ID IFT56_HUMAN Reviewed; 554 AA. AC A0AVF1; A4D1S3; B7Z5M0; C9J2N7; F8W724; Q9H9S8; Q9NTC0; DT 29-MAY-2007, integrated into UniProtKB/Swiss-Prot. DT 28-NOV-2006, sequence version 1. DT 27-MAR-2024, entry version 143. DE RecName: Full=Intraflagellar transport protein 56 {ECO:0000305}; DE AltName: Full=Tetratricopeptide repeat protein 26 {ECO:0000312|HGNC:HGNC:21882}; DE Short=TPR repeat protein 26 {ECO:0000312|HGNC:HGNC:21882}; GN Name=IFT56 {ECO:0000312|HGNC:HGNC:21882}; Synonyms=TTC26; OS Homo sapiens (Human). OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; OC Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; OC Homo. OX NCBI_TaxID=9606; RN [1] RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 3). RX PubMed=14702039; DOI=10.1038/ng1285; RA Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., RA Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., RA Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S., RA Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., RA Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., RA Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., RA Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., RA Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., RA Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., RA Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., RA Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., RA Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., RA Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., RA Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., RA Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., RA Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., RA Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., RA Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., RA Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., RA Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., RA Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., RA Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., RA Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., RA Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., RA Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., RA Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., RA Isogai T., Sugano S.; RT "Complete sequencing and characterization of 21,243 full-length human RT cDNAs."; RL Nat. Genet. 36:40-45(2004). RN [2] RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. RX PubMed=12690205; DOI=10.1126/science.1083423; RA Scherer S.W., Cheung J., MacDonald J.R., Osborne L.R., Nakabayashi K., RA Herbrick J.-A., Carson A.R., Parker-Katiraee L., Skaug J., Khaja R., RA Zhang J., Hudek A.K., Li M., Haddad M., Duggan G.E., Fernandez B.A., RA Kanematsu E., Gentles S., Christopoulos C.C., Choufani S., Kwasnicka D., RA Zheng X.H., Lai Z., Nusskern D.R., Zhang Q., Gu Z., Lu F., Zeesman S., RA Nowaczyk M.J., Teshima I., Chitayat D., Shuman C., Weksberg R., RA Zackai E.H., Grebe T.A., Cox S.R., Kirkpatrick S.J., Rahman N., RA Friedman J.M., Heng H.H.Q., Pelicci P.G., Lo-Coco F., Belloni E., RA Shaffer L.G., Pober B., Morton C.C., Gusella J.F., Bruns G.A.P., Korf B.R., RA Quade B.J., Ligon A.H., Ferguson H., Higgins A.W., Leach N.T., RA Herrick S.R., Lemyre E., Farra C.G., Kim H.