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Protein

Leucine-rich repeat-containing protein 4C

Gene

LRRC4C

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

Functioni

May promote neurite outgrowth of developing thalamic neurons.1 Publication

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Enzyme and pathway databases

BioCyciZFISH:ENSG00000148948-MONOMER.
SIGNORiQ9HCJ2.

Names & Taxonomyi

Protein namesi
Recommended name:
Leucine-rich repeat-containing protein 4C
Alternative name(s):
Netrin-G1 ligand
Short name:
NGL-1
Gene namesi
Name:LRRC4C
Synonyms:KIAA1580, NGL1
ORF Names:UNQ292/PRO331
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 11

Organism-specific databases

HGNCiHGNC:29317. LRRC4C.

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transmembranei528 – 548HelicalSequence analysisAdd BLAST21

GO - Cellular componenti

  • cell junction Source: UniProtKB-KW
  • cytoplasm Source: GO_Central
  • extracellular space Source: UniProtKB
  • integral component of membrane Source: UniProtKB
  • membrane Source: UniProtKB
  • postsynaptic membrane Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

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

Pathology & Biotechi

Organism-specific databases

DisGeNETi57689.
OpenTargetsiENSG00000148948.
PharmGKBiPA142671534.

Polymorphism and mutation databases

BioMutaiLRRC4C.
DMDMi57012973.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 44Sequence analysisAdd BLAST44
ChainiPRO_000001510845 – 640Leucine-rich repeat-containing protein 4CAdd BLAST596

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Disulfide bondi375 ↔ 426PROSITE-ProRule annotation
Modified residuei631PhosphoserineBy similarity1

Keywords - PTMi

Disulfide bond, Phosphoprotein

Proteomic databases

PaxDbiQ9HCJ2.
PeptideAtlasiQ9HCJ2.
PRIDEiQ9HCJ2.

PTM databases

iPTMnetiQ9HCJ2.
PhosphoSitePlusiQ9HCJ2.

Expressioni

Tissue specificityi

Highly expressed in the cerebral cortex, including frontal, parietal and occipital lobes. Putamen, amygdala, hippocampus and medulla oblongata show moderate expression. Caudate nucleus and thalamus express small amounts, whereas other brain regions show very weak or no expression.1 Publication

Gene expression databases

BgeeiENSG00000148948.
CleanExiHS_LRRC4C.
ExpressionAtlasiQ9HCJ2. baseline and differential.
GenevisibleiQ9HCJ2. HS.

Organism-specific databases

HPAiHPA051335.

Interactioni

Subunit structurei

Interacts with NTNG1 and WHRN.2 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
NTNG1Q9Y2I24EBI-3925442,EBI-7444396
NTNG2Q96CW92EBI-3925442,EBI-750795

Protein-protein interaction databases

BioGridi121715. 25 interactors.
IntActiQ9HCJ2. 3 interactors.
MINTiMINT-3070603.
STRINGi9606.ENSP00000278198.

Structurei

Secondary structure

1640
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi49 – 53Combined sources5
Beta strandi59 – 61Combined sources3
Beta strandi79 – 82Combined sources4
Turni93 – 96Combined sources4
Beta strandi104 – 106Combined sources3
Helixi117 – 120Combined sources4
Beta strandi128 – 130Combined sources3
Turni141 – 143Combined sources3
Beta strandi152 – 154Combined sources3
Turni165 – 170Combined sources6
Beta strandi176 – 178Combined sources3
Turni190 – 195Combined sources6
Beta strandi201 – 203Combined sources3
Beta strandi223 – 225Combined sources3
Turni236 – 241Combined sources6
Beta strandi247 – 249Combined sources3
Beta strandi271 – 273Combined sources3
Turni284 – 287Combined sources4
Beta strandi295 – 297Combined sources3
Helixi310 – 317Combined sources8
Beta strandi329 – 333Combined sources5
Turni334 – 338Combined sources5
Beta strandi356 – 358Combined sources3
Beta strandi363 – 366Combined sources4
Beta strandi376 – 379Combined sources4
Beta strandi382 – 387Combined sources6
Beta strandi393 – 398Combined sources6
Beta strandi401 – 405Combined sources5
Beta strandi411 – 415Combined sources5
Beta strandi422 – 429Combined sources8
Beta strandi434 – 444Combined sources11

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3ZYJX-ray3.25A/C44-444[»]
ProteinModelPortaliQ9HCJ2.
SMRiQ9HCJ2.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini45 – 76LRRNTAdd BLAST32
Repeati77 – 98LRR 1Add BLAST22
Repeati101 – 122LRR 2Add BLAST22
Repeati125 – 146LRR 3Add BLAST22
Repeati149 – 170LRR 4Add BLAST22
Repeati173 – 195LRR 5Add BLAST23
Repeati198 – 219LRR 6Add BLAST22
Repeati220 – 241LRR 7Add BLAST22
Repeati244 – 265LRR 8Add BLAST22
Repeati268 – 289LRR 9Add BLAST22
Domaini301 – 353LRRCTAdd BLAST53
Domaini354 – 442Ig-like C2-typeAdd BLAST89

Domaini

The LRR region is both necessary and sufficient for the interaction with NTNG1.

