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Protein

Leucine-rich repeat and fibronectin type III domain-containing protein 1

Gene

Lrfn1

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

Functioni

Promotes neurite outgrowth in hippocampal neurons. Involved in the regulation and maintenance of excitatory synapses. Induces the clustering of excitatory postsynaptic proteins, including DLG4, DLGAP1, GRIA1 and GRIN1.2 Publications

GO - Biological processi

Enzyme and pathway databases

ReactomeiR-MMU-8849932 Synaptic adhesion-like molecules

Names & Taxonomyi

Protein namesi
Recommended name:
Leucine-rich repeat and fibronectin type III domain-containing protein 1
Alternative name(s):
Synaptic adhesion-like molecule 2
Synaptic differentiation-enhancing molecule 1
Gene namesi
Name:Lrfn1
Synonyms:Salm2, Semo1
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 7

Organism-specific databases

MGIiMGI:2136810 Lrfn1

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini32 – 536ExtracellularSequence analysisAdd BLAST505
Transmembranei537 – 557HelicalSequence analysisAdd BLAST21
Topological domaini558 – 766CytoplasmicSequence analysisAdd BLAST209

Keywords - Cellular componenti

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

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi760 – 766Missing : Decreased promotion of neurite outgrowth. No effect on homomeric interactions. 2 Publications7

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 31Sequence analysisAdd BLAST31
ChainiPRO_000033414632 – 766Leucine-rich repeat and fibronectin type III domain-containing protein 1Add BLAST735

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi87N-linked (GlcNAc...) asparagineSequence analysis1
Disulfide bondi321 ↔ 370PROSITE-ProRule annotation
Glycosylationi343N-linked (GlcNAc...) asparagineSequence analysis1
Modified residuei713PhosphoserineBy similarity1

Post-translational modificationi

Glycosylated.1 Publication

Keywords - PTMi

Disulfide bond, Glycoprotein, Phosphoprotein

Proteomic databases

MaxQBiQ2WF71
PaxDbiQ2WF71
PeptideAtlasiQ2WF71
PRIDEiQ2WF71

PTM databases

iPTMnetiQ2WF71
PhosphoSitePlusiQ2WF71

Expressioni

Tissue specificityi

Predominantly expressed in the brain, with a weak, but broad expression in the cerebral cortex and diencephalic nuclei. 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 10.5 dpc. At 11.5 dpc, broadly expressed in the telencephalic and diencephalic vesicles. This pattern of expression continues until 17.5 dpc.1 Publication

Gene expression databases

BgeeiENSMUSG00000030600
ExpressionAtlasiQ2WF71 baseline and differential
GenevisibleiQ2WF71 MM

Interactioni

Subunit structurei

Can form heteromeric complexes with LRFN2, LRFN3, LRFN4 and LRFN5. Forms homomeric complexes, but not across cell junctions. Interacts with DLG4. Interacts also with DLG1, DLG2, and DLG3 (By similarity). Interacts with 2 AMPA receptor subunits GRIA1 and GRIA2 and NMDA receptor subunit GRIN1.By similarity2 Publications

Protein-protein interaction databases

BioGridi219807, 1 interactor
IntActiQ2WF71, 2 interactors
STRINGi10090.ENSMUSP00000103923

Structurei

3D structure databases

ProteinModelPortaliQ2WF71
SMRiQ2WF71
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini32 – 65LRRNTAdd BLAST34
Repeati66 – 87LRR 1Add BLAST22
Repeati90 – 111LRR 2Add BLAST22
Repeati114 – 135LRR 3Add BLAST22
Repeati138 – 159LRR 4Add BLAST22
Repeati163 – 184LRR 5Add BLAST22
Repeati187 – 208LRR 6Add BLAST22
Repeati211 – 232LRR 7Add BLAST22
Domaini252 – 298LRRCTAdd BLAST47
Domaini299 – 386Ig-likeAdd BLAST88
Domaini424 – 520Fibronectin type-IIIPROSITE-ProRule annotationAdd BLAST97

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi763 – 766PDZ-binding4

Domaini

The PDZ-binding motif is required for neurite outgrowth promotion. This motif is also involved in DLG1-, DLG3- and DLG4-binding (By similarity).By similarity

Sequence similaritiesi

Belongs to the LRFN family.Curated

Keywords - Domaini

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

Phylogenomic databases

eggNOGiKOG0619 Eukaryota
COG4886 LUCA
GeneTreeiENSGT00760000118831
HOGENOMiHOG000237343
HOVERGENiHBG052352
InParanoidiQ2WF71
KOiK16354
OMAiMLCAKTG
OrthoDBiEOG091G0360
PhylomeDBiQ2WF71
TreeFamiTF350185

Family and domain databases

CDDicd00063 FN3, 1 hit
Gene3Di2.60.40.10, 2 hits
3.80.10.10, 2 hits
InterProiView protein in InterPro
IPR000483 Cys-rich_flank_reg_C
IPR003961 FN3_dom
IPR036116 FN3_sf
IPR007110 Ig-like_dom
IPR036179 Ig-like_dom_sf
IPR013783 Ig-like_fold
IPR013098 Ig_I-set
IPR003599 Ig_sub
IPR003598 Ig_sub2
IPR001611 Leu-rich_rpt
IPR003591 Leu-rich_rpt_typical-subtyp
IPR032675 LRR_dom_sf
PfamiView protein in Pfam
PF00041 fn3, 1 hit
PF07679 I-set, 1 hit
PF13855 LRR_8, 2 hits
SMARTiView protein in SMART
SM00409 IG, 1 hit
SM00408 IGc2, 1 hit
SM00369 LRR_TYP, 6 hits
SM00082 LRRCT, 1 hit
SUPFAMiSSF48726 SSF48726, 1 hit
SSF49265 SSF49265, 1 hit
PROSITEiView protein in PROSITE
PS50853 FN3, 1 hit
PS50835 IG_LIKE, 1 hit
PS51450 LRR, 6 hits

Sequences (3)i

Sequence statusi: Complete.

