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Protein

Leucine-rich repeat-containing protein 4B

Gene

LRRC4B

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

Functioni

Synaptic adhesion protein. Regulates the formation of excitatory synapses. The trans-synaptic adhesion between LRRC4B and PTPRF regulates the formation of excitatory synapses in a bidirectional manner (By similarity).By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Enzyme and pathway databases

BioCyciZFISH:ENSG00000131409-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Leucine-rich repeat-containing protein 4B
Alternative name(s):
Netrin-G3 ligand
Short name:
NGL-3
Gene namesi
Name:LRRC4B
Synonyms:LRIG4
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 19

Organism-specific databases

HGNCiHGNC:25042. LRRC4B.

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini36 – 576ExtracellularSequence analysisAdd BLAST541
Transmembranei577 – 597HelicalSequence analysisAdd BLAST21
Topological domaini598 – 713CytoplasmicSequence analysisAdd BLAST116

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cell junction, Cell membrane, Membrane, Synapse

Pathology & Biotechi

Organism-specific databases

OpenTargetsiENSG00000131409.
PharmGKBiPA134890612.

Polymorphism and mutation databases

BioMutaiLRRC4B.
DMDMi91207142.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 35Sequence analysisAdd BLAST35
ChainiPRO_000023165436 – 713Leucine-rich repeat-containing protein 4BAdd BLAST678

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi224N-linked (GlcNAc...)Sequence analysis1
Glycosylationi283N-linked (GlcNAc...)Sequence analysis1
Glycosylationi333N-linked (GlcNAc...)Sequence analysis1
Glycosylationi374N-linked (GlcNAc...)Sequence analysis1
Disulfide bondi385 ↔ 436PROSITE-ProRule annotation
Glycosylationi400N-linked (GlcNAc...)Sequence analysis1
Glycosylationi422N-linked (GlcNAc...)Sequence analysis1
Glycosylationi425N-linked (GlcNAc...)Sequence analysis1
Glycosylationi444N-linked (GlcNAc...)Sequence analysis1
Glycosylationi452N-linked (GlcNAc...)Sequence analysis1
Modified residuei693PhosphoserineBy similarity1

Post-translational modificationi

N-glycosylated. O-glycosylated; contains sialic acid.By similarity

Keywords - PTMi

Disulfide bond, Glycoprotein, Phosphoprotein

Proteomic databases

EPDiQ9NT99.
MaxQBiQ9NT99.
PaxDbiQ9NT99.
PeptideAtlasiQ9NT99.
PRIDEiQ9NT99.

PTM databases

iPTMnetiQ9NT99.
PhosphoSitePlusiQ9NT99.

Expressioni

Gene expression databases

BgeeiENSG00000131409.
CleanExiHS_LRRC4B.
ExpressionAtlasiQ9NT99. baseline and differential.
GenevisibleiQ9NT99. HS.

Organism-specific databases

HPAiHPA058986.

Interactioni

Subunit structurei

Interacts with PTPRF. Interacts with DLG4.By similarity

Protein-protein interaction databases

BioGridi125098. 5 interactors.
STRINGi9606.ENSP00000373853.

Structurei

3D structure databases

ProteinModelPortaliQ9NT99.
SMRiQ9NT99.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini48 – 86LRRNTAdd BLAST39
Repeati87 – 108LRR 1Add BLAST22
Repeati111 – 132LRR 2Add BLAST22
Repeati135 – 156LRR 3Add BLAST22
Repeati159 – 180LRR 4Add BLAST22
Repeati183 – 205LRR 5Add BLAST23
Repeati208 – 229LRR 6Add BLAST22
Repeati230 – 251LRR 7Add BLAST22
Repeati254 – 275LRR 8Add BLAST22
Repeati278 – 299LRR 9Add BLAST22
Domaini311 – 363LRRCTAdd BLAST53
Domaini364 – 452Ig-like C2-typeAdd BLAST89

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi462 – 532Gly-richAdd BLAST71
Compositional biasi633 – 639Poly-Ala7

Domaini

The last 4 C-terminal residues bind to the first 2 PDZ domains of DLG4.By similarity

Sequence similaritiesi

Contains 9 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.
HOGENOMiHOG000252924.
HOVERGENiHBG052359.
InParanoidiQ9NT99.
KOiK16360.
OMAiTEGMGPG.
OrthoDBiEOG091G037N.
PhylomeDBiQ9NT99.
TreeFamiTF324303.

