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Protein

Leucine-rich repeats and immunoglobulin-like domains protein 3

Gene

Lrig3

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

Functioni

Plays a role in craniofacial and inner ear morphogenesis during embryonic development. Acts within the otic vesicle epithelium to control formation of the lateral semicircular canal in the inner ear, possibly by restricting the expression of NTN1.2 Publications

GO - Biological processi

  • otolith morphogenesis Source: MGI
Complete GO annotation...

Keywords - Molecular functioni

Developmental protein

Names & Taxonomyi

Protein namesi
Recommended name:
Leucine-rich repeats and immunoglobulin-like domains protein 3
Short name:
LIG-3
Gene namesi
Name:Lrig3
Synonyms:Kiaa3016
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 10

Organism-specific databases

MGIiMGI:2443955. Lrig3.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transmembranei810 – 83021HelicalSequence analysisAdd
BLAST

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Cytoplasmic vesicle, Membrane

Pathology & Biotechi

Disruption phenotypei

Mice display circling and head tossing behavior, due to a defect in inner ear morphogenesis. In mutants, fusion of the canal pouches starts earlier than normal and involves an abnormally large region, leading to truncation of the lateral semicircular canal in the inner ear. Nevertheless, hearing seems to be normal. Mutant mice also display craniofacial deformities, and especially a dramatically shortened snout.2 Publications

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2424Sequence analysisAdd
BLAST
Chaini25 – 11171093Leucine-rich repeats and immunoglobulin-like domains protein 3PRO_0000014832Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi156 – 1561N-linked (GlcNAc...)Sequence analysis
Glycosylationi274 – 2741N-linked (GlcNAc...)Sequence analysis
Glycosylationi442 – 4421N-linked (GlcNAc...)Sequence analysis
Glycosylationi469 – 4691N-linked (GlcNAc...)Sequence analysis
Disulfide bondi520 ↔ 581PROSITE-ProRule annotation
Disulfide bondi624 ↔ 676PROSITE-ProRule annotation
Glycosylationi688 – 6881N-linked (GlcNAc...)Sequence analysis
Disulfide bondi718 ↔ 767PROSITE-ProRule annotation
Glycosylationi729 – 7291N-linked (GlcNAc...)Sequence analysis
Glycosylationi1014 – 10141N-linked (GlcNAc...)Sequence analysis

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

EPDiQ6P1C6.
MaxQBiQ6P1C6.
PaxDbiQ6P1C6.
PRIDEiQ6P1C6.

PTM databases

iPTMnetiQ6P1C6.
PhosphoSiteiQ6P1C6.

Expressioni

Tissue specificityi

Widely expressed.1 Publication

Developmental stagei

Detected in the lateral wall of the otic vesicle at 10.5 dpc. Enriched in lateral pouch epithelium at 12.5 dpc.1 Publication

Gene expression databases

BgeeiQ6P1C6.
GenevisibleiQ6P1C6. MM.

Interactioni

Subunit structurei

Interacts with EGFR, ERBB2 and ERBB4 (in vitro).1 Publication

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000074360.

