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Protein

Leucine-rich repeat and fibronectin type-III domain-containing protein 2

Gene

Lrfn2

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

Functioni

Promotes neurite outgrowth in hippocampal neurons. Enhances the cell surface expression of 2 NMDA receptor subunits GRIN1 and GRIN2A (By similarity). May play a role in redistributing DLG4 to the cell periphery.By similarity1 Publication

Names & Taxonomyi

Protein namesi
Recommended name:
Leucine-rich repeat and fibronectin type-III domain-containing protein 2
Gene namesi
Name:Lrfn2
Synonyms:Kiaa1246, Salm1
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 17

Organism-specific databases

MGIiMGI:1917780. Lrfn2.

Subcellular locationi

  • Membrane 1 Publication; Single-pass type I membrane protein 1 Publication
  • Cell junctionsynapse 1 Publication
  • Cell junctionsynapsepostsynaptic cell membrane By similarity

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini21 – 534514ExtracellularSequence analysisAdd
BLAST
Transmembranei535 – 55521HelicalSequence analysisAdd
BLAST
Topological domaini556 – 788233CytoplasmicSequence analysisAdd
BLAST

GO - Cellular componenti

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

Keywords - Cellular componenti

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

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi787 – 7882Missing : Loss of DLG4-binding. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2020Sequence analysisAdd
BLAST
Chaini21 – 788768Leucine-rich repeat and fibronectin type-III domain-containing protein 2PRO_0000014840Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi29 – 291N-linked (GlcNAc...)Sequence analysis
Disulfide bondi310 ↔ 359PROSITE-ProRule annotation
Glycosylationi332 – 3321N-linked (GlcNAc...)Sequence analysis
Glycosylationi341 – 3411N-linked (GlcNAc...)Sequence analysis
Glycosylationi384 – 3841N-linked (GlcNAc...)Sequence analysis

Post-translational modificationi

Glycosylated.1 Publication

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

MaxQBiQ80TG9.
PaxDbiQ80TG9.
PRIDEiQ80TG9.

PTM databases

PhosphoSiteiQ80TG9.

Expressioni

Tissue specificityi

Predominantly expressed in the brain, with a weak, but broad expression in the cerebral cortex and diencephalic nuclei. Strongly expressed in both the pyramidal layer and the dentate gyrus of the hippocampus. Also detected in other parts of the central nervous system, including the olfactory bulb, pons, cerebellum, and medulla oblongata, as well as in the peripheral nervous system, such as the ganglia of cranial nerves and the dorsal root ganglion during gestation.1 Publication

Developmental stagei

Expression starts around 11.5-12.5 dpc. At 11.5 dpc, detected in the outer layer of the telencephalic vesicles. This pattern of expression continues until 17.5 dpc with expression in the cortical plate, but not in the inner layer of the cerebral cortex, including subplate, ventricular zone, and subventricular zone. As also detected in the hippocampus, amygdala and widely in diencephalic nuclei.1 Publication

Gene expression databases

BgeeiQ80TG9.
GenevisibleiQ80TG9. MM.

Interactioni

Subunit structurei

Forms heteromeric complexes with LRFN1, LRFN3, LRFN4 and LRFN5. Can form homomeric complexes, but not across cell junctions (By similarity). Interacts with DLG4. Directly interacts with DLG1, DLG2 and DLG3 (By similarity). Directly interacts with 2 NMDA receptor subunits GRIN1 and GRIN2A (By similarity).By similarity

Binary interactionsi

WithEntry#Exp.IntActNotes
Dlg1Q811D03EBI-877092,EBI-514290
Dlg4Q621082EBI-877092,EBI-300895
Grin1P354392EBI-877092,EBI-877897From a different organism.
Grin1P35439-12EBI-877092,EBI-877923From a different organism.
Grin1P35439-42EBI-877092,EBI-877935From a different organism.

Protein-protein interaction databases

IntActiQ80TG9. 6 interactions.
STRINGi10090.ENSMUSP00000047573.