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.
InParanoidiQ9HCJ2.
KOiK07523.
OMAiIMTHGAY.
OrthoDBiEOG091G037N.
PhylomeDBiQ9HCJ2.
TreeFamiTF324303.

Family and domain databases

Gene3Di2.60.40.10. 1 hit.
3.80.10.10. 2 hits.
InterProiIPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR013098. Ig_I-set.
IPR003599. Ig_sub.
IPR003598. Ig_sub2.
IPR013106. Ig_V-set.
IPR032675. L_dom-like.
IPR001611. Leu-rich_rpt.
IPR003591. Leu-rich_rpt_typical-subtyp.
IPR026906. LRR_5.
IPR026878. LRRC4C.
IPR000372. LRRNT.
[Graphical view]
PANTHERiPTHR24369:SF8. PTHR24369:SF8. 2 hits.
PfamiPF07679. I-set. 1 hit.
PF13306. LRR_5. 1 hit.
PF13855. LRR_8. 1 hit.
[Graphical view]
SMARTiSM00409. IG. 1 hit.
SM00408. IGc2. 1 hit.
SM00406. IGv. 1 hit.
SM00369. LRR_TYP. 8 hits.
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.

Q9HCJ2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLNKMTLHPQ QIMIGPRFNR ALFDPLLVVL LALQLLVVAG LVRAQTCPSV
60 70 80 90 100
CSCSNQFSKV ICVRKNLREV PDGISTNTRL LNLHENQIQI IKVNSFKHLR
110 120 130 140 150
HLEILQLSRN HIRTIEIGAF NGLANLNTLE LFDNRLTTIP NGAFVYLSKL
160 170 180 190 200
KELWLRNNPI ESIPSYAFNR IPSLRRLDLG ELKRLSYISE GAFEGLSNLR
210 220 230 240 250
YLNLAMCNLR EIPNLTPLIK LDELDLSGNH LSAIRPGSFQ GLMHLQKLWM
260 270 280 290 300
IQSQIQVIER NAFDNLQSLV EINLAHNNLT LLPHDLFTPL HHLERIHLHH
310 320 330 340 350
NPWNCNCDIL WLSWWIKDMA PSNTACCARC NTPPNLKGRY IGELDQNYFT
360 370 380 390 400
CYAPVIVEPP ADLNVTEGMA AELKCRASTS LTSVSWITPN GTVMTHGAYK
410 420 430 440 450
VRIAVLSDGT LNFTNVTVQD TGMYTCMVSN SVGNTTASAT LNVTAATTTP
460 470 480 490 500
FSYFSTVTVE TMEPSQDEAR TTDNNVGPTP VVDWETTNVT TSLTPQSTRS
510 520 530 540 550
TEKTFTIPVT DINSGIPGID EVMKTTKIII GCFVAITLMA AVMLVIFYKM
560 570 580 590 600
RKQHHRQNHH APTRTVEIIN VDDEITGDTP MESHLPMPAI EHEHLNHYNS
610 620 630 640
YKSPFNHTTT VNTINSIHSS VHEPLLIRMN SKDNVQETQI
Length:640
Mass (Da):71,950
Last modified:March 1, 2001 - v1
Checksum:i6058974872636838
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB046800 mRNA. Translation: BAB13406.1.
AY358293 mRNA. Translation: AAQ88660.1.
AK289646 mRNA. Translation: BAF82335.1.
CH471064 Genomic DNA. Translation: EAW68107.1.
BC041374 mRNA. Translation: AAH41374.3.
CCDSiCCDS31464.1.
RefSeqiNP_001245348.1. NM_001258419.1.
NP_065980.1. NM_020929.2.
XP_011518540.1. XM_011520238.2.
XP_011518541.1. XM_011520239.2.
XP_011518542.1. XM_011520240.2.
XP_011518543.1. XM_011520241.2.
XP_011518544.1. XM_011520242.2.
XP_011518545.1. XM_011520243.2.
XP_011518546.1. XM_011520244.2.
XP_016873559.1. XM_017018070.1.
XP_016873560.1. XM_017018071.1.
XP_016873561.1. XM_017018072.1.
XP_016873562.1. XM_017018073.1.
XP_016873563.1. XM_017018074.1.
XP_016873564.1. XM_017018075.1.
XP_016873565.1. XM_017018076.1.
XP_016873566.1. XM_017018077.1.
XP_016873567.1. XM_017018078.1.
XP_016873568.1. XM_017018079.1.
UniGeneiHs.745123.