Structurei

Secondary structure

1
1117
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Turni491 – 4944Combined sources
Beta strandi500 – 5034Combined sources
Beta strandi508 – 5114Combined sources
Beta strandi516 – 52510Combined sources
Beta strandi531 – 5366Combined sources
Beta strandi545 – 5517Combined sources
Helixi554 – 5563Combined sources
Beta strandi560 – 5689Combined sources
Helixi573 – 5753Combined sources
Beta strandi577 – 5859Combined sources
Beta strandi588 – 5914Combined sources
Beta strandi595 – 6006Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3SO5X-ray1.70A/B490-600[»]
ProteinModelPortaliQ6P1C6.
SMRiQ6P1C6. Positions 490-785.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini38 – 7437LRRNTAdd
BLAST
Repeati75 – 9824LRR 1Add
BLAST
Repeati99 – 12022LRR 2Add
BLAST
Repeati122 – 14322LRR 3Add
BLAST
Repeati146 – 16823LRR 4Add
BLAST
Repeati169 – 18921LRR 5Add
BLAST
Repeati193 – 21422LRR 6Add
BLAST
Repeati216 – 23722LRR 7Add
BLAST
Repeati240 – 26122LRR 8Add
BLAST
Repeati264 – 28522LRR 9Add
BLAST
Repeati288 – 30922LRR 10Add
BLAST
Repeati312 – 33322LRR 11Add
BLAST
Repeati336 – 35722LRR 12Add
BLAST
Repeati360 – 38223LRR 13Add
BLAST
Repeati387 – 40822LRR 14Add
BLAST
Repeati411 – 43222LRR 15Add
BLAST
Domaini444 – 49552LRRCTAdd
BLAST
Domaini499 – 598100Ig-like C2-type 1Add
BLAST
Domaini603 – 69290Ig-like C2-type 2Add
BLAST
Domaini697 – 78387Ig-like C2-type 3Add
BLAST

Sequence similaritiesi

Contains 15 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.
KOG4194. Eukaryota.
COG4886. LUCA.
GeneTreeiENSGT00760000118777.
HOGENOMiHOG000113380.
HOVERGENiHBG052353.
InParanoidiQ6P1C6.
OMAiLDCSRQR.
OrthoDBiEOG7DNNTD.
PhylomeDBiQ6P1C6.
TreeFamiTF325380.

Family and domain databases

Gene3Di2.60.40.10. 3 hits.
3.80.10.10. 4 hits.
InterProiIPR000483. Cys-rich_flank_reg_C.
IPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR013098. Ig_I-set.
IPR003599. Ig_sub.
IPR003598. Ig_sub2.
IPR032675. L_dom-like.
IPR001611. Leu-rich_rpt.
IPR003591. Leu-rich_rpt_typical-subtyp.
[Graphical view]
PfamiPF07679. I-set. 2 hits.
PF13855. LRR_8. 5 hits.
[Graphical view]
SMARTiSM00409. IG. 3 hits.
SM00408. IGc2. 3 hits.
SM00369. LRR_TYP. 14 hits.
SM00082. LRRCT. 1 hit.
[Graphical view]
SUPFAMiSSF48726. SSF48726. 3 hits.
SSF52058. SSF52058. 2 hits.
PROSITEiPS50835. IG_LIKE. 3 hits.
PS51450. LRR. 15 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

