptide repeat protein 21B.
FT                                /FTId=PRO_0000291918.
FT   REPEAT      108    141       TPR 1.
FT   REPEAT      145    178       TPR 2.
FT   REPEAT      192    225       TPR 3.
FT   REPEAT      285    323       TPR 4.
FT   REPEAT      324    357       TPR 5.
FT   REPEAT      492    525       TPR 6.
FT   REPEAT      563    596       TPR 7.
FT   REPEAT      616    649       TPR 8.
FT   REPEAT      721    754       TPR 9.
FT   REPEAT      756    788       TPR 10.
FT   REPEAT      790    821       TPR 11.
FT   REPEAT      830    863       TPR 12.
FT   REPEAT      883    916       TPR 13.
FT   REPEAT      918    950       TPR 14.
FT   REPEAT      951    984       TPR 15.
FT   REPEAT     1022   1055       TPR 16.
FT   REPEAT     1196   1229       TPR 17.
FT   REPEAT     1231   1263       TPR 18.
FT   REPEAT     1265   1298       TPR 19.
CC   --------------------------------------------------------------------------
CC   The following FT lines are automated annotations from the MyHits database.
CC   --------------------------------------------------------------------------
FT   MYHIT       563    596       ismart:TPR [T]
FT   MYHIT       755    788       iprf:TPR [T]
FT   MYHIT       830    863       iprf:TPR [T]
FT   MYHIT       492    559       iprf:TPR_REGION [T]
FT   MYHIT       324    357       ismart:TPR [T]
FT   MYHIT       722    754       ipfam:TPR_8 [T]
FT   MYHIT      1196   1298       iprf:TPR_REGION [T]
FT   MYHIT       721    754       iprf:TPR [T]
FT   MYHIT       108    141       iprf:TPR [T]
FT   MYHIT       883    916       ismart:TPR [T]
FT   MYHIT       492    525       iprf:TPR [T]
FT   MYHIT       306    357       iprf:TPR_REGION [T]
FT   MYHIT       955    983       ipfam:TPR_6 [T]
FT   MYHIT      1197   1223       ipfam:TPR_8 [T]
FT   MYHIT       951    984       ismart:TPR [T]
FT   MYHIT      1265   1298       ismart:TPR [T]
FT   MYHIT       526    559       ismart:TPR [T]
FT   MYHIT       917    950       iprf:TPR [T]
FT   MYHIT       178    211       ismart:TPR [T]
FT   MYHIT      1265   1298       iprf:TPR [T]
FT   MYHIT       721    754       ismart:TPR [T]
FT   MYHIT       492    525       ismart:TPR [T]
FT   MYHIT       830    863       ismart:TPR [T]
FT   MYHIT       917    950       ismart:TPR [T]
FT   MYHIT       108    141       ismart:TPR [T]
FT   MYHIT       883    916       iprf:TPR [T]
FT   MYHIT       755    788       ismart:TPR [T]
FT   MYHIT       616    984       iprf:TPR_REGION [T]
FT   MYHIT       790    821       ismart:TPR [T]
FT   MYHIT      1196   1229       ismart:TPR [T]
FT   MYHIT      1196   1229       iprf:TPR [T]
FT   MYHIT       951    984       iprf:TPR [T]
FT   MYHIT       324    357       iprf:TPR [T]
SQ   SEQUENCE   1315 AA;  150795 MW;  B4D73ACE5511268A CRC64;
     MDSQGLKTLI NYYCQERYYH HVLLVASEGM KKYSSDPVFR FYHAYGTLME GKAQEALREF
     EAIKNKQDVS LCSLMALMYV HKMSPNPDRE AILELDTKMK EQRKEAGRKA LYHAGLFLWH
     IGRHDKAREY IDRMSKMPHD SNEGPILKAW LDITRGKEPY AKKALRYFEE GLQDGNDIFA
     LLGKVLCLEI RQNYSGALET VSQIIVNFPS FLPAFEKKMK LQLALQDWDQ TVETAQRLLL
     QDNHNVEALR MLALYYLCRE GDVEKAATKL ENLGNALDVM EPQNAQLFYK ITLAFSRTCG
     RNQLILQKVQ SFLEKAFSLT PQQAEIATEL GYQMILQGKV KEAWKWYRTA MTLNESNISA
     VTGLIRCQLI EGQLQDADQQ LEFFSEFQQS MGKSAELMYL HAVLATKKNN RQDEVINLLN
     DVVNTHFSHL EDLPLGIQYF EKLNPDFLLE VVTEYLNLCP IQPAGPGQPL SPVLRRCSSV
     LETIIRSVPG LPQAVFLMAK VKYLSGDTEA AYNNLQHCLE HSPSYAEAHL LMAQVYLSQD
     KVKLCSQSLE LCLSYNFNVR EYPLYHLIKA QSQKKMGEVA EAIKTLHMAM NLPGMRRSRA
     SSKSKHRTEV DASHRLSIFL ELVEVHRLNG EQHEAAKVLQ DAIHEFSGTC EELRVTIANA
     DLALAQGDTD RALSMLRNVT TEQPYFIEAK EKMADIYLKH RKEKMLYITC YREIAERMPS
     PRSFLLLGDA YMNIQEPEEA IVAYEQALNQ NPKDGTLARK IGKALVKTHN YSKAITYYEA
     ALKSGQQNCL CYDLAELLLR LKLYEKAEKV LQHSLAHEPV SELSALMVDG RSQVLLAKVY
     SKMERPSDAI AALQQARELQ ARILKRVQME QPDAVPSQKH FAAEICAEIA KHSAAQRDYE
     KAITFYREAL VHCETDSKIM LELAQLYLAQ EDLDASLRHC ALLLQRDQDN EPATMLMADL
     MFRKQDYEQA VYHLQQLLDR KPDNFMTLSR LIDLLRRCGK LEDVPRFFLM AEKHNSRTKL
     EPGFQYCKGL HFWYTGEPND ALRHFNKARK DSDWGQNALY NMIEICLNPD NETIGGEVFE
     NLNGDLGTSP EKQESVQLAV RTAEKLLKEL KPQTVQGRLQ LRIMENCCLM ATKQKSSVEQ
     ALNTFTEIAA SEKDHIPALL GMATAYMILK QTPKARNQLK RIAKMPWNPI EAEDLEKSWL
     LLADIYIQSA KYDMAEELLK RCLCHNRSCC KAYEYMGYIM EKEQAYTDAA FNYEMAWKHS
     NQTNPAVGYK LAFNYLKAKR YVDAIDVCHQ VLEAHPTYPK IRKDILDKAR ASLRP
//