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Protein

Neuroligin-4, Y-linked

Gene

NLGN4Y

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

Functioni

Putative neuronal cell surface protein involved in cell-cell-interactions.

GO - Molecular functioni

  • carboxylic ester hydrolase activity Source: GO_Central
  • cell adhesion molecule binding Source: BHF-UCL
  • neurexin family protein binding Source: GO_Central
  • receptor activity Source: GO_Central
  • scaffold protein binding Source: BHF-UCL

GO - Biological processi

  • learning Source: BHF-UCL
  • modulation of synaptic transmission Source: GO_Central
  • neuron cell-cell adhesion Source: BHF-UCL
  • social behavior Source: BHF-UCL
  • synapse assembly Source: GO_Central
  • vocalization behavior Source: BHF-UCL
Complete GO annotation...

Keywords - Biological processi

Cell adhesion

Protein family/group databases

ESTHERihuman-NLGN4Y. Neuroligin.
MEROPSiS09.989.

Names & Taxonomyi

Protein namesi
Recommended name:
Neuroligin-4, Y-linked
Short name:
Neuroligin Y
Gene namesi
Name:NLGN4Y
Synonyms:KIAA0951
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome Y

Organism-specific databases

HGNCiHGNC:15529. NLGN4Y.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini44 – 676633ExtracellularSequence analysisAdd
BLAST
Transmembranei677 – 69721HelicalSequence analysisAdd
BLAST
Topological domaini698 – 816119CytoplasmicSequence 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

PharmGKBiPA38386.

Polymorphism and mutation databases

BioMutaiNLGN4Y.
DMDMi31076823.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 4343Sequence analysisAdd
BLAST
Chaini44 – 816773Neuroligin-4, Y-linkedPRO_0000008649Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi102 – 1021N-linked (GlcNAc...)Sequence analysis
Disulfide bondi110 ↔ 146By similarity
Disulfide bondi306 ↔ 317By similarity
Disulfide bondi476 ↔ 510By similarity
Glycosylationi511 – 5111N-linked (GlcNAc...)Sequence analysis
Modified residuei712 – 7121PhosphoserineBy similarity
Modified residuei760 – 7601PhosphotyrosineBy similarity

Keywords - PTMi

Disulfide bond, Glycoprotein, Phosphoprotein

Proteomic databases

PaxDbiQ8NFZ3.
PRIDEiQ8NFZ3.

PTM databases

iPTMnetiQ8NFZ3.
PhosphoSiteiQ8NFZ3.

Expressioni

Tissue specificityi

Expressed in fetal and adult brain, prostate and testis.1 Publication

Gene expression databases

BgeeiQ8NFZ3.
CleanExiHS_NLGN4Y.
ExpressionAtlasiQ8NFZ3. baseline and differential.
GenevisibleiQ8NFZ3. HS.

Organism-specific databases

HPAiHPA001651.

Interactioni

Subunit structurei

Homodimer. Interacts with NRXN1 in a calcium-dependent manner. Interacts through its C-terminus with DLG4/PSD-95 third PDZ domain (By similarity).By similarity

GO - Molecular functioni

  • cell adhesion molecule binding Source: BHF-UCL
  • neurexin family protein binding Source: GO_Central
  • scaffold protein binding Source: BHF-UCL

Protein-protein interaction databases

BioGridi116504. 3 interactions.
STRINGi9606.ENSP00000342535.

Structurei

3D structure databases

ProteinModelPortaliQ8NFZ3.
SMRiQ8NFZ3. Positions 41-599.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni359 – 3646Interaction with NRXN1By similarity

Sequence similaritiesi

Keywords - Domaini

Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG1516. Eukaryota.
COG2272. LUCA.
GeneTreeiENSGT00760000118946.
HOGENOMiHOG000148743.
HOVERGENiHBG008839.
InParanoidiQ8NFZ3.
OrthoDBiEOG7RBZ7R.
PhylomeDBiQ8NFZ3.
TreeFamiTF326187.