-G., Summers A.M., Gripp K.W., RA Roberts W., Szatmari P., Winsor E.J.T., Grzeschik K.-H., Teebi A., RA Minassian B.A., Kere J., Armengol L., Pujana M.A., Estivill X., RA Wilson M.D., Koop B.F., Tosi S., Moore G.E., Boright A.P., Zlotorynski E., RA Kerem B., Kroisel P.M., Petek E., Oscier D.G., Mould S.J., Doehner H., RA Doehner K., Rommens J.M., Vincent J.B., Venter J.C., Li P.W., Mural R.J., RA Adams M.D., Tsui L.-C.; RT "Human chromosome 7: DNA sequence and biology."; RL Science 300:767-772(2003). RN [3] RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. RX PubMed=12853948; DOI=10.1038/nature01782; RA Hillier L.W., Fulton R.S., Fulton L.A., Graves T.A., Pepin K.H., RA Wagner-McPherson C., Layman D., Maas J., Jaeger S., Walker R., Wylie K., RA Sekhon M., Becker M.C., O'Laughlin M.D., Schaller M.E., Fewell G.A., RA Delehaunty K.D., Miner T.L., Nash W.E., Cordes M., Du H., Sun H., RA Edwards J., Bradshaw-Cordum H., Ali J., Andrews S., Isak A., Vanbrunt A., RA Nguyen C., Du F., Lamar B., Courtney L., Kalicki J., Ozersky P., RA Bielicki L., Scott K., Holmes A., Harkins R., Harris A., Strong C.M., RA Hou S., Tomlinson C., Dauphin-Kohlberg S., Kozlowicz-Reilly A., Leonard S., RA Rohlfing T., Rock S.M., Tin-Wollam A.-M., Abbott A., Minx P., Maupin R., RA Strowmatt C., Latreille P., Miller N., Johnson D., Murray J., RA Woessner J.P., Wendl M.C., Yang S.-P., Schultz B.R., Wallis J.W., RA Spieth J., Bieri T.A., Nelson J.O., Berkowicz N., Wohldmann P.E., RA Cook L.L., Hickenbotham M.T., Eldred J., Williams D., Bedell J.A., RA Mardis E.R., Clifton S.W., Chissoe S.L., Marra M.A., Raymond C., Haugen E., RA Gillett W., Zhou Y., James R., Phelps K., Iadanoto S., Bubb K., Simms E., RA Levy R., Clendenning J., Kaul R., Kent W.J., Furey T.S., Baertsch R.A., RA Brent M.R., Keibler E., Flicek P., Bork P., Suyama M., Bailey J.A., RA Portnoy M.E., Torrents D., Chinwalla A.T., Gish W.R., Eddy S.R., RA McPherson J.D., Olson M.V., Eichler E.E., Green E.D., Waterston R.H., RA Wilson R.K.; RT "The DNA sequence of human chromosome 7."; RL Nature 424:157-164(2003). RN [4] RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2). RC TISSUE=Brain; RX PubMed=15489334; DOI=10.1101/gr.2596504; RG The MGC Project Team; RT "The status, quality, and expansion of the NIH full-length cDNA project: RT the Mammalian Gene Collection (MGC)."; RL Genome Res. 14:2121-2127(2004). RN [5] RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1-335 (ISOFORM 1/2). RC TISSUE=Testis; RX PubMed=17974005; DOI=10.1186/1471-2164-8-399; RA Bechtel S., Rosenfelder H., Duda A., Schmidt C.P., Ernst U., RA Wellenreuther R., Mehrle A., Schuster C., Bahr A., Bloecker H., Heubner D., RA Hoerlein A., Michel G., Wedler H., Koehrer K., Ottenwaelder B., Poustka A., RA Wiemann S., Schupp I.; RT "The full-ORF clone resource of the German cDNA consortium."; RL BMC Genomics 8:399-399(2007). RN [6] RP INVOLVEMENT IN BRENS, AND VARIANT BRENS SER-263. RX PubMed=32617964; DOI=10.1111/cge.13805; RA David O., Eskin-Schwartz M., Ling G., Dolgin V., Kristal E., Benkowitz E., RA Osyntsov L., Gradstein L., Birk O.S., Loewenthal N., Yerushalmi B.; RT "Pituitary stalk interruption syndrome broadens the clinical spectrum of RT the TTC26 ciliopathy."; RL Clin. Genet. 