SLIK4_MOUSE
ID SLIK4_MOUSE Reviewed; 837 AA.
AC Q810B8; Q8BL56; Q8BWB0; Q8BYG4; Q8C056;
DT 13-APR-2004, integrated into UniProtKB/Swiss-Prot.
DT 29-MAR-2004, sequence version 2.
DT 03-AUG-2022, entry version 156.
DE RecName: Full=SLIT and NTRK-like protein 4;
DE Flags: Precursor;
GN Name=Slitrk4;
OS Mus musculus (Mouse).
OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia;
OC Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae;
OC Murinae; Mus; Mus.
OX NCBI_TaxID=10090 {ECO:0000312|EMBL:BAC67207.1};
RN [1] {ECO:0000305}
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA], FUNCTION, TISSUE SPECIFICITY, AND
RP DEVELOPMENTAL STAGE.
RX PubMed=14550773; DOI=10.1016/s1044-7431(03)00129-5;
RA Aruga J., Mikoshiba K.;
RT "Identification and characterization of Slitrk, a novel neuronal
RT transmembrane protein family controlling neurite outgrowth.";
RL Mol. Cell. Neurosci. 24:117-129(2003).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=C57BL/6J; TISSUE=Embryonic head, Olfactory bulb, and Spinal cord;
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., Davis M.J.,
RA Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R.,
RA Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T.,
RA Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A.,
RA Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B.,
RA Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M.,
RA Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S.,
RA Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E.,
RA Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D.,
RA Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M.,
RA Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H.,
RA Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V.,
RA Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S.,
RA Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H.,
RA Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N.,
RA Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F.,
RA Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G.,
RA Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z.,
RA Ringwald M., 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., Sperling S.,
RA Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K.,
RA Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R.,
RA van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H.,
RA Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M.,
RA Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C.,
RA Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S.,
RA Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K.,
RA Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M.,
RA Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C.,
RA Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A.,
RA Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.;
RT "The transcriptional landscape of the mammalian genome.";
RL Science 309:1559-1563(2005).
RN [3]
RP IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
RC TISSUE=Brain;
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 expression.";
RL Cell 143:1174-1189(2010).
RN [4]
RP INTERACTION WITH PTPRD.
RX PubMed=25989451; DOI=10.1038/srep09686;
RA Yamagata A., Sato Y., Goto-Ito S., Uemura T., Maeda A., Shiroshima T.,
RA Yoshida T., Fukai S.;
RT "Structure of Slitrk2-PTPdelta complex reveals mechanisms for splicing-
RT dependent trans-synaptic adhesion.";
RL Sci. Rep. 5:9686-9686(2015).
CC -!- FUNCTION: It is involved in synaptogenesis and promotes synapse
CC differentiation (By similarity). Suppresses neurite outgrowth
CC (PubMed:14550773). {ECO:0000250|UniProtKB:Q8IW52,
CC ECO:0000269|PubMed:14550773}.
CC -!- SUBUNIT: Interacts (via LRR 1 and 2 repeats) with PTPRD (via
CC extracellular domain).
CC -!- SUBCELLULAR LOCATION: Membrane {ECO:0000250|UniProtKB:Q8IW52}; Single-
CC pass type I membrane protein {ECO:0000250|UniProtKB:Q8IW52}. Cell
CC membrane {ECO:0000250|UniProtKB:Q8IW52}.
CC -!- TISSUE SPECIFICITY: In the adult, significant expression is detected
CC only in the brain. Broadly expressed in embryonic brain with highest
CC expression in subventricular zone, subplate, cortical plate, pyramidal
CC cell layer of hippocampus, thalamus and hypothalamus.
CC {ECO:0000269|PubMed:14550773}.
CC -!- DEVELOPMENTAL STAGE: In the embryo, expressed from day 10-12 and
CC continues through later gestational development and into adulthood.
CC {ECO:0000269|PubMed:14550773}.
CC -!- SIMILARITY: Belongs to the SLITRK family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=BAC67207.1; Type=Erroneous initiation; Evidence={ECO:0000305};
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DR EMBL; AB097573; BAC67207.1; ALT_INIT; Genomic_DNA.
DR EMBL; AK032263; BAC27786.1; -; mRNA.
DR EMBL; AK039763; BAC30442.1; -; mRNA.