Family and domain databases

Gene3Di3.40.50.1820. 1 hit.
InterProiIPR029058. AB_hydrolase.
IPR002018. CarbesteraseB.
IPR019819. Carboxylesterase_B_CS.
IPR000460. Nlgn.
IPR030025. NLGN4.
[Graphical view]
PANTHERiPTHR11559:SF260. PTHR11559:SF260. 1 hit.
PfamiPF00135. COesterase. 1 hit.
[Graphical view]
PRINTSiPR01090. NEUROLIGIN.
SUPFAMiSSF53474. SSF53474. 1 hit.
PROSITEiPS00941. CARBOXYLESTERASE_B_2. 1 hit.
[Graphical view]

Sequences (4)i

Sequence statusi: Complete.

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

This entry describes 4 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q8NFZ3-1) [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
MLRPQGLLWL PLLFTSVCVM LNSNVLLWIT ALAIKFTLID SQAQYPVVNT
60 70 80 90 100
NYGKIQGLRT PLPSEILGPV EQYLGVPYAS PPTGERRFQP PESPSSWTGI
110 120 130 140 150
RNATQFSAVC PQHLDERFLL HDMLPIWFTT SLDTLMTYVQ DQNEDCLYLN
160 170 180 190 200
IYVPMEDDIH EQNSKKPVMV YIHGGSYMEG TGNMIDGSIL ASYGNVIVIT
210 220 230 240 250
INYRLGILGF LSTGDQAAKG NYGLLDQIQA LRWIEENVGA FGGDPKRVTI
260 270 280 290 300
FGSGAGASCV SLLTLSHYSE GLFQKAIIQS GTALSSWAVN YQPAKYTRIL
310 320 330 340 350
ADKVGCNMLD TTDMVECLKN KNYKELIQQT ITPATYHIAF GPVIDGDVIP
360 370 380 390 400
DDPQILMEQG EFLNYDIMLG VNQGEGLKFV DGIVDNEDGV TPNDFDFSVS
410 420 430 440 450
NFVDNLYGYP EGKDTLRETI KFMYTDWADK ENPETRRKTL VALFTDHQWV
460 470 480 490 500
APAVATADLH AQYGSPTYFY AFYHHCQSEM KPSWADSAHG DEVPYVFGIP
510 520 530 540 550
MIGPTELFSC NFSKNDVMLS AVVMTYWTNF AKTGDPNQPV PQDTKFIHTK
560 570 580 590 600
PNRFEEVAWS KYNPKDQLYL HIGLKPRVRD HYRATKVAFW LELVPHLHNL
610 620 630 640 650
NEIFQYVSTT TKVPPPDMTS FPYGTRRSPA KIWPTTKRPA ITPANNPKHS
660 670 680 690 700
KDPHKTGPED TTVLIETKRD YSTELSVTIA VGASLLFLNI LAFAALYYKK
710 720 730 740 750
DKRRHETHRH PSPQRNTTND ITHIQNEEIM SLQMKQLEHD HECESLQAHD
760 770 780 790 800
TLRLTCPPDY TLTLRRSPDD IPFMTPNTIT MIPNTLMGMQ PLHTFKTFSG
810
GQNSTNLPHG HSTTRV
Length:816
Mass (Da):92,021
Last modified:October 1, 2002 - v1
Checksum:iFB68910773B1BBF6
GO
Isoform 2 (identifier: Q8NFZ3-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-168: Missing.

Note: No experimental confirmation available.
Show »
Length:648
Mass (Da):72,885
Checksum:i1A2E6727A709BFBC
GO
Isoform 3 (identifier: Q8NFZ3-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-122: Missing.
     157-157: D → DGTNIKRNADDITSNDHGEDK
     210-236: FLSTGDQAAKGNYGLLDQIQALRWIEE → MQEARLCGSSKMFNYFKSPFTNLINFF
     237-816: Missing.

