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Protein

Leucine-rich repeat transmembrane neuronal protein 4

Gene

LRRTM4

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

Functioni

May play a role in the development and maintenance of the vertebrate nervous system. Exhibits strong synaptogenic activity, restricted to excitatory presynaptic differentiation (By similarity).By similarity

Enzyme and pathway databases

ReactomeiR-HSA-6794361 Neurexins and neuroligins

Names & Taxonomyi

Protein namesi
Recommended name:
Leucine-rich repeat transmembrane neuronal protein 4
Gene namesi
Name:LRRTM4
ORF Names:UNQ3075/PRO9907
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 2

Organism-specific databases

EuPathDBiHostDB:ENSG00000176204.13
HGNCiHGNC:19411 LRRTM4
MIMi610870 gene
neXtProtiNX_Q86VH4

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini31 – 424ExtracellularSequence analysisAdd BLAST394
Transmembranei425 – 445HelicalSequence analysisAdd BLAST21
Topological domaini446 – 590CytoplasmicSequence analysisAdd BLAST145

Keywords - Cellular componenti

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

Pathology & Biotechi

Organism-specific databases

DisGeNETi80059
OpenTargetsiENSG00000176204
PharmGKBiPA134972631

Polymorphism and mutation databases

BioMutaiLRRTM4
DMDMi166897996

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 30Sequence analysisAdd BLAST30
ChainiPRO_000001835831 – 590Leucine-rich repeat transmembrane neuronal protein 4Add BLAST560

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi58N-linked (GlcNAc...) asparagineSequence analysis1
Glycosylationi126N-linked (GlcNAc...) asparagineSequence analysis1
Glycosylationi291N-linked (GlcNAc...) asparagineSequence analysis1

Keywords - PTMi

Glycoprotein

Proteomic databases

MaxQBiQ86VH4
PaxDbiQ86VH4
PeptideAtlasiQ86VH4
PRIDEiQ86VH4
ProteomicsDBi70018
70019 [Q86VH4-2]

PTM databases

iPTMnetiQ86VH4
PhosphoSitePlusiQ86VH4

Expressioni

Tissue specificityi

Expressed in neuronal tissues.1 Publication

Gene expression databases

BgeeiENSG00000176204 Expressed in 89 organ(s), highest expression level in secondary oocyte
CleanExiHS_LRRTM4
ExpressionAtlasiQ86VH4 baseline and differential
GenevisibleiQ86VH4 HS

Interactioni

Subunit structurei

Peripherally associated with AMPAR complex. AMPAR complex consists of an inner core made of 4 pore-forming GluA/GRIA proteins (GRIA1, GRIA2, GRIA3 and GRIA4) and 4 major auxiliary subunits arranged in a twofold symmetry. One of the two pairs of distinct binding sites is occupied either by CNIH2, CNIH3 or CACNG2, CACNG3. The other harbors CACNG2, CACNG3, CACNG4, CACNG8 or GSG1L. This inner core of AMPAR complex is complemented by outer core constituents binding directly to the GluA/GRIA proteins at sites distinct from the interaction sites of the inner core constituents. Outer core constituents include at least PRRT1, PRRT2, CKAMP44/SHISA9, FRRS1L and NRN1. The proteins of the inner and outer core serve as a platform for other, more peripherally associated AMPAR constituents, including LRRTM4. Alone or in combination, these auxiliary subunits control the gating and pharmacology of the AMPAR complex and profoundly impact their biogenesis and protein processing (By similarity).By similarity

Protein-protein interaction databases

BioGridi123095, 2 interactors
IntActiQ86VH4, 1 interactor
MINTiQ86VH4
STRINGi9606.ENSP00000386357