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

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q2WF71-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MAPGPFSSGL FSPPPAALPF LLLLWAGASR GQPCPGRCIC QNVAPTLTML
60 70 80 90 100
CAKTGLLFVP PAIDRRVVEL RLTDNFIAAV RRRDFANMTS LVHLTLSRNT
110 120 130 140 150
IGQVAAGAFA DLRALRALHL DSNRLAEVRG DQLRGLGNLR HLILGNNQIR
160 170 180 190 200
KVESAAFDAF LSTVEDLDLS YNNLEALPWE AVGQMVNLNT LTLDHNLIDH
210 220 230 240 250
IAEGTFVQLH KLVRLDMTSN RLHKLPPDGL FLRSQGGGPK PPTPLTVSFG
260 270 280 290 300
GNPLHCNCEL LWLRRLTRED DLETCATPEH LTDRYFWSIP EEEFLCEPPL
310 320 330 340 350
ITRQAGGRAL VVEGQAVSLR CRAVGDPEPV VHWVAPDGRL LGNSSRTRVR
360 370 380 390 400
GDGTLDVTIT TLRDSGTFTC IASNAAGEAT APVEVCVVPL PLMAPPPAAP
410 420 430 440 450
PPLTEPGSSD IATPGRPGAN DSTSERRLVA AELTSSSVLI RWPAQRPVPG
460 470 480 490 500
IRMYQVQYNS SADDSLVYRM IPSTSQTFLV NDLAAGRAYD LCVLAVYDDG
510 520 530 540 550
ATALPATRVV GCVQFTTAGD PAPCRPLRAH FLGGTMIIAI GGVIVASVLV
560 570 580 590 600
FIVLLMIRYK VYGDGDSRRI KGTSRTPPRV SHVCSQTNGA GAQQASAPPA
610 620 630 640 650
PDRYEALREV AVPAAIEAKA MEAEATSTEL EVVLGRSLGG SATSLCLLPS
660 670 680 690 700
EETSGEESRA MTGPRRSRSG ALGPPTSAPP TLALVPGGAP ARPRPQQRYS
710 720 730 740 750
FDGDYGALFQ SHSYPRRARR TKRHRSTPHL DGAGGGAAGE DGDLGLGSAR
760
ARLAFTSTEW MLESTV
Length:766
Mass (Da):81,945
Last modified:January 10, 2006 - v1
Checksum:i316FE5D5BE48D3CE
GO
Isoform 2 (identifier: Q2WF71-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     469-492: RMIPSTSQTFLVNDLAAGRAYDLC → SSSCPGTHYVDQDGLEIRVPLASA
     493-766: Missing.

Note: No experimental confirmation available.
Show »
Length:492
Mass (Da):53,229
Checksum:i4D3254ACF4947830
GO
Isoform 3 (identifier: Q2WF71-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     470-766: Missing.

Note: No experimental confirmation available.
Show »
Length:469
Mass (Da):50,900
Checksum:i2F248B9C51546681
GO

Sequence cautioni

The sequence BAC41123 differs from that shown. Reason: Frameshift at position 440.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti9G → R in AAH04018 (PubMed:15489334).Curated1
Sequence conflicti31G → S in AAH04018 (PubMed:15489334).Curated1
Sequence conflicti87N → D in AAZ20639 (PubMed:16495444).Curated1
Sequence conflicti408S → F in BAC41123 (PubMed:16141072).Curated1
Sequence conflicti423 – 424TS → AT in AAH04018 (PubMed:15489334).Curated2

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_033618469 – 492RMIPS…AYDLC → SSSCPGTHYVDQDGLEIRVP LASA in isoform 2. 1 PublicationAdd BLAST24
Alternative sequenceiVSP_033617470 – 766Missing in isoform 3. 1 PublicationAdd BLAST297
Alternative sequenceiVSP_033619493 – 766Missing in isoform 2. 1 PublicationAdd BLAST274

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB243740 mRNA Translation: BAE53711.1
DQ070870 mRNA Translation: AAZ20639.1
DQ314497 mRNA Translation: ABC40967.1
AK090175 mRNA Translation: BAC41123.1 Frameshift.
BC004018 mRNA Translation: AAH04018.1
CCDSiCCDS21045.1 [Q2WF71-2]
CCDS52163.1 [Q2WF71-1]
RefSeqiNP_001135393.1, NM_001141921.1 [Q2WF71-1]
NP_085039.2, NM_030562.2 [Q2WF71-2]
XP_006540501.1, XM_006540438.1 [Q2WF71-1]
UniGeneiMm.483073

Genome annotation databases

EnsembliENSMUST00000055110; ENSMUSP00000057645; ENSMUSG00000030600 [Q2WF71-2]
ENSMUST00000108288; ENSMUSP00000103923; ENSMUSG00000030600 [Q2WF71-1]
ENSMUST00000189877; ENSMUSP00000139609; ENSMUSG00000030600 [Q2WF71-2]
GeneIDi80749
KEGGimmu:80749
UCSCiuc009fza.1 mouse [Q2WF71-1]
uc009fzb.2 mouse [Q2WF71-2]

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Entry informationi

Entry nameiLRFN1_MOUSE
AccessioniPrimary (citable) accession number: Q2WF71
Secondary accession number(s): Q460M4, Q8C1V9, Q99KT6
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 20, 2008
Last sequence update: January 10, 2006
Last modified: July 18, 2018
This is version 118 of the entry and version 1 of the sequence. See 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

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