DR EMBL; AK053065; BAC35254.1; -; mRNA.
DR CCDS; CCDS30167.1; -.
DR RefSeq; NP_848855.2; NM_178740.4.
DR RefSeq; XP_006528074.1; XM_006528011.1.
DR RefSeq; XP_006528076.1; XM_006528013.3.
DR RefSeq; XP_017173974.1; XM_017318485.1.
DR RefSeq; XP_017173975.1; XM_017318486.1.
DR RefSeq; XP_017173976.1; XM_017318487.1.
DR AlphaFoldDB; Q810B8; -.
DR SMR; Q810B8; -.
DR BioGRID; 232771; 1.
DR IntAct; Q810B8; 1.
DR STRING; 10090.ENSMUSP00000064443; -.
DR GlyGen; Q810B8; 3 sites.
DR iPTMnet; Q810B8; -.
DR PhosphoSitePlus; Q810B8; -.
DR EPD; Q810B8; -.
DR MaxQB; Q810B8; -.
DR PaxDb; Q810B8; -.
DR PRIDE; Q810B8; -.
DR ProteomicsDB; 258692; -.
DR Antibodypedia; 438; 249 antibodies from 32 providers.
DR DNASU; 245446; -.
DR Ensembl; ENSMUST00000069926; ENSMUSP00000064443; ENSMUSG00000046699.
DR Ensembl; ENSMUST00000114679; ENSMUSP00000110327; ENSMUSG00000046699.
DR GeneID; 245446; -.
DR KEGG; mmu:245446; -.
DR UCSC; uc009tio.1; mouse.
DR CTD; 139065; -.
DR MGI; MGI:2442509; Slitrk4.
DR VEuPathDB; HostDB:ENSMUSG00000046699; -.
DR eggNOG; ENOG502QQXQ; Eukaryota.
DR GeneTree; ENSGT00940000160971; -.
DR HOGENOM; CLU_012706_1_0_1; -.
DR InParanoid; Q810B8; -.
DR OMA; EPSMFIH; -.
DR OrthoDB; 217854at2759; -.
DR PhylomeDB; Q810B8; -.
DR TreeFam; TF326378; -.
DR Reactome; R-MMU-388844; Receptor-type tyrosine-protein phosphatases.
DR BioGRID-ORCS; 245446; 3 hits in 71 CRISPR screens.
DR ChiTaRS; Slitrk4; mouse.
DR PRO; PR:Q810B8; -.
DR Proteomes; UP000000589; Chromosome X.
DR RNAct; Q810B8; protein.
DR Bgee; ENSMUSG00000046699; Expressed in lateral septal nucleus and 131 other tissues.
DR ExpressionAtlas; Q810B8; baseline and differential.
DR Genevisible; Q810B8; MM.
DR GO; GO:0098978; C:glutamatergic synapse; ISO:MGI.
DR GO; GO:0016021; C:integral component of membrane; ISS:MGI.
DR GO; GO:0005886; C:plasma membrane; IEA:UniProtKB-SubCell.
DR GO; GO:0007409; P:axonogenesis; IDA:MGI.
DR GO; GO:0051965; P:positive regulation of synapse assembly; IDA:MGI.
DR GO; GO:1905606; P:regulation of presynapse assembly; IEA:InterPro.
DR GO; GO:0050807; P:regulation of synapse organization; ISO:MGI.
DR Gene3D; 3.80.10.10; -; 2.
DR InterPro; IPR000483; Cys-rich_flank_reg_C.
DR InterPro; IPR001611; Leu-rich_rpt.
DR InterPro; IPR003591; Leu-rich_rpt_typical-subtyp.
DR InterPro; IPR032675; LRR_dom_sf.
DR InterPro; IPR043326; Slitrk.
DR PANTHER; PTHR45773; PTHR45773; 1.
DR Pfam; PF13855; LRR_8; 2.
DR SMART; SM00369; LRR_TYP; 9.
DR SMART; SM00082; LRRCT; 2.
DR PROSITE; PS51450; LRR; 12.
PE 1: Evidence at protein level;
KW Cell membrane; Glycoprotein; Leucine-rich repeat; Membrane;
KW Reference proteome; Repeat; Signal; Transmembrane; Transmembrane helix.