Structurei

3D structure databases

ProteinModelPortaliQ86VH4
SMRiQ86VH4
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini31 – 61LRRNTAdd BLAST31
Repeati62 – 83LRR 1Add BLAST22
Repeati86 – 107LRR 2Add BLAST22
Repeati110 – 131LRR 3Add BLAST22
Repeati134 – 155LRR 4Add BLAST22
Repeati158 – 179LRR 5Add BLAST22
Repeati182 – 203LRR 6Add BLAST22
Repeati206 – 226LRR 7Add BLAST21
Repeati230 – 251LRR 8Add BLAST22
Repeati254 – 275LRR 9Add BLAST22
Repeati278 – 299LRR 10Add BLAST22
Domaini311 – 362LRRCTAdd BLAST52

Sequence similaritiesi

Belongs to the LRRTM family.Curated

Keywords - Domaini

Leucine-rich repeat, Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG0619 Eukaryota
COG4886 LUCA
GeneTreeiENSGT00920000148957
HOGENOMiHOG000290681
HOVERGENiHBG052362
InParanoidiQ86VH4
PhylomeDBiQ86VH4
TreeFamiTF332659

Family and domain databases

Gene3Di3.80.10.10, 1 hit
InterProiView protein in InterPro
IPR001611 Leu-rich_rpt
IPR003591 Leu-rich_rpt_typical-subtyp
IPR032675 LRR_dom_sf
PfamiView protein in Pfam
PF13855 LRR_8, 3 hits
SMARTiView protein in SMART
SM00369 LRR_TYP, 9 hits
PROSITEiView protein in PROSITE
PS51450 LRR, 9 hits

Sequences (2+)i

Sequence statusi: Complete.

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

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

This entry has 2 described isoforms and 3 potential isoforms that are computationally mapped.Show allAlign All

Isoform 1 (identifier: Q86VH4-1) [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
MGFHLITQLK GMSVVLVLLP TLLLVMLTGA QRACPKNCRC DGKIVYCESH
60 70 80 90 100
AFADIPENIS GGSQGLSLRF NSIQKLKSNQ FAGLNQLIWL YLDHNYISSV
110 120 130 140 150
DEDAFQGIRR LKELILSSNK ITYLHNKTFH PVPNLRNLDL SYNKLQTLQS
160 170 180 190 200
EQFKGLRKLI ILHLRSNSLK TVPIRVFQDC RNLDFLDLGY NRLRSLSRNA
210 220 230 240 250
FAGLLKLKEL HLEHNQFSKI NFAHFPRLFN LRSIYLQWNR IRSISQGLTW
260 270 280 290 300
TWSSLHNLDL SGNDIQGIEP GTFKCLPNLQ KLNLDSNKLT NISQETVNAW
310 320 330 340 350
ISLISITLSG NMWECSRSIC PLFYWLKNFK GNKESTMICA GPKHIQGEKV
360 370 380 390 400
SDAVETYNIC SEVQVVNTER SHLVPQTPQK PLIIPRPTIF KPDVTQSTFE
410 420 430 440 450
TPSPSPGFQI PGAEQEYEHV SFHKIIAGSV ALFLSVAMIL LVIYVSWKRY
460 470 480 490 500
PASMKQLQQH SLMKRRRKKA RESERQMNSP LQEYYVDYKP TNSETMDISV
510 520 530 540 550
NGSGPCTYTI SGSRECEMPH HMKPLPYYSY DQPVIGYCQA HQPLHVTKGY
560 570 580 590
ETVSPEQDES PGLELGRDHS FIATIARSAA PAIYLERIAN
Length:590
Mass (Da):67,217
Last modified:February 5, 2008 - v2
Checksum:iB7CD270E816CD72F
GO
Isoform 2 (identifier: Q86VH4-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     518-518: M → V
     519-590: Missing.