Structurei

3D structure databases

ProteinModelPortaliQ80TG9.
SMRiQ80TG9. Positions 20-461.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini21 – 5232LRRNTAdd
BLAST
Repeati53 – 7422LRR 1Add
BLAST
Repeati77 – 9822LRR 2Add
BLAST
Repeati101 – 12222LRR 3Add
BLAST
Repeati125 – 14622LRR 4Add
BLAST
Repeati150 – 17122LRR 5Add
BLAST
Repeati174 – 19522LRR 6Add
BLAST
Repeati198 – 21922LRR 7Add
BLAST
Domaini242 – 28847LRRCTAdd
BLAST
Domaini289 – 37587Ig-likeAdd
BLAST
Domaini422 – 51897Fibronectin type-IIIPROSITE-ProRule annotationAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi785 – 7884PDZ-binding

Domaini

The PDZ-binding motif is required for cell surface expression, neurite outgrowth promotion and interaction with DLG1, DLG3 and DLG4.By similarity

Sequence similaritiesi

Belongs to the LRFN family.Curated
Contains 1 fibronectin type-III domain.PROSITE-ProRule annotation
Contains 7 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.
HOGENOMiHOG000237343.
HOVERGENiHBG052352.
InParanoidiQ80TG9.
KOiK16355.
OMAiRMIPASN.
OrthoDBiEOG75B84P.
PhylomeDBiQ80TG9.
TreeFamiTF350185.

Family and domain databases

Gene3Di2.60.40.10. 2 hits.
3.80.10.10. 1 hit.
InterProiIPR000483. Cys-rich_flank_reg_C.
IPR003961. FN3_dom.
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]
PfamiPF00041. fn3. 1 hit.
PF07679. I-set. 1 hit.
PF13855. LRR_8. 2 hits.
[Graphical view]
SMARTiSM00409. IG. 1 hit.
SM00408. IGc2. 1 hit.
SM00369. LRR_TYP. 6 hits.
SM00082. LRRCT. 1 hit.
[Graphical view]
SUPFAMiSSF48726. SSF48726. 1 hit.
SSF49265. SSF49265. 1 hit.
SSF52058. SSF52058. 1 hit.
PROSITEiPS50853. FN3. 1 hit.
PS50835. IG_LIKE. 1 hit.
PS51450. LRR. 6 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

Q80TG9-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
METLLGGLLA FGMAFAVVDA CPKYCVCQNL SESLGTLCPS KGLLFVPPDI
60 70 80 90 100
DRRTVELRLG GNFIIHIGRQ DFANMTGLVD LTLSRNTISH IQPFSFLDLE
110 120 130 140 150
SLRSLHLDSN RLPSLGEDTL RGLVNLQHLI VNNNQLGGIA DDAFEDFLLT
160 170 180 190 200
LEDLDLSYNN LHGLPWDSVR RMVNLHQLSL DHNLLDHIAE GTFADLQKLA
210 220 230 240 250
RLDLTSNRLQ KLPPDPIFAR SQASLLTATP FAPPLSFSFG GNPLHCNCEL
260 270 280 290 300
LWLRRLERDD DLETCGSPGS LKGRYFWHIR EEEFVCEPPL ITQHTHKLLV
310 320 330 340 350
LEGQAATLKC KAIGDPSPLI HWVAPDDRLV GNSSRTAVYD NGTLDILITT
360 370 380 390 400
SQDSGPFTCI AANAAGEATA TVEVSIVQLP HLSNSTSRMA PPKSRLSDIT
410 420 430 440 450
GSSKTSRGGG GSGAGEPPKS TPERAVLVSD VTTTSALVKW SVSKSAPRVK
460 470 480 490 500
MYQLQYNCSD DEVLIYRMIP ASNKAFVVNN LVSGTGYDLC VLAMWDDTAT
510 520 530 540 550
TLTATNIVGC AQFFTKADYP QCQSMHSQIL GGTMILVIGG IIVATLLVFI
560 570 580 590 600
VILMVRYKVC NHDTPGKMAA ATVSNVYSQT NGSQPPPLGG IPVGQLPQAP
610 620 630 640 650
PKVVVRNELM DFSTSLARAC DSSSSSSLGS GEAAGLGRGP WRLPPPAPRP
660 670 680 690 700
KPSLDRLMGA FASLDLKSQR KEELLDSRTP AGRGAGTSSR GHHSDREPLL
710 720 730 740 750
GPPATRARSL LPLPLEGKAK RSHSFDMGDF AAAAAAVPGG YSPPRRVSNI
760 770 780
WTKRSLSVNG MLLPFEESDL VGARGTFGSS EWVMESTV
Length:788
Mass (Da):84,963
Last modified:March 29, 2005 - v2
Checksum:i65B70CA475E99D6B
GO

Sequence cautioni

The sequence BAC65758.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti42 – 421G → R in BAB30828 (PubMed:16141072).Curated
Sequence conflicti530 – 5301L → K in BAB30828 (PubMed:16141072).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK017594 mRNA. Translation: BAB30828.1.
AK044375 mRNA. Translation: BAC31891.1.
AK122476 mRNA. Translation: BAC65758.1. Different initiation.
CH466559 Genomic DNA. Translation: EDL23629.1.
BC139418 mRNA. Translation: AAI39419.1.
CCDSiCCDS28871.1.
RefSeqiNP_081728.2. NM_027452.3.
UniGeneiMm.133607.

