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Protein

Leucine-rich repeat-containing protein 4C

Gene

Lrrc4c

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

May promote neurite outgrowth of developing thalamic neurons.1 Publication

GO - Biological processi

  • regulation of axonogenesis Source: UniProtKB
Complete GO annotation...

Names & Taxonomyi

Protein namesi
Recommended name:
Leucine-rich repeat-containing protein 4C
Alternative name(s):
Netrin-G1 ligand
Short name:
NGL-1
Gene namesi
Name:Lrrc4c
Synonyms:Ngl1
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 2

Organism-specific databases

MGIiMGI:2442636. Lrrc4c.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transmembranei528 – 54821HelicalSequence analysisAdd
BLAST

GO - Cellular componenti

  • cell junction Source: UniProtKB-KW
  • extracellular space Source: MGI
  • integral component of membrane Source: UniProtKB-KW
  • membrane Source: UniProtKB
  • postsynaptic membrane Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cell junction, Cell membrane, Membrane, Postsynaptic cell membrane, Synapse

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 4444Sequence analysisAdd
BLAST
Chaini45 – 640596Leucine-rich repeat-containing protein 4CPRO_0000015109Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi375 ↔ 426PROSITE-ProRule annotation
Modified residuei631 – 6311PhosphoserineCombined sources

Keywords - PTMi

Disulfide bond, Phosphoprotein

Proteomic databases

MaxQBiQ8C031.
PaxDbiQ8C031.
PRIDEiQ8C031.

PTM databases

iPTMnetiQ8C031.
PhosphoSiteiQ8C031.

Expressioni

Developmental stagei

Highly expressed in the developing cerebral cortex and striatum at 14 dpc.1 Publication

Gene expression databases

BgeeiQ8C031.
CleanExiMM_LRRC4C.
ExpressionAtlasiQ8C031. baseline and differential.
GenevisibleiQ8C031. MM.

Interactioni

Subunit structurei

Interacts with NTNG1 and WHRN.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
Dfnb31Q80VW54EBI-7417983,EBI-7417603

Protein-protein interaction databases

DIPiDIP-42049N.
IntActiQ8C031. 1 interaction.
MINTiMINT-1895606.
STRINGi10090.ENSMUSP00000125218.

Structurei

3D structure databases

ProteinModelPortaliQ8C031.
SMRiQ8C031. Positions 45-482.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini45 – 7632LRRNTAdd
BLAST
Repeati77 – 9822LRR 1Add
BLAST
Repeati101 – 12222LRR 2Add
BLAST
Repeati125 – 14622LRR 3Add
BLAST
Repeati149 – 17022LRR 4Add
BLAST
Repeati173 – 19523LRR 5Add
BLAST
Repeati198 – 21922LRR 6Add
BLAST
Repeati220 – 24122LRR 7Add
BLAST
Repeati244 – 26522LRR 8Add
BLAST
Repeati268 – 28922LRR 9Add
BLAST
Domaini301 – 35353LRRCTAdd
BLAST
Domaini354 – 44289Ig-like C2-typeAdd
BLAST

Domaini

The LRR region is both necessary and sufficient for the interaction with NTNG1.By similarity

Sequence similaritiesi

Contains 9 LRR (leucine-rich) repeats.Curated
Contains 1 LRRCT domain.Curated
Contains 1 LRRNT domain.Curated

Keywords - Domaini

Immunoglobulin domain, Leucine-rich repeat, Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG0619. Eukaryota.
COG4886. LUCA.
GeneTreeiENSGT00760000118831.
HOGENOMiHOG000252924.
HOVERGENiHBG052359.
InParanoidiQ8C031.
KOiK07523.
OMAiIMTHGAY.
OrthoDBiEOG769ZHZ.
PhylomeDBiQ8C031.
TreeFamiTF324303.

