Reviewed, UniProtKB/Swiss-Prot Q9D1T0 (LIGO1_MOUSE)

Names and origin

Protein names

Recommended name:
    Leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 1
Alternative name(s):
    Leucine-rich repeat neuronal protein 6A
    Leucine-rich repeat neuronal protein 1

Gene names

Name:	Lingo1
Synonyms:	Lern1, Lrrn6a

Organism

Mus musculus (Mouse)

Taxonomic identifier

10090 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Mus

Protein attributes

Sequence length	614 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	Functional component of the Nogo receptor signaling complex (RTN4R/NGFR) in RhoA activation responsible for some inhibition of axonal regeneration by myelin-associated factors. Is also an important negative regulator of oligodentrocyte differentiation and axonal myelination By similarity.
Subunit structure	Homotetramer. Forms ternary complex with RTN4R/NGFR and RTN4R/TNFRSF19 By similarity.
Subcellular location	Cell membrane; Single-pass type I membrane protein. Ref.4
Tissue specificity	Highly specific expression in the central nervous system. Predominant expression in neocortex, amygdala, hippocampus, thalamus and entorhinal cortex, with lower levels in cerebellum and basal nuclei. Ref.4 Ref.3
Developmental stage	Expressed broadly at high levels in the whole embryo and becomes progressively restricted to the central nervous system by E14.5. Extensively expressed across the central nervous system through late embryogenesis and during postnatal development, with a peak of expression around the first week after birth. Ref.4 Ref.3
Induction	Up-regulated in brain from MPTP-intoxicated mice, a model for Parkinson disease. Ref.5
Domain	The intracellular domain of LINGO1 interact with MYT1L.
Post-translational modification	N-glycosylated. Contains predominantly high-mannose glycans By similarity.
Disruption phenotype	In mice lacking Lingo1 and MPTP-intoxicated, a model for Parkinson disease, the dopaminergic neurons survival is increased and behavioral abnormalities reduced. Ref.5
Sequence similarities	Contains 1 Ig-like C2-type (immunoglobulin-like) domain. Contains 13 LRR (leucine-rich) repeats.

Ontologies

Keywords
Cellular component	Cell membrane Membrane
Domain	Immunoglobulin domain Leucine-rich repeat Repeat Signal Transmembrane
PTM	Disulfide bond Glycoprotein Phosphoprotein
Gene Ontology (GO)
Biological process	central nervous system neuron development Ref.5 Inferred from direct assay. Source: MGI negative regulation of oligodendrocyte differentiation Inferred from mutant phenotype. Source: MGI neuron projection development Ref.5 Inferred from direct assay. Source: MGI protein kinase B signaling cascade Ref.5 Inferred from direct assay. Source: MGI
Cellular component	integral to membrane Inferred from electronic annotation. Source: UniProtKB-SubCell plasma membrane Inferred from electronic annotation. Source: UniProtKB-KW
Molecular function	epidermal growth factor receptor binding Ref.5 Inferred from physical interaction. Source: MGI
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
App	P12023	1	EBI-2012981,EBI-78814

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Signal peptide	1 – 35	35	Potential
	Chain	36 – 614	579	Leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 1		PRO_0000328643
Regions
	Topological domain	36 – 555	520	Extracellular Potential
	Transmembrane	556 – 576	21	Potential
	Topological domain	577 – 614	38	Cytoplasmic Potential
	Repeat	64 – 87	24	LRR 1
	Repeat	88 – 111	24	LRR 2
	Repeat	112 – 135	24	LRR 3
	Repeat	137 – 159	23	LRR 4
	Repeat	160 – 183	24	LRR 5
	Repeat	184 – 207	24	LRR 6
	Repeat	209 – 231	23	LRR 7
	Repeat	256 – 279	24	LRR 8
	Repeat	280 – 303	24	LRR 9
	Repeat	305 – 327	23	LRR 10
	Repeat	328 – 351	24	LRR 11
	Repeat	353 – 377	25	LRR 12
	Domain	405 – 507	103	Ig-like C2-type
	Repeat	453 – 478	26	LRR 13
Amino acid modifications
	Modified residue	596	1	Phosphoserine Ref.6
	Glycosylation	138	1	N-linked (GlcNAc...) Potential
	Glycosylation	196	1	N-linked (GlcNAc...) Potential
	Glycosylation	258	1	N-linked (GlcNAc...) Potential
	Glycosylation	268	1	N-linked (GlcNAc...) Potential
	Glycosylation	287	1	N-linked (GlcNAc...) Potential
	Glycosylation	335	1	N-linked (GlcNAc...) Potential
	Glycosylation	486	1	N-linked (GlcNAc...) Potential
	Glycosylation	536	1	N-linked (GlcNAc...) Potential
	Disulfide bond	36 ↔ 42		By similarity
	Disulfide bond	40 ↔ 51		By similarity
	Disulfide bond	367 ↔ 390		By similarity
	Disulfide bond	369 ↔ 415		By similarity
	Disulfide bond	440 ↔ 491		By similarity
Experimental info
	Sequence conflict	491	1	C → G in AAQ97219. Ref.3