Family and domain databases

Gene3Di2.60.40.10. 1 hit.
3.80.10.10. 2 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.
IPR026883. LRRC4B.
IPR000372. LRRNT.
[Graphical view]
PANTHERiPTHR24369:SF66. PTHR24369:SF66. 4 hits.
PfamiPF07679. I-set. 1 hit.
PF13855. LRR_8. 3 hits.
[Graphical view]
SMARTiSM00409. IG. 1 hit.
SM00408. IGc2. 1 hit.
SM00369. LRR_TYP. 8 hits.
SM00082. LRRCT. 1 hit.
SM00013. LRRNT. 1 hit.
[Graphical view]
SUPFAMiSSF48726. SSF48726. 1 hit.
SSF52058. SSF52058. 1 hit.
PROSITEiPS50835. IG_LIKE. 1 hit.
PS51450. LRR. 7 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

Q9NT99-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MARARGSPCP PLPPGRMSWP HGALLFLWLF SPPLGAGGGG VAVTSAAGGG
60 70 80 90 100
SPPATSCPVA CSCSNQASRV ICTRRDLAEV PASIPVNTRY LNLQENGIQV
110 120 130 140 150
IRTDTFKHLR HLEILQLSKN LVRKIEVGAF NGLPSLNTLE LFDNRLTTVP
160 170 180 190 200
TQAFEYLSKL RELWLRNNPI ESIPSYAFNR VPSLRRLDLG ELKRLEYISE
210 220 230 240 250
AAFEGLVNLR YLNLGMCNLK DIPNLTALVR LEELELSGNR LDLIRPGSFQ
260 270 280 290 300
GLTSLRKLWL MHAQVATIER NAFDDLKSLE ELNLSHNNLM SLPHDLFTPL
310 320 330 340 350
HRLERVHLNH NPWHCNCDVL WLSWWLKETV PSNTTCCARC HAPAGLKGRY
360 370 380 390 400
IGELDQSHFT CYAPVIVEPP TDLNVTEGMA AELKCRTGTS MTSVNWLTPN
410 420 430 440 450
GTLMTHGSYR VRISVLHDGT LNFTNVTVQD TGQYTCMVTN SAGNTTASAT
460 470 480 490 500
LNVSAVDPVA AGGTGSGGGG PGGSGGVGGG SGGYTYFTTV TVETLETQPG
510 520 530 540 550
EEALQPRGTE KEPPGPTTDG VWGGGRPGDA AGPASSSTTA PAPRSSRPTE
560 570 580 590 600
KAFTVPITDV TENALKDLDD VMKTTKIIIG CFVAITFMAA VMLVAFYKLR
610 620 630 640 650
KQHQLHKHHG PTRTVEIINV EDELPAASAV SVAAAAAVAS GGGVGGDSHL
660 670 680 690 700
ALPALERDHL NHHHYVAAAF KAHYSSNPSG GGCGGKGPPG LNSIHEPLLF
710
KSGSKENVQE TQI
Length:713
Mass (Da):76,434
Last modified:April 4, 2006 - v3
Checksum:i085B5CACE28038D9
GO

Sequence cautioni

The sequence AAH19687 differs from that shown. Reason: Erroneous initiation.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti637 – 638AV → TA in AAH56207 (PubMed:15489334).Curated2

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC008743 Genomic DNA. No translation available.
BC019687 mRNA. Translation: AAH19687.1. Different initiation.
BC056207 mRNA. Translation: AAH56207.1.
AL137451 mRNA. Translation: CAB70743.2.
CCDSiCCDS42595.1.
PIRiT46266.
RefSeqiNP_001073926.1. NM_001080457.1.
XP_005259486.1. XM_005259429.4.
XP_006723569.1. XM_006723506.3.
XP_011525822.1. XM_011527520.2.
UniGeneiHs.120873.