Note: No experimental confirmation available.
Show »
Length:134
Mass (Da):15,225
Checksum:i91ADC5AA38A2EECD
GO
Isoform 4 (identifier: Q8NFZ3-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     157-157: D → DGTNIKRNADDITSNDHGEDK
     210-236: FLSTGDQAAKGNYGLLDQIQALRWIEE → MQEARLCGSSKMFNYFKSPFTNLINFF
     237-816: Missing.

Note: No experimental confirmation available.
Show »
Length:256
Mass (Da):28,885
Checksum:i4D72B76AC6F59DDB
GO

Sequence cautioni

The sequence BAA76795.2 differs from that shown. Reason: Erroneous initiation. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti203 – 2031Y → C in CAD97670 (PubMed:17974005).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 168168Missing in isoform 2. 1 PublicationVSP_007537Add
BLAST
Alternative sequencei1 – 122122Missing in isoform 3. 1 PublicationVSP_044852Add
BLAST
Alternative sequencei157 – 1571D → DGTNIKRNADDITSNDHGED K in isoform 3 and isoform 4. 1 PublicationVSP_044853
Alternative sequencei210 – 23627FLSTG…RWIEE → MQEARLCGSSKMFNYFKSPF TNLINFF in isoform 3 and isoform 4. 1 PublicationVSP_044854Add
BLAST
Alternative sequencei237 – 816580Missing in isoform 3 and isoform 4. 1 PublicationVSP_044855Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF376804 mRNA. Translation: AAM46113.1.
AB023168 mRNA. Translation: BAA76795.2. Different initiation.
BX537428 mRNA. Translation: CAD97670.1.
AC010726 Genomic DNA. No translation available.
AC010879 Genomic DNA. No translation available.
AC010979 Genomic DNA. No translation available.
AC011903 Genomic DNA. No translation available.
BC032567 mRNA. Translation: AAH32567.1.
BC113525 mRNA. Translation: AAI13526.1.
BC113551 mRNA. Translation: AAI13552.1.
CCDSiCCDS14788.1. [Q8NFZ3-1]
CCDS55553.1. [Q8NFZ3-4]
CCDS56619.1. [Q8NFZ3-2]
RefSeqiNP_001157710.1. NM_001164238.1. [Q8NFZ3-4]
NP_001193779.1. NM_001206850.1. [Q8NFZ3-2]
NP_055708.3. NM_014893.4. [Q8NFZ3-1]
XP_011529733.1. XM_011531431.1. [Q8NFZ3-4]
UniGeneiHs.439199.
Hs.694600.

Genome annotation databases

EnsembliENST00000297967; ENSP00000297967; ENSG00000165246. [Q8NFZ3-4]
ENST00000339174; ENSP00000342535; ENSG00000165246. [Q8NFZ3-1]
ENST00000355905; ENSP00000348169; ENSG00000165246. [Q8NFZ3-1]
ENST00000382872; ENSP00000372325; ENSG00000165246. [Q8NFZ3-2]
GeneIDi22829.
KEGGihsa:22829.
UCSCiuc004fte.3. human. [Q8NFZ3-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF376804 mRNA. Translation: AAM46113.1.
AB023168 mRNA. Translation: BAA76795.2. Different initiation.
BX537428 mRNA. Translation: CAD97670.1.
AC010726 Genomic DNA. No translation available.
AC010879 Genomic DNA. No translation available.
AC010979 Genomic DNA. No translation available.
AC011903 Genomic DNA. No translation available.
BC032567 mRNA. Translation: AAH32567.1.
BC113525 mRNA. Translation: AAI13526.1.
BC113551 mRNA. Translation: AAI13552.1.
CCDSiCCDS14788.1. [Q8NFZ3-1]
CCDS55553.1. [Q8NFZ3-4]
CCDS56619.1. [Q8NFZ3-2]
RefSeqiNP_001157710.1. NM_001164238.1. [Q8NFZ3-4]
NP_001193779.1. NM_001206850.1. [Q8NFZ3-2]
NP_055708.3. NM_014893.4. [Q8NFZ3-1]
XP_011529733.1. XM_011531431.1. [Q8NFZ3-4]
UniGeneiHs.439199.
Hs.694600.

