LIGO4_HUMAN
ID LIGO4_HUMAN Reviewed; 593 AA.
AC Q6UY18;
DT 18-MAR-2008, integrated into UniProtKB/Swiss-Prot.
DT 05-JUL-2004, sequence version 1.
DT 03-AUG-2022, entry version 149.
DE RecName: Full=Leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 4;
DE AltName: Full=Leucine-rich repeat neuronal protein 6D;
DE Flags: Precursor;
GN Name=LINGO4; Synonyms=LRRN6D; ORFNames=UNQ9248/PRO34002;
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].
RX PubMed=12975309; DOI=10.1101/gr.1293003;
RA Clark H.F., Gurney A.L., Abaya E., Baker K., Baldwin D.T., Brush J.,
RA Chen J., Chow B., Chui C., Crowley C., Currell B., Deuel B., Dowd P.,
RA Eaton D., Foster J.S., Grimaldi C., Gu Q., Hass P.E., Heldens S., Huang A.,
RA Kim H.S., Klimowski L., Jin Y., Johnson S., Lee J., Lewis L., Liao D.,
RA Mark M.R., Robbie E., Sanchez C., Schoenfeld J., Seshagiri S., Simmons L.,
RA Singh J., Smith V., Stinson J., Vagts A., Vandlen R.L., Watanabe C.,
RA Wieand D., Woods K., Xie M.-H., Yansura D.G., Yi S., Yu G., Yuan J.,
RA Zhang M., Zhang Z., Goddard A.D., Wood W.I., Godowski P.J., Gray A.M.;
RT "The secreted protein discovery initiative (SPDI), a large-scale effort to
RT identify novel human secreted and transmembrane proteins: a bioinformatics
RT assessment.";
RL Genome Res. 13:2265-2270(2003).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RX PubMed=16710414; DOI=10.1038/nature04727;
RA Gregory S.G., Barlow K.F., McLay K.E., Kaul R., Swarbreck D., Dunham A.,
RA Scott C.E., Howe K.L., Woodfine K., Spencer C.C.A., Jones M.C., Gillson C.,
RA Searle S., Zhou Y., Kokocinski F., McDonald L., Evans R., Phillips K.,
RA Atkinson A., Cooper R., Jones C., Hall R.E., Andrews T.D., Lloyd C.,
RA Ainscough R., Almeida J.P., Ambrose K.D., Anderson F., Andrew R.W.,
RA Ashwell R.I.S., Aubin K., Babbage A.K., Bagguley C.L., Bailey J.,
RA Beasley H., Bethel G., Bird C.P., Bray-Allen S., Brown J.Y., Brown A.J.,
RA Buckley D., Burton J., Bye J., Carder C., Chapman J.C., Clark S.Y.,
RA Clarke G., Clee C., Cobley V., Collier R.E., Corby N., Coville G.J.,
RA Davies J., Deadman R., Dunn M., Earthrowl M., Ellington A.G., Errington H.,
RA Frankish A., Frankland J., French L., Garner P., Garnett J., Gay L.,
RA Ghori M.R.J., Gibson R., Gilby L.M., Gillett W., Glithero R.J.,
RA Grafham D.V., Griffiths C., Griffiths-Jones S., Grocock R., Hammond S.,
RA Harrison E.S.I., Hart E., Haugen E., Heath P.D., Holmes S., Holt K.,
RA Howden P.J., Hunt A.R., Hunt S.E., Hunter G., Isherwood J., James R.,
RA Johnson C., Johnson D., Joy A., Kay M., Kershaw J.K., Kibukawa M.,
RA Kimberley A.M., King A., Knights A.J., Lad H., Laird G., Lawlor S.,
RA Leongamornlert D.A., Lloyd D.M., Loveland J., Lovell J., Lush M.J.,
RA Lyne R., Martin S., Mashreghi-Mohammadi M., Matthews L., Matthews N.S.W.,
RA McLaren S., Milne S., Mistry S., Moore M.J.F., Nickerson T., O'Dell C.N.,
RA Oliver K., Palmeiri A., Palmer S.A., Parker A., Patel D., Pearce A.V.,
RA Peck A.I., Pelan S., Phelps K., Phillimore B.J., Plumb R., Rajan J.,
RA Raymond C., Rouse G., Saenphimmachak C., Sehra H.K., Sheridan E.,
RA Shownkeen R., Sims S., Skuce C.D., Smith M., Steward C., Subramanian S.,
RA Sycamore N., Tracey A., Tromans A., Van Helmond Z., Wall M., Wallis J.M.,
RA White S., Whitehead S.L., Wilkinson J.E., Willey D.L., Williams H.,
RA Wilming L., Wray P.W., Wu Z., Coulson A., Vaudin M., Sulston J.E.,
RA Durbin R.M., Hubbard T., Wooster R., Dunham I., Carter N.P., McVean G.,
RA Ross M.T., Harrow J., Olson M.V., Beck S., Rogers J., Bentley D.R.;
RT "The DNA sequence and biological annotation of human chromosome 1.";
RL Nature 441:315-321(2006).
