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Protein

Leucine-rich repeat and fibronectin type-III domain-containing protein 3

Gene

LRFN3

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at transcript leveli

Functioni

Cell adhesion molecule that mediates homophilic cell-cell adhesion in a Ca2+-independent manner. Promotes neurite outgrowth in hippocampal neurons (By similarity).By similarity

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Cell adhesion

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 3
Alternative name(s):
Synaptic adhesion-like molecule 4
Gene namesi
Name:LRFN3
Synonyms:SALM4
ORF Names:UNQ5865/PRO34192
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 19

Organism-specific databases

HGNCiHGNC:28370. LRFN3.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini17 – 539523ExtracellularSequence analysisAdd
BLAST
Transmembranei540 – 56021HelicalSequence analysisAdd
BLAST
Topological domaini561 – 62868CytoplasmicSequence analysisAdd
BLAST

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

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

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA134880779.

Polymorphism and mutation databases

BioMutaiLRFN3.
DMDMi62286945.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 1616Sequence analysisAdd
BLAST
Chaini17 – 628612Leucine-rich repeat and fibronectin type-III domain-containing protein 3PRO_0000014841Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi81 – 811N-linked (GlcNAc...)Sequence analysis
Disulfide bondi317 ↔ 366PROSITE-ProRule annotation
Glycosylationi339 – 3391N-linked (GlcNAc...)Sequence analysis
Glycosylationi348 – 3481N-linked (GlcNAc...)Sequence analysis
Glycosylationi393 – 3931N-linked (GlcNAc...)Sequence analysis
Glycosylationi462 – 4621N-linked (GlcNAc...)Sequence analysis

Post-translational modificationi

N-glycosylated.By similarity

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

PaxDbiQ9BTN0.
PRIDEiQ9BTN0.

PTM databases

iPTMnetiQ9BTN0.
PhosphoSiteiQ9BTN0.

Expressioni

Gene expression databases

BgeeiQ9BTN0.
CleanExiHS_LRFN3.
GenevisibleiQ9BTN0. HS.

Organism-specific databases

HPAiHPA048923.

Interactioni

Subunit structurei

Can form heteromeric complexes with LRFN1, LRFN2, LRFN4 and LRFN5. Able to form homomeric complexes across cell junctions, between adjacent cells. Does not interact with DLG4 (By similarity).By similarity

Protein-protein interaction databases

BioGridi122664. 23 interactions.
STRINGi9606.ENSP00000246529.

Structurei

3D structure databases

ProteinModelPortaliQ9BTN0.
SMRiQ9BTN0. Positions 27-413.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini19 – 5941LRRNTAdd
BLAST
Repeati60 – 8324LRR 1Add
BLAST
Repeati84 – 10522LRR 2Add
BLAST
Repeati108 – 12922LRR 3Add
BLAST
Repeati132 – 15322LRR 4Add
BLAST
Repeati157 – 17822LRR 5Add
BLAST
Repeati181 – 20222LRR 6Add
BLAST
Repeati205 – 22622LRR 7Add
BLAST
Domaini249 – 29547LRRCTAdd
BLAST
Domaini295 – 38288Ig-likeAdd
BLAST
Domaini425 – 52399Fibronectin type-IIIPROSITE-ProRule annotationAdd
BLAST

Domaini

Lacks a cytoplasmic PDZ-binding domain, which has been implicated in function of related Lrfn proteins.

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.
InParanoidiQ9BTN0.
KOiK16356.
OMAiWAVGEEE.
OrthoDBiEOG75B84P.
PhylomeDBiQ9BTN0.

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.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