Genome annotation databases

EnsembliENST00000389201; ENSP00000373853; ENSG00000131409.
ENST00000599957; ENSP00000471502; ENSG00000131409.
GeneIDi94030.
KEGGihsa:94030.
UCSCiuc002pss.4. human.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC008743 Genomic DNA. No translation available.
BC019687 mRNA. Translation: AAH19687.1. Different initiation.
BC056207 mRNA. Translation: AAH56207.1.
AL137451 mRNA. Translation: CAB70743.2.
CCDSiCCDS42595.1.
PIRiT46266.
RefSeqiNP_001073926.1. NM_001080457.1.
XP_005259486.1. XM_005259429.4.
XP_006723569.1. XM_006723506.3.
XP_011525822.1. XM_011527520.2.
UniGeneiHs.120873.

3D structure databases

ProteinModelPortaliQ9NT99.
SMRiQ9NT99.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi125098. 5 interactors.
STRINGi9606.ENSP00000373853.

PTM databases

iPTMnetiQ9NT99.
PhosphoSitePlusiQ9NT99.

Polymorphism and mutation databases

BioMutaiLRRC4B.
DMDMi91207142.

Proteomic databases

EPDiQ9NT99.
MaxQBiQ9NT99.
PaxDbiQ9NT99.
PeptideAtlasiQ9NT99.
PRIDEiQ9NT99.

Protocols and materials databases

DNASUi94030.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000389201; ENSP00000373853; ENSG00000131409.
ENST00000599957; ENSP00000471502; ENSG00000131409.
GeneIDi94030.
KEGGihsa:94030.
UCSCiuc002pss.4. human.

Organism-specific databases

CTDi94030.
GeneCardsiLRRC4B.
H-InvDBHIX0015363.
HGNCiHGNC:25042. LRRC4B.
HPAiHPA058986.
neXtProtiNX_Q9NT99.
OpenTargetsiENSG00000131409.
PharmGKBiPA134890612.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0619. Eukaryota.
COG4886. LUCA.
GeneTreeiENSGT00760000118831.
HOGENOMiHOG000252924.
HOVERGENiHBG052359.
InParanoidiQ9NT99.
KOiK16360.
OMAiTEGMGPG.
OrthoDBiEOG091G037N.
PhylomeDBiQ9NT99.
TreeFamiTF324303.

Enzyme and pathway databases

BioCyciZFISH:ENSG00000131409-MONOMER.

Miscellaneous databases

ChiTaRSiLRRC4B. human.
GenomeRNAii94030.
PROiQ9NT99.

Gene expression databases

BgeeiENSG00000131409.
CleanExiHS_LRRC4B.
ExpressionAtlasiQ9NT99. baseline and differential.
GenevisibleiQ9NT99. HS.

Family and domain databases

Gene3Di2.60.40.10. 1 hit.
3.80.10.10. 2 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.
IPR026883. LRRC4B.
IPR000372. LRRNT.
[Graphical view]
PANTHERiPTHR24369:SF66. PTHR24369:SF66. 4 hits.
PfamiPF07679. I-set. 1 hit.
PF13855. LRR_8. 3 hits.
[Graphical view]
SMARTiSM00409. IG. 1 hit.
SM00408. IGc2. 1 hit.
SM00369. LRR_TYP. 8 hits.
SM00082. LRRCT. 1 hit.
SM00013. LRRNT. 1 hit.
[Graphical view]
SUPFAMiSSF48726. SSF48726. 1 hit.
SSF52058. SSF52058. 1 hit.
PROSITEiPS50835. IG_LIKE. 1 hit.
PS51450. LRR. 7 hits.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiLRC4B_HUMAN
AccessioniPrimary (citable) accession number: Q9NT99
Secondary accession number(s): Q3ZCQ4, Q58F20
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 4, 2006
Last sequence update: April 4, 2006
Last modified: November 2, 2016
This is version 121 of the entry and version 3 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. 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.