CC -!- SUBCELLULAR LOCATION: Membrane {ECO:0000305}; Single-pass type I
CC membrane protein {ECO:0000305}.
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DR EMBL; AY358115; AAQ88482.1; -; mRNA.
DR EMBL; AL589765; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR CCDS; CCDS30855.1; -.
DR RefSeq; NP_001004432.1; NM_001004432.3.
DR AlphaFoldDB; Q6UY18; -.
DR SMR; Q6UY18; -.
DR IntAct; Q6UY18; 1.
DR STRING; 9606.ENSP00000357810; -.
DR GlyGen; Q6UY18; 6 sites.
DR iPTMnet; Q6UY18; -.
DR PhosphoSitePlus; Q6UY18; -.
DR BioMuta; LINGO4; -.
DR DMDM; 74762377; -.
DR PaxDb; Q6UY18; -.
DR PeptideAtlas; Q6UY18; -.
DR PRIDE; Q6UY18; -.
DR Antibodypedia; 34074; 86 antibodies from 17 providers.
DR DNASU; 339398; -.
DR Ensembl; ENST00000368820.4; ENSP00000357810.4; ENSG00000213171.3.
DR GeneID; 339398; -.
DR KEGG; hsa:339398; -.
DR MANE-Select; ENST00000368820.4; ENSP00000357810.4; NM_001004432.4; NP_001004432.1.
DR UCSC; uc001ezf.2; human.
DR CTD; 339398; -.
DR DisGeNET; 339398; -.
DR GeneCards; LINGO4; -.
DR HGNC; HGNC:31814; LINGO4.
DR HPA; ENSG00000213171; Tissue enhanced (skeletal muscle, tongue).
DR MIM; 609794; gene.
DR neXtProt; NX_Q6UY18; -.
DR OpenTargets; ENSG00000213171; -.
DR PharmGKB; PA162394098; -.
DR VEuPathDB; HostDB:ENSG00000213171; -.
DR eggNOG; KOG0619; Eukaryota.
DR GeneTree; ENSGT00940000162157; -.
DR HOGENOM; CLU_000288_18_24_1; -.
DR InParanoid; Q6UY18; -.
DR OMA; VLCAHRR; -.
DR OrthoDB; 428840at2759; -.
DR PhylomeDB; Q6UY18; -.
DR TreeFam; TF334360; -.
DR PathwayCommons; Q6UY18; -.
DR SignaLink; Q6UY18; -.
DR BioGRID-ORCS; 339398; 25 hits in 1065 CRISPR screens.
DR GenomeRNAi; 339398; -.
DR Pharos; Q6UY18; Tdark.
DR PRO; PR:Q6UY18; -.
DR Proteomes; UP000005640; Chromosome 1.
DR RNAct; Q6UY18; protein.
DR Bgee; ENSG00000213171; Expressed in gastrocnemius and 66 other tissues.
DR Genevisible; Q6UY18; HS.
DR GO; GO:0031012; C:extracellular matrix; IBA:GO_Central.
DR GO; GO:0005615; C:extracellular space; IBA:GO_Central.
DR GO; GO:0016021; C:integral component of membrane; IEA:UniProtKB-KW.
DR GO; GO:0051965; P:positive regulation of synapse assembly; IEA:Ensembl.
DR Gene3D; 2.60.40.10; -; 1.
DR Gene3D; 3.80.10.10; -; 1.
DR InterPro; IPR000483; Cys-rich_flank_reg_C.
DR InterPro; IPR007110; Ig-like_dom.
DR InterPro; IPR036179; Ig-like_dom_sf.
DR InterPro; IPR013783; Ig-like_fold.
DR InterPro; IPR013098; Ig_I-set.
DR InterPro; IPR003599; Ig_sub.
DR InterPro; IPR003598; Ig_sub2.
DR InterPro; IPR001611; Leu-rich_rpt.
DR InterPro; IPR003591; Leu-rich_rpt_typical-subtyp.
DR InterPro; IPR032675; LRR_dom_sf.
DR InterPro; IPR000372; LRRNT.
DR Pfam; PF07679; I-set; 1.