98:303-307(2020). RN [7] RP VARIANTS BRENS SER-263 AND LEU-444, CHARACTERIZATION OF VARIANT BRENS RP SER-263, AND FUNCTION. RX PubMed=31595528; DOI=10.1002/hep.30982; RA Shaheen R., Alsahli S., Ewida N., Alzahrani F., Shamseldin H.E., Patel N., RA Al Qahtani A., Alhebbi H., Alhashem A., Al-Sheddi T., Alomar R., RA Alobeid E., Abouelhoda M., Monies D., Al-Hussaini A., Alzouman M.A., RA Shagrani M., Faqeih E., Alkuraya F.S.; RT "Biallelic Mutations in Tetratricopeptide Repeat Domain 26 (Intraflagellar RT Transport 56) Cause Severe Biliary Ciliopathy in Humans."; RL Hepatology 71:2067-2079(2020). CC -!- FUNCTION: Component of the intraflagellar transport (IFT) complex B CC required for transport of proteins in the motile cilium. Required for CC transport of specific ciliary cargo proteins related to motility, while CC it is neither required for IFT complex B assembly or motion nor for CC cilium assembly. Required for efficient coupling between the CC accumulation of GLI2 and GLI3 at the ciliary tips and their CC dissociation from the negative regulator SUFU. Plays a key role in CC maintaining the integrity of the IFT complex B and the proper ciliary CC localization of the IFT complex B components. Not required for IFT CC complex A ciliary localization or function. Essential for maintaining CC proper microtubule organization within the ciliary axoneme. CC {ECO:0000269|PubMed:31595528}. CC -!- SUBUNIT: Component of the IFT complex B. Interacts with IFT46; the CC interaction is direct. {ECO:0000250|UniProtKB:Q8BS45}. CC -!- SUBCELLULAR LOCATION: Cell projection, cilium CC {ECO:0000250|UniProtKB:Q8BS45}. Note=Localizes at the base to the CC ciliary transition zone. {ECO:0000250|UniProtKB:Q8BS45}. CC -!- ALTERNATIVE PRODUCTS: CC Event=Alternative splicing; Named isoforms=3; CC Name=1; CC IsoId=A0AVF1-1; Sequence=Displayed; CC Name=2; CC IsoId=A0AVF1-2; Sequence=VSP_043751; CC Name=3; CC IsoId=A0AVF1-3; Sequence=VSP_044791; CC -!- DISEASE: Biliary, renal, neurologic, and skeletal syndrome (BRENS) CC [MIM:619534]: An autosomal recessive ciliopathy with multisystemic CC manifestations including severe neonatal cholestasis that progresses to CC liver fibrosis and cirrhosis, postaxial polydactyly, hydrocephalus, CC retinal abnormalities, and situs inversus. Additional features may CC include congenital cardiac defects, echogenic kidneys with renal CC failure, ocular abnormalities, joint hyperextensibility, and dysmorphic CC facial features. Some patients have global developmental delay. Brain CC imaging typically shows dilated ventricles, hypomyelination, and white CC matter abnormalities, although some patients have been described with CC abnormal pituitary development. {ECO:0000269|PubMed:31595528, CC ECO:0000269|PubMed:32617964}. Note=The disease is caused by variants CC affecting the gene represented in this entry. CC -!- SIMILARITY: Belongs to the IFT56 family. {ECO:0000305}. CC -!