Genome annotation databases

EnsembliENSMUST00000046254; ENSMUSP00000047573; ENSMUSG00000040490.
GeneIDi70530.
KEGGimmu:70530.
UCSCiuc008cyd.2. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK017594 mRNA. Translation: BAB30828.1.
AK044375 mRNA. Translation: BAC31891.1.
AK122476 mRNA. Translation: BAC65758.1. Different initiation.
CH466559 Genomic DNA. Translation: EDL23629.1.
BC139418 mRNA. Translation: AAI39419.1.
CCDSiCCDS28871.1.
RefSeqiNP_081728.2. NM_027452.3.
UniGeneiMm.133607.

3D structure databases

ProteinModelPortaliQ80TG9.
SMRiQ80TG9. Positions 20-461.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiQ80TG9. 6 interactions.
STRINGi10090.ENSMUSP00000047573.

PTM databases

PhosphoSiteiQ80TG9.

Proteomic databases

MaxQBiQ80TG9.
PaxDbiQ80TG9.
PRIDEiQ80TG9.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000046254; ENSMUSP00000047573; ENSMUSG00000040490.
GeneIDi70530.
KEGGimmu:70530.
UCSCiuc008cyd.2. mouse.

Organism-specific databases

CTDi57497.
MGIiMGI:1917780. Lrfn2.
RougeiSearch...

Phylogenomic databases

eggNOGiKOG0619. Eukaryota.
COG4886. LUCA.
GeneTreeiENSGT00760000118831.
HOGENOMiHOG000237343.
HOVERGENiHBG052352.
InParanoidiQ80TG9.
KOiK16355.
OMAiRMIPASN.
OrthoDBiEOG75B84P.
PhylomeDBiQ80TG9.
TreeFamiTF350185.

Miscellaneous databases

NextBioi331801.
PROiQ80TG9.
SOURCEiSearch...

Gene expression databases

BgeeiQ80TG9.
GenevisibleiQ80TG9. MM.

Family and domain databases

Gene3Di2.60.40.10. 2 hits.
3.80.10.10. 1 hit.
InterProiIPR000483. Cys-rich_flank_reg_C.
IPR003961. FN3_dom.
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]
PfamiPF00041. fn3. 1 hit.
PF07679. I-set. 1 hit.
PF13855. LRR_8. 2 hits.
[Graphical view]
SMARTiSM00409. IG. 1 hit.
SM00408. IGc2. 1 hit.
SM00369. LRR_TYP. 6 hits.
SM00082. LRRCT. 1 hit.
[Graphical view]
SUPFAMiSSF48726. SSF48726. 1 hit.
SSF49265. SSF49265. 1 hit.
SSF52058. SSF52058. 1 hit.
PROSITEiPS50853. FN3. 1 hit.
PS50835. IG_LIKE. 1 hit.
PS51450. LRR. 6 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: Embryo and Retina.
  2. "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].
    Tissue: Brain.
  3. Mural R.J., Adams M.D., Myers E.W., Smith H.O., Venter J.C.
    Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  4. "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].
  5. "Comparative analysis of structure, expression and PSD95-binding capacity of Lrfn, a novel family of neuronal transmembrane proteins."
    Morimura N., Inoue T., Katayama K., Aruga J.
    Gene 380:72-83(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH DLG4, DEVELOPMENTAL STAGE, TISSUE SPECIFICITY, GLYCOSYLATION, SUBCELLULAR LOCATION, TOPOLOGY, MUTAGENESIS OF 787-THR-VAL-788.
  6. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Brain.

Entry informationi

Entry nameiLRFN2_MOUSE
AccessioniPrimary (citable) accession number: Q80TG9
Secondary accession number(s): B9EIF8, Q9CYK3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 29, 2005
Last sequence update: March 29, 2005
Last modified: May 11, 2016
This is version 117 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.