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Protein

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

Gene

LRFN1

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-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 (By similarity).By similarity

GO - Biological processi

Complete GO annotation...

Enzyme and pathway databases

ReactomeiR-HSA-8849932. SALM protein interactions at the synapse.

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
Gene namesi
Name:LRFN1
Synonyms:KIAA1484, SALM2
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 19

Organism-specific databases

HGNCiHGNC:29290. LRFN1.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini32 – 536505ExtracellularSequence analysisAdd
BLAST
Transmembranei537 – 55721HelicalSequence analysisAdd
BLAST
Topological domaini558 – 771214CytoplasmicSequence analysisAdd
BLAST

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

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

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA134871732.

Polymorphism and mutation databases

BioMutaiLRFN1.
DMDMi189028858.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 3131Sequence analysisAdd
BLAST
Chaini32 – 771740Leucine-rich repeat and fibronectin type III domain-containing protein 1PRO_0000334145Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi87 – 871N-linked (GlcNAc...)Sequence analysis
Disulfide bondi321 ↔ 370PROSITE-ProRule annotation
Glycosylationi343 – 3431N-linked (GlcNAc...)Sequence analysis
Modified residuei613 – 6131PhosphoserineCombined sources

Post-translational modificationi

Glycosylated.By similarity

Keywords - PTMi

Disulfide bond, Glycoprotein, Phosphoprotein

Proteomic databases

MaxQBiQ9P244.
PaxDbiQ9P244.
PRIDEiQ9P244.

PTM databases

iPTMnetiQ9P244.
PhosphoSiteiQ9P244.

Expressioni

Gene expression databases

BgeeiQ9P244.
CleanExiHS_LRFN1.
GenevisibleiQ9P244. HS.

Organism-specific databases

HPAiHPA017383.

Interactioni

Subunit structurei

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

Protein-protein interaction databases

BioGridi121668. 18 interactions.
IntActiQ9P244. 1 interaction.
MINTiMINT-8247594.
STRINGi9606.ENSP00000248668.

Structurei

3D structure databases

ProteinModelPortaliQ9P244.
SMRiQ9P244. Positions 34-538.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini32 – 6534LRRNTAdd
BLAST
Repeati66 – 8722LRR 1Add
BLAST
Repeati90 – 11122LRR 2Add
BLAST
Repeati114 – 13522LRR 3Add
BLAST
Repeati138 – 15922LRR 4Add
BLAST
Repeati163 – 18422LRR 5Add
BLAST
Repeati187 – 20822LRR 6Add
BLAST
Repeati211 – 23222LRR 7Add
BLAST
Domaini252 – 29847LRRCTAdd
BLAST
Domaini299 – 38688Ig-likeAdd
BLAST
Domaini424 – 52097Fibronectin type-IIIPROSITE-ProRule annotationAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi768 – 7714PDZ-binding

Domaini

The PDZ-binding motif is required for neurite outgrowth promotion and for DLG1-, DLG3- and DLG4-binding.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.
InParanoidiQ9P244.
KOiK16354.
OMAiAVEAKAM.
OrthoDBiEOG75B84P.
PhylomeDBiQ9P244.
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]
SMARTiSM00060. FN3. 1 hit.
SM00409. 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.

Q9P244-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAPGPFSSAL LSPPPAALPF 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
RVESAAFDAF LSTVEDLDLS YNNLEALPWE AVGQMVNLNT LTLDHNLIDH
210 220 230 240 250
IAEGTFVQLH KLVRLDMTSN RLHKLPPDGL FLRSQGTGPK 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 DSAAERRLVA AELTSNSVLI RWPAQRPVPG
460 470 480 490 500
IRMYQVQYNS SVDDSLVYRM IPSTSQTFLV NDLAAGRAYD LCVLAVYDDG
510 520 530 540 550
ATALPATRVV GCVQFTTAGD PAPCRPLRAH FLGGTMIIAI GGVIVASVLV
560 570 580 590 600
FIVLLMIRYK VYGDGDSRRV KGSRSLPRVS HVCSQTNGAG TGAAQAPALP
610 620 630 640 650
AQDHYEALRE VESQAAPAVA VEAKAMEAET ASAEPEVVLG RSLGGSATSL
660 670 680 690 700
CLLPSEETSG EESRAAVGPR RSRSGALEPP TSAPPTLALV PGGAAARPRP
710 720 730 740 750
QQRYSFDGDY GALFQSHSYP RRARRTKRHR STPHLDGAGG GAAGEDGDLG
760 770
LGSARACLAF TSTEWMLEST V
Length:771
Mass (Da):82,318
Last modified:May 20, 2008 - v2
Checksum:i9B8D0CD3F1E7B9FC
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC011445 Genomic DNA. No translation available.
AB040917 mRNA. Translation: BAA96008.1.
BC025310 mRNA. Translation: AAH25310.1.
CCDSiCCDS46071.1.
RefSeqiNP_065913.1. NM_020862.1.
XP_005259159.1. XM_005259102.3.
UniGeneiHs.97860.