- SEQUENCE CAUTION: CC Sequence=EAL24039.1; Type=Erroneous initiation; Note=Truncated N-terminus.; Evidence={ECO:0000305}; 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; AK022633; BAB14143.1; -; mRNA. DR EMBL; AK299132; BAH12956.1; -; mRNA. DR EMBL; AC009220; -; NOT_ANNOTATED_CDS; Genomic_DNA. DR EMBL; AC018644; -; NOT_ANNOTATED_CDS; Genomic_DNA. DR EMBL; CH236950; EAL24039.1; ALT_INIT; Genomic_DNA. DR EMBL; BC126331; AAI26332.1; -; mRNA. DR EMBL; BC130339; AAI30340.1; -; mRNA. DR EMBL; BC144151; -; NOT_ANNOTATED_CDS; mRNA. DR EMBL; AL137393; CAB70721.2; -; mRNA. DR CCDS; CCDS55172.1; -. [A0AVF1-2] DR CCDS; CCDS55173.1; -. [A0AVF1-3] DR CCDS; CCDS5852.1; -. [A0AVF1-1] DR PIR; T46452; T46452. DR RefSeq; NP_001138392.1; NM_001144920.2. [A0AVF1-2] DR RefSeq; NP_001138395.1; NM_001144923.2. [A0AVF1-3] DR RefSeq; NP_079202.2; NM_024926.3. [A0AVF1-1] DR AlphaFoldDB; A0AVF1; -. DR SMR; A0AVF1; -. DR BioGRID; 123052; 96. DR ComplexPortal; CPX-5022; Intraflagellar transport complex B. DR CORUM; A0AVF1; -. DR IntAct; A0AVF1; 19. DR MINT; A0AVF1; -. DR STRING; 9606.ENSP00000419279; -. DR TCDB; 1.X.1.1.1; the intraflagellar transporter-a complex (ift-a) family. DR iPTMnet; A0AVF1; -. DR PhosphoSitePlus; A0AVF1; -. DR BioMuta; TTC26; -. DR EPD; A0AVF1; -. DR jPOST; A0AVF1; -. DR MassIVE; A0AVF1; -. DR MaxQB; A0AVF1; -. DR PaxDb; 9606-ENSP00000419279; -. DR PeptideAtlas; A0AVF1; -. DR ProteomicsDB; 16; -. [A0AVF1-1] DR ProteomicsDB; 17; -. [A0AVF1-2] DR ProteomicsDB; 29874; -. DR Pumba; A0AVF1; -. DR Antibodypedia; 52471; 107 antibodies from 18 providers. DR DNASU; 79989; -. DR Ensembl; ENST00000343187.8; ENSP00000339135.4; ENSG00000105948.13. [A0AVF1-3] DR Ensembl; ENST00000430935.5; ENSP00000410655.1; ENSG00000105948.13. [A0AVF1-2] DR Ensembl; ENST00000464848.5; ENSP00000419279.1; ENSG00000105948.13. [A0AVF1-1] DR GeneID; 79989; -. DR KEGG; hsa:79989; -. DR MANE-Select; ENST00000464848.5; ENSP00000419279.1; NM_024926.4; NP_079202.2. DR UCSC; uc003vus.4; human. [A0AVF1-1] DR AGR; HGNC:21882; -. DR CTD; 79989; -. DR DisGeNET; 79989; -. DR GeneCards; IFT56; -. DR HGNC; HGNC:21882; IFT56. DR HPA; ENSG00000105948; Low tissue specificity. DR MalaCards; IFT56; -. DR MIM; 617453; gene. DR MIM; 619534; phenotype. DR neXtProt; NX_A0AVF1; -. DR OpenTargets; ENSG00000105948; -. DR PharmGKB; PA144596245; -. DR VEuPathDB; HostDB:ENSG00000105948; -. DR eggNOG; KOG3785; Eukaryota. DR GeneTree; ENSGT00390000000159; -. DR HOGENOM; CLU_036306_2_0_1; -. DR InParanoid; A0AVF1; -. DR OMA; FIIRRDY; -. DR OrthoDB; 5473627at2759; -. DR PhylomeDB; A0AVF1; -. DR TreeFam; TF105816; -. DR PathwayCommons; A0AVF1; -. DR Reactome; R-HSA-5620924; Intraflagellar transport. DR SignaLink; A0AVF1; -. DR BioGRID-ORCS; 79989; 5 hits in 1150 CRISPR screens. DR ChiTaRS; TTC26; human. DR GenomeRNAi; 79989; -. DR Pharos; A0AVF1; Tbio. DR PRO; PR:A0AVF1; -. DR Proteomes; UP000005640; Chromosome 7. DR RNAct; A0AVF1; Protein. DR Bgee; ENSG00000105948; Expressed in bronchial epithelial cell and 120 other cell types or tissues. DR ExpressionAtlas; A0AVF1; baseline and differential. DR GO; GO:0005813; C:centrosome; IEA:Ensembl. DR GO; GO:0036064; C:ciliary basal body; IBA:GO_Central. DR GO; GO:0097546; C:ciliary base; IBA:GO_Central. DR GO; GO:0097542; C:ciliary tip; TAS:Reactome. DR GO; GO:0005929; C:cilium; IMP:UniProtKB. DR GO; GO:0030992; C:intraciliary transport particle B; IPI:ComplexPortal. DR GO; GO:0043005; C:neuron projection; IEA:Ensembl. DR GO; GO:0120170; F:intraciliary