Family and domain databases

Gene3Di2.60.40.10. 1 hit.
3.80.10.10. 2 hits.
InterProiIPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR013098. Ig_I-set.
IPR003599. Ig_sub.
IPR003598. Ig_sub2.
IPR013106. Ig_V-set.
IPR032675. L_dom-like.
IPR001611. Leu-rich_rpt.
IPR003591. Leu-rich_rpt_typical-subtyp.
IPR026906. LRR_5.
IPR026878. LRRC4C.
IPR000372. LRRNT.
[Graphical view]
PANTHERiPTHR24369:SF8. PTHR24369:SF8. 2 hits.
PfamiPF07679. I-set. 1 hit.
PF00560. LRR_1. 1 hit.
PF13306. LRR_5. 1 hit.
PF13855. LRR_8. 1 hit.
[Graphical view]
SMARTiSM00409. IG. 1 hit.
SM00408. IGc2. 1 hit.
SM00406. IGv. 1 hit.
SM00369. LRR_TYP. 8 hits.
SM00013. LRRNT. 1 hit.
[Graphical view]
SUPFAMiSSF48726. SSF48726. 1 hit.
SSF52058. SSF52058. 1 hit.
PROSITEiPS50835. IG_LIKE. 1 hit.
PS51450. LRR. 7 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q8C031-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLNKMTLHPQ QIMIGPRFNR ALFDPLLVVL LALQLLVVAG LVRAQTCPSV
60 70 80 90 100
CSCSNQFSKV ICVRKNLREV PDGISTNTRL LNLHENQIQI IKVNSFKHLR
110 120 130 140 150
HLEILQLSRN HIRTIEIGAF NGLANLNTLE LFDNRLTTIP NGAFVYLSKL
160 170 180 190 200
KELWLRNNPI ESIPSYAFNR IPSLRRLDLG ELKRLSYISE GAFEGLSNLR
210 220 230 240 250
YLNLAMCNLR EIPNLTPLIK LDELDLSGNH LSAIRPGSFQ GLMHLQKLWM
260 270 280 290 300
IQSQIQVIER NAFDNLQSLV EINLAHNNLT LLPHDLFTPL HHLERIHLHH
310 320 330 340 350
NPWNCNCDIL WLSWWIRDMA PSNTACCARC NTPPNLKGRY IGELDQNYFT
360 370 380 390 400
CYAPVIVEPP ADLNVTEGMA AELKCRASTS LTSVSWITPN GTVMTHGAYK
410 420 430 440 450
VRIAVLSDGT LNFTNVTVQD TGMYTCMVSN SVGNTTASAT LNVTAATTTP
460 470 480 490 500
FSYFSTVTVE TMEPSQDEAR TTDNNVGPTP VIDWETTNVT TSLTPQSTRS
510 520 530 540 550
TEKTFTIPVT DINSGIPGID EVMKTTKIII GCFVAITLMA AVMLVIFYKM
560 570 580 590 600
RKQHHRQNHH APTRTVEIIN VDDEITGDTP MESHLPMPAI EHEHLNHYNS
610 620 630 640
YKSPFNHTTT VNTINSIHSS VHEPLLIRMN SKDNVQETQI
Length:640
Mass (Da):71,992
Last modified:January 4, 2005 - v2
Checksum:i9810515A995CAB6B
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti581 – 5811M → V in BAC27884 (PubMed:16141072).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK032467 mRNA. Translation: BAC27884.1.
AK034276 mRNA. Translation: BAC28656.1.
AK048322 mRNA. Translation: BAC33302.1.
BC094588 mRNA. Translation: AAH94588.1.
CCDSiCCDS16460.1.
RefSeqiNP_001276671.1. NM_001289742.1.
NP_001276672.1. NM_001289743.1.
NP_001276673.1. NM_001289744.1.
NP_848840.3. NM_178725.6.
XP_006499542.1. XM_006499479.2.
UniGeneiMm.241682.
Mm.482999.

Genome annotation databases

EnsembliENSMUST00000059049; ENSMUSP00000131795; ENSMUSG00000050587.
ENSMUST00000135431; ENSMUSP00000130984; ENSMUSG00000050587.
ENSMUST00000162807; ENSMUSP00000125218; ENSMUSG00000050587.
GeneIDi241568.
KEGGimmu:241568.
UCSCiuc008lhc.2. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK032467 mRNA. Translation: BAC27884.1.
AK034276 mRNA. Translation: BAC28656.1.
AK048322 mRNA. Translation: BAC33302.1.
BC094588 mRNA. Translation: AAH94588.1.
CCDSiCCDS16460.1.
RefSeqiNP_001276671.1. NM_001289742.1.
NP_001276672.1. NM_001289743.1.
NP_001276673.1. NM_001289744.1.
NP_848840.3. NM_178725.6.
XP_006499542.1. XM_006499479.2.
UniGeneiMm.241682.
Mm.482999.