Sequences

	Sequence		Length	Mass (Da)
	Q9D1T0-1 [UniParc]. Last modified June 1, 2001. Version 1. Checksum: 41CFF40C21335681	FASTA	614	69,101
	10 20 30 40 50 60 MLAGGMRSMP SPLLACWQPI LLLVLGSVLS GSATGCPPRC ECSAQDRAVL CHRKRFVAVP 70 80 90 100 110 120 EGIPTETRLL DLGKNRIKTL NQDEFASFPH LEELELNENI VSAVEPGAFN NLFNLRTLGL 130 140 150 160 170 180 RSNRLKLIPL GVFTGLSNLT KLDISENKIV ILLDYMFQDL YNLKSLEVGD NDLVYISHRA 190 200 210 220 230 240 FSGLNSLEQL TLEKCNLTSI PTEALSHLHG LIVLRLRHLN INAIRDYSFK RLYRLKVLEI 250 260 270 280 290 300 SHWPYLDTMT PNCLYGLNLT SLSITHCNLT AVPYLAVRHL VYLRFLNLSY NPIGTIEGSM 310 320 330 340 350 360 LHELLRLQEI QLVGGQLAVV EPYAFRGLNY LRVLNVSGNQ LTTLEESAFH SVGNLETLIL 370 380 390 400 410 420 DSNPLACDCR LLWVFRRRWR LNFNRQQPTC ATPEFVQGKE FKDFPDVLLP NYFTCRRAHI 430 440 450 460 470 480 RDRKAQQVFV DEGHTVQFVC RADGDPPPAI LWLSPRKHLV SAKSNGRLTV FPDGTLEVRY 490 500 510 520 530 540 AQVQDNGTYL CIAANAGGND SMPAHLHVRS YSPDWPHQPN KTFAFISNQP GEGEANSTRA 550 560 570 580 590 600 TVPFPFDIKT LIIATTMGFI SFLGVVLFCL VLLFLWSRGK GNTKHNIEIE YVPRKSDAGI 610 SSADAPRKFN MKMI