transport particle B binding; IBA:GO_Central. DR GO; GO:0035082; P:axoneme assembly; ISS:UniProtKB. DR GO; GO:0060271; P:cilium assembly; IMP:UniProtKB. DR GO; GO:0035720; P:intraciliary anterograde transport; IBA:GO_Central. DR GO; GO:0042073; P:intraciliary transport; ISS:UniProtKB. DR GO; GO:0035735; P:intraciliary transport involved in cilium assembly; IBA:GO_Central. DR GO; GO:1905198; P:manchette assembly; IEA:Ensembl. DR GO; GO:0061512; P:protein localization to cilium; ISS:UniProtKB. DR GO; GO:0015031; P:protein transport; IEA:UniProtKB-KW. DR GO; GO:0007224; P:smoothened signaling pathway; ISS:UniProtKB. DR Gene3D; 1.25.40.10; Tetratricopeptide repeat domain; 3. DR InterPro; IPR011990; TPR-like_helical_dom_sf. DR InterPro; IPR019734; TPR_repeat. DR InterPro; IPR030511; TTC26. DR PANTHER; PTHR14781:SF0; INTRAFLAGELLAR TRANSPORT PROTEIN 56; 1. DR PANTHER; PTHR14781; UNCHARACTERIZED; 1. DR Pfam; PF12895; ANAPC3; 1. DR SMART; SM00028; TPR; 5. DR SUPFAM; SSF48452; TPR-like; 2. DR PROSITE; PS50293; TPR_REGION; 2. DR Genevisible; A0AVF1; HS. PE 1: Evidence at protein level; KW Alternative splicing; Cell projection; Ciliopathy; Cilium; Disease variant; KW Protein transport; Reference proteome; Repeat; TPR repeat; Transport. FT CHAIN 1..554 FT /note="Intraflagellar transport protein 56" FT /id="PRO_0000289082" FT REPEAT 57..90 FT /note="TPR 1" FT REPEAT 92..125 FT /note="TPR 2" FT REPEAT 151..184 FT /note="TPR 3" FT REPEAT 468..501 FT /note="TPR 4" FT REGION 1..24 FT /note="Disordered" FT /evidence="ECO:0000256|SAM:MobiDB-lite" FT VAR_SEQ 47..77 FT /note="Missing (in isoform 3)" FT /evidence="ECO:0000303|PubMed:14702039" FT /id="VSP_044791" FT VAR_SEQ 474..554 FT /note="MGQFYYSAKAFDVLERLDPNPEYWEGKRGACVGIFQMIIAGREPKETLREVL FT HLLRSTGNTQVEYMIRIMKKWAKENRVSI -> RDPSRSAPFTEKHR (in isoform FT 2)" FT /evidence="ECO:0000303|PubMed:15489334" FT /id="VSP_043751" FT VARIANT 263 FT /note="N -> S (in BRENS; decreased protein abundance; FT associated with abnormal ciliary structure and function)" FT /evidence="ECO:0000269|PubMed:31595528, FT ECO:0000269|PubMed:32617964" FT /id="VAR_086383" FT VARIANT 310 FT /note="D -> N (in dbSNP:rs13225917)" FT /id="VAR_032568" FT VARIANT 444 FT /note="P -> L (in BRENS; uncertain significance)" FT /evidence="ECO:0000269|PubMed:31595528" FT /id="VAR_086384" FT CONFLICT 85 FT /note="K -> E (in Ref. 1; BAB14143)" FT /evidence="ECO:0000305" FT CONFLICT 271 FT /note="E -> V (in Ref. 1; BAH12956)" FT /evidence="ECO:0000305" FT CONFLICT 470 FT /note="D -> V (in Ref. 1; BAB14143)" FT /evidence="ECO:0000305" SQ SEQUENCE 554 AA; 64178 MW; 188062024DB89B97 CRC64; MMLSRAKPAV GRGVQHTDKR KKKGRKIPKL EELLSKRDFT GAITLLEFKR HVGEEEEDTN LWIGYCAFHL GDYKRALEEY ENATKEENCN SEVWVNLACT YFFLGMYKQA EAAGFKASKS RLQNRLLFHL AHKFNDEKKL MSFHQNLQDV TEDQLSLASI HYMRSHYQEA IDIYKRILLD NREYLALNVY VALCYYKLDY YDVSQEVLAV YLQQIPDSTI ALNLKACNHF RLYNGRAAEA ELKSLMDNAS SSFEFAKELI RHNLVVFRGG EGALQVLPPL VDVIPEARLN LVIYYLRQDD VQEAYNLIKD LEPTTPQEYI LKGVVNAALG QEMGSRDHMK IAQQFFQLVG GSASECDTIP GRQCMASCFF LLKQFDDVLI YLNSFKSYFY NDDIFNFNYA QAKAATGNTS EGEEAFLLIQ SEKMKNDYIY LSWLARCYIM NKKPRLAWEL YLKMETSGES FSLLQLIAND CYKMGQFYYS AKAFDVLERL DPNPEYWEGK RGACVGIFQM IIAGREPKET LREVLHLLRS TGNTQVEYMI RIMKKWAKEN RVSI //