Genome annotation databases

EnsembliENST00000248668; ENSP00000248668; ENSG00000128011.
GeneIDi57622.
KEGGihsa:57622.
UCSCiuc002okw.3. human.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC011445 Genomic DNA. No translation available.
AB040917 mRNA. Translation: BAA96008.1.
BC025310 mRNA. Translation: AAH25310.1.
CCDSiCCDS46071.1.
RefSeqiNP_065913.1. NM_020862.1.
XP_005259159.1. XM_005259102.3.
UniGeneiHs.97860.

3D structure databases

ProteinModelPortaliQ9P244.
SMRiQ9P244. Positions 34-538.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi121668. 18 interactions.
IntActiQ9P244. 1 interaction.
MINTiMINT-8247594.
STRINGi9606.ENSP00000248668.

PTM databases

iPTMnetiQ9P244.
PhosphoSiteiQ9P244.

Polymorphism and mutation databases

BioMutaiLRFN1.
DMDMi189028858.

Proteomic databases

MaxQBiQ9P244.
PaxDbiQ9P244.
PRIDEiQ9P244.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000248668; ENSP00000248668; ENSG00000128011.
GeneIDi57622.
KEGGihsa:57622.
UCSCiuc002okw.3. human.

Organism-specific databases

CTDi57622.
GeneCardsiLRFN1.
H-InvDBHIX0015112.
HGNCiHGNC:29290. LRFN1.
HPAiHPA017383.
MIMi612807. gene.
neXtProtiNX_Q9P244.
PharmGKBiPA134871732.
HUGEiSearch...
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0619. Eukaryota.
COG4886. LUCA.
GeneTreeiENSGT00760000118831.
HOGENOMiHOG000237343.
HOVERGENiHBG052352.
InParanoidiQ9P244.
KOiK16354.
OMAiAVEAKAM.
OrthoDBiEOG75B84P.
PhylomeDBiQ9P244.
TreeFamiTF350185.

Enzyme and pathway databases

ReactomeiR-HSA-8849932. SALM protein interactions at the synapse.

Miscellaneous databases

ChiTaRSiLRFN1. human.
GenomeRNAii57622.
PROiQ9P244.
SOURCEiSearch...

Gene expression databases

BgeeiQ9P244.
CleanExiHS_LRFN1.
GenevisibleiQ9P244. HS.

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]
SMARTiSM00060. FN3. 1 hit.
SM00409. 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 DNA sequence and biology of human chromosome 19."
    Grimwood J., Gordon L.A., Olsen A.S., Terry A., Schmutz J., Lamerdin J.E., Hellsten U., Goodstein D., Couronne O., Tran-Gyamfi M., Aerts A., Altherr M., Ashworth L., Bajorek E., Black S., Branscomb E., Caenepeel S., Carrano A.V.
    , Caoile C., Chan Y.M., Christensen M., Cleland C.A., Copeland A., Dalin E., Dehal P., Denys M., Detter J.C., Escobar J., Flowers D., Fotopulos D., Garcia C., Georgescu A.M., Glavina T., Gomez M., Gonzales E., Groza M., Hammon N., Hawkins T., Haydu L., Ho I., Huang W., Israni S., Jett J., Kadner K., Kimball H., Kobayashi A., Larionov V., Leem S.-H., Lopez F., Lou Y., Lowry S., Malfatti S., Martinez D., McCready P.M., Medina C., Morgan J., Nelson K., Nolan M., Ovcharenko I., Pitluck S., Pollard M., Popkie A.P., Predki P., Quan G., Ramirez L., Rash S., Retterer J., Rodriguez A., Rogers S., Salamov A., Salazar A., She X., Smith D., Slezak T., Solovyev V., Thayer N., Tice H., Tsai M., Ustaszewska A., Vo N., Wagner M., Wheeler J., Wu K., Xie G., Yang J., Dubchak I., Furey T.S., DeJong P., Dickson M., Gordon D., Eichler E.E., Pennacchio L.A., Richardson P., Stubbs L., Rokhsar D.S., Myers R.M., Rubin E.M., Lucas S.M.
    Nature 428:529-535(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  2. "Prediction of the coding sequences of unidentified human genes. XVII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro."
    Nagase T., Kikuno R., Ishikawa K., Hirosawa M., Ohara O.
    DNA Res. 7:143-150(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 72-771.
    Tissue: Brain.
  3. "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] OF 230-771.
    Tissue: Uterus.
  4. "SALM synaptic cell adhesion-like molecules regulate the differentiation of excitatory synapses."
    Ko J., Kim S., Chung H.S., Kim K., Han K., Kim H., Jun H., Kaang B.-K., Kim E.
    Neuron 50:233-245(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH DLG1; DLG2; DLG3 AND DLG4.
  5. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-613, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Embryonic kidney.
  6. "Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions."
    Mayya V., Lundgren D.H., Hwang S.-I., Rezaul K., Wu L., Eng J.K., Rodionov V., Han D.K.
    Sci. Signal. 2:RA46-RA46(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Leukemic T-cell.

Entry informationi

Entry nameiLRFN1_HUMAN
AccessioniPrimary (citable) accession number: Q9P244
Secondary accession number(s): Q8TBS9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 20, 2008
Last sequence update: May 20, 2008
Last modified: June 8, 2016
This is version 124 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 19
    Human chromosome 19: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  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.