DR Pfam; PF13855; LRR_8; 4.
DR SMART; SM00409; IG; 1.
DR SMART; SM00408; IGc2; 1.
DR SMART; SM00369; LRR_TYP; 10.
DR SMART; SM00082; LRRCT; 1.
DR SMART; SM00013; LRRNT; 1.
DR SUPFAM; SSF48726; SSF48726; 1.
DR PROSITE; PS50835; IG_LIKE; 1.
DR PROSITE; PS51450; LRR; 8.
PE 2: Evidence at transcript level;
KW Disulfide bond; Glycoprotein; Immunoglobulin domain; Leucine-rich repeat;
KW Membrane; Reference proteome; Repeat; Signal; Transmembrane;
KW Transmembrane helix.
FT SIGNAL 1..28
FT /evidence="ECO:0000255"
FT CHAIN 29..593
FT /note="Leucine-rich repeat and immunoglobulin-like domain-
FT containing nogo receptor-interacting protein 4"
FT /id="PRO_0000324184"
FT TOPO_DOM 29..533
FT /note="Extracellular"
FT /evidence="ECO:0000255"
FT TRANSMEM 534..554
FT /note="Helical"
FT /evidence="ECO:0000255"
FT TOPO_DOM 555..593
FT /note="Cytoplasmic"
FT /evidence="ECO:0000255"
FT DOMAIN 29..60
FT /note="LRRNT"
FT REPEAT 61..82
FT /note="LRR 1"
FT REPEAT 85..106
FT /note="LRR 2"
FT REPEAT 109..130
FT /note="LRR 3"
FT REPEAT 133..154
FT /note="LRR 4"
FT REPEAT 157..178
FT /note="LRR 5"
FT REPEAT 181..202
FT /note="LRR 6"
FT REPEAT 210..231
FT /note="LRR 7"
FT REPEAT 253..274
FT /note="LRR 8"
FT REPEAT 277..298
FT /note="LRR 9"
FT REPEAT 301..322
FT /note="LRR 10"
FT REPEAT 325..346
FT /note="LRR 11"
FT DOMAIN 358..412
FT /note="LRRCT"
FT DOMAIN 412..502
FT /note="Ig-like C2-type"
FT CARBOHYD 191
FT /note="N-linked (GlcNAc...) asparagine"
FT /evidence="ECO:0000255"
FT CARBOHYD 253
FT /note="N-linked (GlcNAc...) asparagine"
FT /evidence="ECO:0000255"
FT CARBOHYD 263
FT /note="N-linked (GlcNAc...) asparagine"
FT /evidence="ECO:0000255"
FT CARBOHYD 492
FT /note="N-linked (GlcNAc...) asparagine"
FT /evidence="ECO:0000255"
FT CARBOHYD 508
FT /note="N-linked (GlcNAc...) asparagine"
FT /evidence="ECO:0000255"
FT CARBOHYD 515
FT /note="N-linked (GlcNAc...) asparagine"
FT /evidence="ECO:0000255"
FT DISULFID 435..484
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00114"
SQ SEQUENCE 593 AA; 63774 MW; 47514FD64574FA71 CRC64;
MDAATAPKQA WPPWPPLLFL LLLPGGSGGS CPAVCDCTSQ PQAVLCGHRQ LEAVPGGLPL
DTELLDLSGN RLWGLQQGML SRLSLLQELD LSYNQLSTLE PGAFHGLQSL LTLRLQGNRL
RIMGPGVFSG LSALTLLDLR LNQIVLFLDG AFGELGSLQK LEVGDNHLVF VAPGAFAGLA
KLSTLTLERC NLSTVPGLAL ARLPALVALR LRELDIGRLP AGALRGLGQL KELEIHLWPS
LEALDPGSLV GLNLSSLAIT RCNLSSVPFQ ALYHLSFLRV LDLSQNPISA IPARRLSPLV
RLQELRLSGA CLTSIAAHAF HGLTAFHLLD VADNALQTLE ETAFPSPDKL VTLRLSGNPL
TCDCRLLWLL RLRRHLDFGM SPPACAGPHH VQGKSLKEFS DILPPGHFTC KPALIRKSGP
RWVIAEEGGH AVFSCSGDGD PAPTVSWMRP HGAWLGRAGR VRVLEDGTLE IRSVQLRDRG
AYVCVVSNVA GNDSLRTWLE VIQVEPPNGT LSDPNITVPG IPGPFFLDSR GVAMVLAVGF
LPFLTSVTLC FGLIALWSKG KGRVKHHMTF DFVAPRPSGD KNSGGNRVTA KLF