Genome annotation databases

EnsembliENST00000278198; ENSP00000278198; ENSG00000148948.
ENST00000527150; ENSP00000436976; ENSG00000148948.
ENST00000528697; ENSP00000437132; ENSG00000148948.
ENST00000530763; ENSP00000434761; ENSG00000148948.
ENST00000619527; ENSP00000480903; ENSG00000148948.
GeneIDi57689.
KEGGihsa:57689.
UCSCiuc031pzt.2. human.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB046800 mRNA. Translation: BAB13406.1.
AY358293 mRNA. Translation: AAQ88660.1.
AK289646 mRNA. Translation: BAF82335.1.
CH471064 Genomic DNA. Translation: EAW68107.1.
BC041374 mRNA. Translation: AAH41374.3.
CCDSiCCDS31464.1.
RefSeqiNP_001245348.1. NM_001258419.1.
NP_065980.1. NM_020929.2.
XP_011518540.1. XM_011520238.2.
XP_011518541.1. XM_011520239.2.
XP_011518542.1. XM_011520240.2.
XP_011518543.1. XM_011520241.2.
XP_011518544.1. XM_011520242.2.
XP_011518545.1. XM_011520243.2.
XP_011518546.1. XM_011520244.2.
XP_016873559.1. XM_017018070.1.
XP_016873560.1. XM_017018071.1.
XP_016873561.1. XM_017018072.1.
XP_016873562.1. XM_017018073.1.
XP_016873563.1. XM_017018074.1.
XP_016873564.1. XM_017018075.1.
XP_016873565.1. XM_017018076.1.
XP_016873566.1. XM_017018077.1.
XP_016873567.1. XM_017018078.1.
XP_016873568.1. XM_017018079.1.
UniGeneiHs.745123.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3ZYJX-ray3.25A/C44-444[»]
ProteinModelPortaliQ9HCJ2.
SMRiQ9HCJ2.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi121715. 25 interactors.
IntActiQ9HCJ2. 3 interactors.
MINTiMINT-3070603.
STRINGi9606.ENSP00000278198.

PTM databases

iPTMnetiQ9HCJ2.
PhosphoSitePlusiQ9HCJ2.

Polymorphism and mutation databases

BioMutaiLRRC4C.
DMDMi57012973.

Proteomic databases

PaxDbiQ9HCJ2.
PeptideAtlasiQ9HCJ2.
PRIDEiQ9HCJ2.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000278198; ENSP00000278198; ENSG00000148948.
ENST00000527150; ENSP00000436976; ENSG00000148948.
ENST00000528697; ENSP00000437132; ENSG00000148948.
ENST00000530763; ENSP00000434761; ENSG00000148948.
ENST00000619527; ENSP00000480903; ENSG00000148948.
GeneIDi57689.
KEGGihsa:57689.
UCSCiuc031pzt.2. human.

Organism-specific databases

CTDi57689.
DisGeNETi57689.
GeneCardsiLRRC4C.
HGNCiHGNC:29317. LRRC4C.
HPAiHPA051335.
MIMi608817. gene.
neXtProtiNX_Q9HCJ2.
OpenTargetsiENSG00000148948.
PharmGKBiPA142671534.
HUGEiSearch...
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0619. Eukaryota.
COG4886. LUCA.
GeneTreeiENSGT00760000118831.
HOGENOMiHOG000252924.
HOVERGENiHBG052359.
InParanoidiQ9HCJ2.
KOiK07523.
OMAiIMTHGAY.
OrthoDBiEOG091G037N.
PhylomeDBiQ9HCJ2.
TreeFamiTF324303.

Enzyme and pathway databases

BioCyciZFISH:ENSG00000148948-MONOMER.
SIGNORiQ9HCJ2.

Miscellaneous databases

ChiTaRSiLRRC4C. human.
GenomeRNAii57689.
PROiQ9HCJ2.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000148948.
CleanExiHS_LRRC4C.
ExpressionAtlasiQ9HCJ2. baseline and differential.
GenevisibleiQ9HCJ2. HS.

Family and domain databases

Gene3Di2.60.40.10. 1 hit.
3.80.10.10. 2 hits.
InterProiIPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR013098. Ig_I-set.
IPR003599. Ig_sub.
IPR003598. Ig_sub2.
IPR013106. Ig_V-set.
IPR032675. L_dom-like.
IPR001611. Leu-rich_rpt.
IPR003591. Leu-rich_rpt_typical-subtyp.
IPR026906. LRR_5.
IPR026878. LRRC4C.
IPR000372. LRRNT.
[Graphical view]
PANTHERiPTHR24369:SF8. PTHR24369:SF8. 2 hits.
PfamiPF07679. I-set. 1 hit.
PF13306. LRR_5. 1 hit.
PF13855. LRR_8. 1 hit.
[Graphical view]
SMARTiSM00409. IG. 1 hit.
SM00408. IGc2. 1 hit.
SM00406. IGv. 1 hit.
SM00369. LRR_TYP. 8 hits.
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 nameiLRC4C_HUMAN
AccessioniPrimary (citable) accession number: Q9HCJ2
Secondary accession number(s): A8K0T1, Q7L0N3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 4, 2005
Last sequence update: March 1, 2001
Last modified: November 2, 2016
This is version 135 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 11
    Human chromosome 11: 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. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. 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.