Q9BTN0-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAILPLLLCL LPLAPASSPP QSATPSPCPR RCRCQTQSLP LSVLCPGAGL
60 70 80 90 100
LFVPPSLDRR AAELRLADNF IASVRRRDLA NMTGLLHLSL SRNTIRHVAA
110 120 130 140 150
GAFADLRALR ALHLDGNRLT SLGEGQLRGL VNLRHLILSN NQLAALAAGA
160 170 180 190 200
LDDCAETLED LDLSYNNLEQ LPWEALGRLG NVNTLGLDHN LLASVPAGAF
210 220 230 240 250
SRLHKLARLD MTSNRLTTIP PDPLFSRLPL LARPRGSPAS ALVLAFGGNP
260 270 280 290 300
LHCNCELVWL RRLAREDDLE ACASPPALGG RYFWAVGEEE FVCEPPVVTH
310 320 330 340 350
RSPPLAVPAG RPAALRCRAV GDPEPRVRWV SPQGRLLGNS SRARAFPNGT
360 370 380 390 400
LELLVTEPGD GGIFTCIAAN AAGEATAAVE LTVGPPPPPQ LANSTSCDPP
410 420 430 440 450
RDGDPDALTP PSAASASAKV ADTGPPTDRG VQVTEHGATA ALVQWPDQRP
460 470 480 490 500
IPGIRMYQIQ YNSSADDILV YRMIPAESRS FLLTDLASGR TYDLCVLAVY
510 520 530 540 550
EDSATGLTAT RPVGCARFST EPALRPCGAP HAPFLGGTMI IALGGVIVAS
560 570 580 590 600
VLVFIFVLLM RYKVHGGQPP GKAKIPAPVS SVCSQTNGAL GPTPTPAPPA
610 620
PEPAALRAHT VVQLDCEPWG PGHEPVGP
Length:628
Mass (Da):66,260
Last modified:June 1, 2001 - v1
Checksum:iFEDC5A5056ABC5FC
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti197 – 1971Missing in AAQ88494 (PubMed:12975309).Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti14 – 141A → V.
Corresponds to variant rs34933126 [ dbSNP | Ensembl ].
VAR_049895

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK172754 mRNA. Translation: BAD18740.1.
AY358127 mRNA. Translation: AAQ88494.1.
BC003578 mRNA. Translation: AAH03578.1.
CCDSiCCDS12483.1.
RefSeqiNP_078785.1. NM_024509.1.
UniGeneiHs.143792.

Genome annotation databases

EnsembliENST00000246529; ENSP00000246529; ENSG00000126243.
ENST00000588831; ENSP00000466989; ENSG00000126243.
GeneIDi79414.
KEGGihsa:79414.
UCSCiuc002oco.4. human.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK172754 mRNA. Translation: BAD18740.1.
AY358127 mRNA. Translation: AAQ88494.1.
BC003578 mRNA. Translation: AAH03578.1.
CCDSiCCDS12483.1.
RefSeqiNP_078785.1. NM_024509.1.
UniGeneiHs.143792.

3D structure databases

ProteinModelPortaliQ9BTN0.
SMRiQ9BTN0. Positions 27-413.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi122664. 23 interactions.
STRINGi9606.ENSP00000246529.

PTM databases

iPTMnetiQ9BTN0.
PhosphoSiteiQ9BTN0.

Polymorphism and mutation databases

BioMutaiLRFN3.
DMDMi62286945.

Proteomic databases

PaxDbiQ9BTN0.
PRIDEiQ9BTN0.

Protocols and materials databases

DNASUi79414.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000246529; ENSP00000246529; ENSG00000126243.
ENST00000588831; ENSP00000466989; ENSG00000126243.
GeneIDi79414.
KEGGihsa:79414.
UCSCiuc002oco.4. human.

Organism-specific databases

CTDi79414.
GeneCardsiLRFN3.
HGNCiHGNC:28370. LRFN3.
HPAiHPA048923.
MIMi612809. gene.
neXtProtiNX_Q9BTN0.
PharmGKBiPA134880779.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0619. Eukaryota.
COG4886. LUCA.
GeneTreeiENSGT00760000118831.
HOGENOMiHOG000237343.
HOVERGENiHBG052352.
InParanoidiQ9BTN0.
KOiK16356.
OMAiWAVGEEE.
OrthoDBiEOG75B84P.
PhylomeDBiQ9BTN0.

Enzyme and pathway databases

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

Miscellaneous databases

ChiTaRSiLRFN3. human.
GenomeRNAii79414.
PROiQ9BTN0.
SOURCEiSearch...

Gene expression databases

BgeeiQ9BTN0.
CleanExiHS_LRFN3.
GenevisibleiQ9BTN0. 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]
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.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
    Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
    , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
    Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Smooth muscle cell.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
  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].
    Tissue: Lung.

Entry informationi

Entry nameiLRFN3_HUMAN
AccessioniPrimary (citable) accession number: Q9BTN0
Secondary accession number(s): Q6UY10
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 29, 2005
Last sequence update: June 1, 2001
Last modified: June 8, 2016
This is version 131 of the entry and version 1 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. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. 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.