Q6P1C6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGAPGLRAAT AALGLLLCAG LGRAGPAGSG GHGAPGQLLD DDAQRPCPAA
60 70 80 90 100
CHCLGDLLDC SRRRLVRLPD PLPAWVTRLD LSHNRLSFIQ TSSLSHLQSL
110 120 130 140 150
QEVKLNNNEL ETIPNLGSIS ANIRQLSLAG NAIDKILPEQ LEAFQSLETL
160 170 180 190 200
DLSNNNISEL RTAFPPLQLK YLYINNNRVS SMEPGYFDNL ASTLLVLKLN
210 220 230 240 250
RNRISAIPPK MFKLPQLQHL ELNRNKIKNV DGLTFQGLGA LKSLKMQRNG
260 270 280 290 300
VTKLMDGAFW GLSNMEVLQL DHNNLTEITK GWLYGLLMLR ELHLSQNAIN
310 320 330 340 350
RISPDAWEFC QKLSELDLTF NHLSRLDDSS FLGLSLLNAL HIGNNKVSYI
360 370 380 390 400
ADCAFRGLTS LKTLDLRNNE ISWTIEDMSG AFSGLDRLRQ LILQGNRIRS
410 420 430 440 450
ITKKAFAGLD TLEHLDLSGN AIMSLQSNAF SQMKKLQQLH LNTSSLLCDC
460 470 480 490 500
QLRWLPQWVA ENNFQSFVNA SCAHPQLLKG RSIFTVSPDG FVCDDFPKPQ
510 520 530 540 550
ITVQPETQSA IKGSDVSFTC SAASSSDSPM TFAWKKDNEA LQDAEMENYA
560 570 580 590 600
HLRAQGGELM EYTTILRLRN VEFTSEGKYQ CVISNHFGSS YSVKAKLTIN
610 620 630 640 650
MLPSFTKTPM DLTIRAGAMA RLECAAVGHP APQIAWQKDG GTDFPAARER
660 670 680 690 700
RMHVMPEDDV FFIVDVKIED IGVYSCTAQN SAGSVSANAT LTVLETPSFL
710 720 730 740 750
RPLLDRTVTK GETAVLQCIA GGSPPPRLNW TKDDSPLVVT ERHFFAAGNQ
760 770 780 790 800
LLIIVDSDVS DAGKYTCEMS NTLGTERGNV RLSVIPTPTC DSPHMTAPSL
810 820 830 840 850
DGDGWATVGV VIIAVVCCVV GTSLVWVVII YHTRRRNEDC SITNTDETNL
860 870 880 890 900
PADIPSYLSS QGTLADRQDG YISSESGSHH QFVTSSGGGF FLPQHDGAGT
910 920 930 940 950
CHFDDSSEAD VEAASDPFLC PFVGSTGPVY LQGNLYSPDP FEVYLPGCSS
960 970 980 990 1000
DPRTALMDHC ESSYVKQDRF SCARPSEEPC ERSLKSIPWP HSRKLTDSTY
1010 1020 1030 1040 1050
PPNEGHTVQT LCLNKSSVDF STGPEPGSAT SSNSFMGTFG KPLRRPHLDA
1060 1070 1080 1090 1100
FSSSAQPPDC QPRPCHGKSL SSPELDSESE ENDKERTDFR EENHRCTYQQ
1110
IFHTYRTPDC QPCDSDT
Length:1,117
Mass (Da):122,688
Last modified:July 5, 2004 - v1
Checksum:i107A1B6960BF6A37
GO

Sequence cautioni

The sequence BAC32175.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated
The sequence BAC98291.1 differs from that shown. Reason: Frameshift at position 410. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti467 – 4671F → L in AAR98630 (PubMed:15203213).Curated
Sequence conflicti561 – 57111Missing in BAC98291 (PubMed:12693553).CuratedAdd
BLAST
Sequence conflicti1054 – 10541S → F in BAC98291 (PubMed:12693553).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY505341 mRNA. Translation: AAR98630.1.
BC065142 mRNA. Translation: AAH65142.1.
AK044994 mRNA. Translation: BAC32175.1. Different initiation.
AK078783 mRNA. Translation: BAC37394.1.
AK129481 mRNA. Translation: BAC98291.1. Frameshift.
CCDSiCCDS24219.1.
RefSeqiNP_796126.4. NM_177152.5.
UniGeneiMm.275586.

Genome annotation databases

EnsembliENSMUST00000074807; ENSMUSP00000074360; ENSMUSG00000020105.
GeneIDi320398.
KEGGimmu:320398.
UCSCiuc007hhc.2. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY505341 mRNA. Translation: AAR98630.1.
BC065142 mRNA. Translation: AAH65142.1.
AK044994 mRNA. Translation: BAC32175.1. Different initiation.
AK078783 mRNA. Translation: BAC37394.1.
AK129481 mRNA. Translation: BAC98291.1. Frameshift.
CCDSiCCDS24219.1.
RefSeqiNP_796126.4. NM_177152.5.
UniGeneiMm.275586.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3SO5X-ray1.70A/B490-600[»]
ProteinModelPortaliQ6P1C6.
SMRiQ6P1C6. Positions 490-785.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000074360.

PTM databases

iPTMnetiQ6P1C6.
PhosphoSiteiQ6P1C6.

Proteomic databases

EPDiQ6P1C6.
MaxQBiQ6P1C6.
PaxDbiQ6P1C6.
PRIDEiQ6P1C6.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000074807; ENSMUSP00000074360; ENSMUSG00000020105.
GeneIDi320398.
KEGGimmu:320398.
UCSCiuc007hhc.2. mouse.