3D structure databases

ProteinModelPortaliQ8NFZ3.
SMRiQ8NFZ3. Positions 41-599.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi116504. 3 interactions.
STRINGi9606.ENSP00000342535.

Protein family/group databases

ESTHERihuman-NLGN4Y. Neuroligin.
MEROPSiS09.989.

PTM databases

iPTMnetiQ8NFZ3.
PhosphoSiteiQ8NFZ3.

Polymorphism and mutation databases

BioMutaiNLGN4Y.
DMDMi31076823.

Proteomic databases

PaxDbiQ8NFZ3.
PRIDEiQ8NFZ3.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000297967; ENSP00000297967; ENSG00000165246. [Q8NFZ3-4]
ENST00000339174; ENSP00000342535; ENSG00000165246. [Q8NFZ3-1]
ENST00000355905; ENSP00000348169; ENSG00000165246. [Q8NFZ3-1]
ENST00000382872; ENSP00000372325; ENSG00000165246. [Q8NFZ3-2]
GeneIDi22829.
KEGGihsa:22829.
UCSCiuc004fte.3. human. [Q8NFZ3-1]

Organism-specific databases

CTDi22829.
GeneCardsiNLGN4Y.
HGNCiHGNC:15529. NLGN4Y.
HPAiHPA001651.
MIMi400028. gene.
neXtProtiNX_Q8NFZ3.
PharmGKBiPA38386.
HUGEiSearch...
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG1516. Eukaryota.
COG2272. LUCA.
GeneTreeiENSGT00760000118946.
HOGENOMiHOG000148743.
HOVERGENiHBG008839.
InParanoidiQ8NFZ3.
OrthoDBiEOG7RBZ7R.
PhylomeDBiQ8NFZ3.
TreeFamiTF326187.

Miscellaneous databases

ChiTaRSiNLGN4Y. human.
GenomeRNAii22829.
PROiQ8NFZ3.
SOURCEiSearch...

Gene expression databases

BgeeiQ8NFZ3.
CleanExiHS_NLGN4Y.
ExpressionAtlasiQ8NFZ3. baseline and differential.
GenevisibleiQ8NFZ3. HS.

Family and domain databases

Gene3Di3.40.50.1820. 1 hit.
InterProiIPR029058. AB_hydrolase.
IPR002018. CarbesteraseB.
IPR019819. Carboxylesterase_B_CS.
IPR000460. Nlgn.
IPR030025. NLGN4.
[Graphical view]
PANTHERiPTHR11559:SF260. PTHR11559:SF260. 1 hit.
PfamiPF00135. COesterase. 1 hit.
[Graphical view]
PRINTSiPR01090. NEUROLIGIN.
SUPFAMiSSF53474. SSF53474. 1 hit.
PROSITEiPS00941. CARBOXYLESTERASE_B_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
  2. "Prediction of the coding sequences of unidentified human genes. XIII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro."
    Nagase T., Ishikawa K., Suyama M., Kikuno R., Hirosawa M., Miyajima N., Tanaka A., Kotani H., Nomura N., Ohara O.
    DNA Res. 6:63-70(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
    Tissue: Brain.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    Tissue: Fetal kidney.
  4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA], TISSUE SPECIFICITY.
  5. "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] (ISOFORMS 1 AND 3).
    Tissue: Brain and Pancreas.

Entry informationi

Entry nameiNLGNY_HUMAN
AccessioniPrimary (citable) accession number: Q8NFZ3
Secondary accession number(s): F5H6W0
, Q14D08, Q7Z3T5, Q8N5B6, Q9Y2F8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 23, 2003
Last sequence update: October 1, 2002
Last modified: June 8, 2016
This is version 133 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 Y
    Human chromosome Y: 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.