FT SIGNAL 1..18
FT /evidence="ECO:0000255"
FT CHAIN 19..837
FT /note="SLIT and NTRK-like protein 4"
FT /evidence="ECO:0000255"
FT /id="PRO_0000032680"
FT TOPO_DOM 19..618
FT /note="Extracellular"
FT /evidence="ECO:0000255"
FT TRANSMEM 619..639
FT /note="Helical"
FT /evidence="ECO:0000255"
FT TOPO_DOM 640..837
FT /note="Cytoplasmic"
FT /evidence="ECO:0000255"
FT REPEAT 60..81
FT /note="LRR 1"
FT REPEAT 84..105
FT /note="LRR 2"
FT REPEAT 108..129
FT /note="LRR 3"
FT REPEAT 132..153
FT /note="LRR 4"
FT REPEAT 156..177
FT /note="LRR 5"
FT REPEAT 179..200
FT /note="LRR 6"
FT DOMAIN 213..264
FT /note="LRRCT 1"
FT DOMAIN 333..375
FT /note="LRRNT"
FT REPEAT 378..399
FT /note="LRR 7"
FT REPEAT 402..423
FT /note="LRR 8"
FT REPEAT 426..447
FT /note="LRR 9"
FT REPEAT 450..471
FT /note="LRR 10"
FT REPEAT 474..495
FT /note="LRR 11"
FT REPEAT 497..518
FT /note="LRR 12"
FT DOMAIN 531..582
FT /note="LRRCT 2"
FT CARBOHYD 81
FT /note="N-linked (GlcNAc...) asparagine"
FT /evidence="ECO:0000255"
FT CARBOHYD 325
FT /note="N-linked (GlcNAc...) asparagine"
FT /evidence="ECO:0000255"
FT CARBOHYD 423
FT /note="N-linked (GlcNAc...) asparagine"
FT /evidence="ECO:0000255"
FT CONFLICT 429
FT /note="R -> G (in Ref. 2; BAC27786)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 837 AA; 94538 MW; CCD3897E86B95ABC CRC64;
MFLWLFLIVS ALISSTNADS DISVEICNVC SCVSVENVLY VNCEKVSVYR PNQLKPPWSN
FYHLNFQNNF LNILYPNTFV NFSHAVSLHL GNNKLQNIEG GAFLGLSALK QLHLNNNELK
ILRADTFLGI ENLEYLQADY NLIKYIERGA FNKLHKLKVL ILNDNLISFL PDNIFRFASL
THLDIRGNRI QKLPYIGVLE HIGRVVELQL EDNPWNCSCD LLPLKAWLEN MPYNIYIGEA
ICETPSDLYG RLLKETNKQE LCPMGTGSDF DVRILPPSQQ ENGFTTPNGH TTQTTLHRLV
TKPPKTTNPS KISGIVAGKA LSNRNLSQIV SYQTRVPPLT PCPVPCFCKT HPSDLGLSVN
CQEKNIQSMS ELTPKPLNAK KLHVNGNNIK DVDISDFTEF EGLDLLHLGS NQITLIKGEV
FHNLTNLRRL YLNGNQIERL YPEIFSGLHN LQYLYLEYNL IKEILAGTFD SMPNLQLLYL
NNNLLKSLPV YIFSGAPLAR LNLRNNKFMY LPVSGVLDQL QSLTQIDLEG NPWDCTCDLV
ALKLWLEKLN DGIVVKELKC ETPVQFANIE LKSLKNEILC PKLLNKPSAT FTSPAPAITF
TTPLGPIRSP PGGPVPLSIL ILSILVVLIL TVFVAFCLLV FVLRRNKKPT VKHEGLGNSE
CGSMQLQLRK HDHKTNKKDG LSTEAFIPQT IEQMSKSHTC GLKESETGFM FSDPPGQKVM
MRNAADKDKD LLHVDTRKRL STIDELDELF PSRDSNVFIQ NFLESKKEYN SIGVSGFEIR
YPEKQQDKKN KKSLIGGNHS KIVVEQRKSE YFELKAKLQS SPDYLQVLEE QTALNKI