Organism-specific databases

CTDi121227.
MGIiMGI:2443955. Lrig3.
RougeiSearch...

Phylogenomic databases

eggNOGiKOG0619. Eukaryota.
KOG4194. Eukaryota.
COG4886. LUCA.
GeneTreeiENSGT00760000118777.
HOGENOMiHOG000113380.
HOVERGENiHBG052353.
InParanoidiQ6P1C6.
OMAiLDCSRQR.
OrthoDBiEOG7DNNTD.
PhylomeDBiQ6P1C6.
TreeFamiTF325380.

Miscellaneous databases

PROiQ6P1C6.
SOURCEiSearch...

Gene expression databases

BgeeiQ6P1C6.
GenevisibleiQ6P1C6. MM.

Family and domain databases

Gene3Di2.60.40.10. 3 hits.
3.80.10.10. 4 hits.
InterProiIPR000483. Cys-rich_flank_reg_C.
IPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR013098. Ig_I-set.
IPR003599. Ig_sub.
IPR003598. Ig_sub2.
IPR032675. L_dom-like.
IPR001611. Leu-rich_rpt.
IPR003591. Leu-rich_rpt_typical-subtyp.
[Graphical view]
PfamiPF07679. I-set. 2 hits.
PF13855. LRR_8. 5 hits.
[Graphical view]
SMARTiSM00409. IG. 3 hits.
SM00408. IGc2. 3 hits.
SM00369. LRR_TYP. 14 hits.
SM00082. LRRCT. 1 hit.
[Graphical view]
SUPFAMiSSF48726. SSF48726. 3 hits.
SSF52058. SSF52058. 2 hits.
PROSITEiPS50835. IG_LIKE. 3 hits.
PS51450. LRR. 15 hits.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The LRIG gene family has three vertebrate paralogs widely expressed in human and mouse tissues and a homolog in Ascidiacea."
    Guo D., Holmlund C., Henriksson R., Hedman H.
    Genomics 84:157-165(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], TISSUE SPECIFICITY.
  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 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] OF 1-79 AND 718-1117.
    Strain: C57BL/6J.
    Tissue: Embryo and Embryonic testis.
  4. "Prediction of the coding sequences of mouse homologues of KIAA gene: II. The complete nucleotide sequences of 400 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries."
    Okazaki N., Kikuno R., Ohara R., Inamoto S., Aizawa H., Yuasa S., Nakajima D., Nagase T., Ohara O., Koga H.
    DNA Res. 10:35-48(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 254-1117.
  5. "Cross-repressive interactions between Lrig3 and netrin 1 shape the architecture of the inner ear."
    Abraira V.E., Del Rio T., Tucker A.F., Slonimsky J., Keirnes H.L., Goodrich L.V.
    Development 135:4091-4099(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: DISRUPTION PHENOTYPE, FUNCTION, DEVELOPMENTAL STAGE.
  6. "Vertebrate Lrig3-ErbB interactions occur in vitro but are unlikely to play a role in Lrig3-dependent inner ear morphogenesis."
    Abraira V.E., Satoh T., Fekete D.M., Goodrich L.V.
    PLoS ONE 5:E8981-E8981(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: DISRUPTION PHENOTYPE, FUNCTION, SUBCELLULAR LOCATION, INTERACTION WITH EGFR; ERBB2 AND ERBB4.
  7. "Crystal structure of an immunoglobulin I-set domain of LRIG3 protein (LRIG3) from Mus musculus at 1.70 A resolution."
    Joint center for structural genomics (JCSG)
    Submitted (JUL-2011) to the PDB data bank
    Cited for: X-RAY CRYSTALLOGRAPHY (1.7 ANGSTROMS) OF 490-600.

Entry informationi

Entry nameiLRIG3_MOUSE
AccessioniPrimary (citable) accession number: Q6P1C6
Secondary accession number(s): Q6ZPE6
, Q8BRF0, Q8BS51, Q8C5E4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 16, 2005
Last sequence update: July 5, 2004
Last modified: June 8, 2016
This is version 118 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. 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.