3D structure databases

ProteinModelPortaliQ8C031.
SMRiQ8C031. Positions 45-482.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

DIPiDIP-42049N.
IntActiQ8C031. 1 interaction.
MINTiMINT-1895606.
STRINGi10090.ENSMUSP00000125218.

PTM databases

iPTMnetiQ8C031.
PhosphoSiteiQ8C031.

Proteomic databases

MaxQBiQ8C031.
PaxDbiQ8C031.
PRIDEiQ8C031.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000059049; ENSMUSP00000131795; ENSMUSG00000050587.
ENSMUST00000135431; ENSMUSP00000130984; ENSMUSG00000050587.
ENSMUST00000162807; ENSMUSP00000125218; ENSMUSG00000050587.
GeneIDi241568.
KEGGimmu:241568.
UCSCiuc008lhc.2. mouse.

Organism-specific databases

CTDi57689.
MGIiMGI:2442636. Lrrc4c.

Phylogenomic databases

eggNOGiKOG0619. Eukaryota.
COG4886. LUCA.
GeneTreeiENSGT00760000118831.
HOGENOMiHOG000252924.
HOVERGENiHBG052359.
InParanoidiQ8C031.
KOiK07523.
OMAiIMTHGAY.
OrthoDBiEOG769ZHZ.
PhylomeDBiQ8C031.
TreeFamiTF324303.

Miscellaneous databases

ChiTaRSiLrrc4c. mouse.
PROiQ8C031.
SOURCEiSearch...

Gene expression databases

BgeeiQ8C031.
CleanExiMM_LRRC4C.
ExpressionAtlasiQ8C031. baseline and differential.
GenevisibleiQ8C031. MM.

Family and domain databases

Gene3Di2.60.40.10. 1 hit.
3.80.10.10. 2 hits.
InterProiIPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR013098. Ig_I-set.
IPR003599. Ig_sub.
IPR003598. Ig_sub2.
IPR013106. Ig_V-set.
IPR032675. L_dom-like.
IPR001611. Leu-rich_rpt.
IPR003591. Leu-rich_rpt_typical-subtyp.
IPR026906. LRR_5.
IPR026878. LRRC4C.
IPR000372. LRRNT.
[Graphical view]
PANTHERiPTHR24369:SF8. PTHR24369:SF8. 2 hits.
PfamiPF07679. I-set. 1 hit.
PF00560. LRR_1. 1 hit.
PF13306. LRR_5. 1 hit.
PF13855. LRR_8. 1 hit.
[Graphical view]
SMARTiSM00409. IG. 1 hit.
SM00408. IGc2. 1 hit.
SM00406. IGv. 1 hit.
SM00369. LRR_TYP. 8 hits.
SM00013. LRRNT. 1 hit.
[Graphical view]
SUPFAMiSSF48726. SSF48726. 1 hit.
SSF52058. SSF52058. 1 hit.
PROSITEiPS50835. IG_LIKE. 1 hit.
PS51450. LRR. 7 hits.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  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] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: C57BL/6J.
    Tissue: Brain.
  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] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: C57BL/6J.
    Tissue: Eye.
  3. "The netrin-G1 ligand NGL-1 promotes the outgrowth of thalamocortical axons."
    Lin J.C., Ho W.-H., Gurney A.L., Rosenthal A.
    Nat. Neurosci. 6:1270-1276(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, DEVELOPMENTAL STAGE.
  4. "Myosin XVa and whirlin, two deafness gene products required for hair bundle growth, are located at the stereocilia tips and interact directly."
    Delprat B., Michel V., Goodyear R., Yamasaki Y., Michalski N., El-Amraoui A., Perfettini I., Legrain P., Richardson G., Hardelin J.-P., Petit C.
    Hum. Mol. Genet. 14:401-410(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH WHRN.
  5. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-631, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Brain.

Entry informationi

Entry nameiLRC4C_MOUSE
AccessioniPrimary (citable) accession number: Q8C031
Secondary accession number(s): Q505E5, Q8BGH8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 4, 2005
Last sequence update: January 4, 2005
Last modified: June 8, 2016
This is version 125 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.