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The transcriptional landscape of the mammalian genome." 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. Science 309:1559-1563(2005) [PubMed: 16141072] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Strain: C57BL/6J. Tissue: Testis.
[2]	"The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)." The MGC Project Team Genome Res. 14:2121-2127(2004) [PubMed: 15489334] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Strain: C57BL/6. Tissue: Brain.
[3]	"LRRN6A/LERN1 (leucine-rich repeat neuronal protein 1), a novel gene with enriched expression in limbic system and neocortex." Carim-Todd L., Escarceller M., Estivill X., Sumoy L. Eur. J. Neurosci. 18:3167-3182(2003) [PubMed: 14686891] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 411-614, DEVELOPMENTAL STAGE, TISSUE SPECIFICITY.
[4]	"Developmental analysis of Lingo-1/Lern1 protein expression in the mouse brain: Interaction of its intracellular domain with Myt1l." Llorens F., Gil V., Iraola S., Carim-Todd L., Marti E., Estivill X., Soriano E., Del Rio J.A., Sumoy L. Dev. Neurobiol. 68:521-541(2008) [PubMed: 18186492] [Abstract] Cited for: TISSUE SPECIFICITY, DEVELOPMENTAL STAGE, SUBCELLULAR LOCATION, INTERACTION WITH NGRF; RTN4R AND MYT1L.
[5]	"Inhibition of the leucine-rich repeat protein LINGO-1 enhances survival, structure, and function of dopaminergic neurons in Parkinson's disease models." Inoue H., Lin L., Lee X., Shao Z., Mendes S., Snodgrass-Belt P., Sweigard H., Engber T., Pepinsky B., Yang L., Beal M.F., Mi S., Isacson O. Proc. Natl. Acad. Sci. U.S.A. 104:14430-14435(2007) [PubMed: 17726113] [Abstract] Cited for: INDUCTION, DISRUPTION PHENOTYPE.
[6]	"Qualitative and quantitative analyses of protein phosphorylation in naive and stimulated mouse synaptosomal preparations." Munton R.P., Tweedie-Cullen R., Livingstone-Zatchej M., Weinandy F., Waidelich M., Longo D., Gehrig P., Potthast F., Rutishauser D., Gerrits B., Panse C., Schlapbach R., Mansuy I.M. Mol. Cell. Proteomics 6:283-293(2007) [PubMed: 17114649] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-596, MASS SPECTROMETRY. Tissue: Brain cortex.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBLGenBankDDBJ	AK027262 mRNA. Translation: BAB32403.1. AK163538 mRNA. Translation: BAE37388.1. BC052384 mRNA. Translation: AAH52384.2. BC065696 mRNA. Translation: AAH65696.1. AY324324 mRNA. Translation: AAQ97219.1.
IPI	IPI00134200.
RefSeq	NP_851419.1.
UniGene	Mm.246605
3D structure databases
HSSP	HSSP built from PDB template 1OZN based on UniProtKB Q9BZR6.
SMR	Q9D1T0. Positions 36-508.
ModBase	Search...
Protein-protein interaction databases
IntAct	Q9D1T0. 1 interaction.
STRING	Q9D1T0.
PTM databases
PhosphoSite	Q9D1T0.
Proteomic databases
PRIDE	Q9D1T0.
Genome annotation databases
Ensembl	ENSMUST00000053568; ENSMUSP00000059050; ENSMUSG00000049556; Mus musculus. [Genome view] ENSMUST00000114247; ENSMUSP00000109885; ENSMUSG00000049556; Mus musculus. [Genome view] ENSMUST00000114256; ENSMUSP00000109894; ENSMUSG00000049556; Mus musculus. [Genome view]
GeneID	235402.
KEGG	mmu:235402.
UCSC	uc009pth.1. mouse.
Organism-specific databases
CTD	235402.
MGI	MGI:1915522. Lingo1.
Phylogenomic databases
HOGENOM	Q9D1T0.
HOVERGEN	Q9D1T0.
Gene expression databases
ArrayExpress	Q9D1T0.
Bgee	Q9D1T0.
Genevestigator	Q9D1T0.
Family and domain databases
InterPro	IPR007110. Ig-like. IPR013783. Ig-like_fold. IPR013098. Ig_I-set. IPR003598. Ig_sub2. IPR001611. Leu-rich_rpt. IPR000372. Leu-rich_rpt_Cys-rich-dom_N. IPR003591. Leu-rich_rpt_typical-subtyp. IPR000483. LRR_C. [Graphical view]
Gene3D	G3DSA:2.60.40.10. Ig-like_fold. 1 hit.
Pfam	PF07679. I-set. 1 hit. PF00560. LRR_1. 7 hits. PF01462. LRRNT. 1 hit. [Graphical view]
SMART	SM00408. IGc2. 1 hit. SM00369. LRR_TYP. 1 hit. SM00082. LRRCT. 1 hit. SM00013. LRRNT. 1 hit. [Graphical view]
PROSITE	PS50835. IG_LIKE. 1 hit. [Graphical view]
ProtoNet	Search...
Other Resources
NextBio	382644.
SOURCE	Search...

Entry information

Entry name

LIGO1_MOUSE

Accession

Primary (citable) accession number: Q9D1T0
Secondary accession number(s): Q3TQJ4, Q6VVF9, Q7TT38

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 8, 2008
Last sequence update:	June 1, 2001
Last modified:	October 13, 2009
This is version 76 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HPI (Human Proteome Initiative)