Show »
Length:518
Mass (Da):59,126
Checksum:iF271C0477C170BC6
GO

Computationally mapped potential isoform sequencesi

There are 3 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
B8ZZ84B8ZZ84_HUMAN
Leucine-rich repeat transmembrane n...
LRRTM4
591Annotation score:
Q4KMX1Q4KMX1_HUMAN
LRRTM4 protein
LRRTM4
519Annotation score:
C9JM64C9JM64_HUMAN
Leucine-rich repeat transmembrane n...
LRRTM4
24Annotation score:

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_030989518M → V in isoform 2. 2 Publications1
Alternative sequenceiVSP_030990519 – 590Missing in isoform 2. 2 PublicationsAdd BLAST72

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY182030 mRNA Translation: AAO67551.1
AY358324 mRNA Translation: AAQ88690.1
BC099738 mRNA Translation: AAH99738.1
BC110058 mRNA Translation: AAI10059.1
CCDSiCCDS46346.1 [Q86VH4-1]
CCDS46347.1 [Q86VH4-2]
RefSeqiNP_001128217.1, NM_001134745.2 [Q86VH4-1]
NP_001269853.1, NM_001282924.2 [Q86VH4-1]
NP_079269.4, NM_024993.5 [Q86VH4-2]
UniGeneiHs.285782

Genome annotation databases

EnsembliENST00000409088; ENSP00000386236; ENSG00000176204 [Q86VH4-2]
ENST00000409093; ENSP00000386357; ENSG00000176204 [Q86VH4-1]
ENST00000409884; ENSP00000387297; ENSG00000176204 [Q86VH4-1]
GeneIDi80059
KEGGihsa:80059
UCSCiuc002snq.4 human [Q86VH4-1]

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY182030 mRNA Translation: AAO67551.1
AY358324 mRNA Translation: AAQ88690.1
BC099738 mRNA Translation: AAH99738.1
BC110058 mRNA Translation: AAI10059.1
CCDSiCCDS46346.1 [Q86VH4-1]
CCDS46347.1 [Q86VH4-2]
RefSeqiNP_001128217.1, NM_001134745.2 [Q86VH4-1]
NP_001269853.1, NM_001282924.2 [Q86VH4-1]
NP_079269.4, NM_024993.5 [Q86VH4-2]
UniGeneiHs.285782

3D structure databases

ProteinModelPortaliQ86VH4
SMRiQ86VH4
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi123095, 2 interactors
IntActiQ86VH4, 1 interactor
MINTiQ86VH4
STRINGi9606.ENSP00000386357

PTM databases

iPTMnetiQ86VH4
PhosphoSitePlusiQ86VH4

Polymorphism and mutation databases

BioMutaiLRRTM4
DMDMi166897996

Proteomic databases

MaxQBiQ86VH4
PaxDbiQ86VH4
PeptideAtlasiQ86VH4
PRIDEiQ86VH4
ProteomicsDBi70018
70019 [Q86VH4-2]

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000409088; ENSP00000386236; ENSG00000176204 [Q86VH4-2]
ENST00000409093; ENSP00000386357; ENSG00000176204 [Q86VH4-1]
ENST00000409884; ENSP00000387297; ENSG00000176204 [Q86VH4-1]
GeneIDi80059
KEGGihsa:80059
UCSCiuc002snq.4 human [Q86VH4-1]

Organism-specific databases

CTDi80059
DisGeNETi80059
EuPathDBiHostDB:ENSG00000176204.13
GeneCardsiLRRTM4
HGNCiHGNC:19411 LRRTM4
MIMi610870 gene
neXtProtiNX_Q86VH4
OpenTargetsiENSG00000176204
PharmGKBiPA134972631
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0619 Eukaryota
COG4886 LUCA
GeneTreeiENSGT00920000148957
HOGENOMiHOG000290681
HOVERGENiHBG052362
InParanoidiQ86VH4
PhylomeDBiQ86VH4
TreeFamiTF332659

Enzyme and pathway databases

ReactomeiR-HSA-6794361 Neurexins and neuroligins

Miscellaneous databases

ChiTaRSiLRRTM4 human
GenomeRNAii80059
PROiPR:Q86VH4
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000176204 Expressed in 89 organ(s), highest expression level in secondary oocyte
CleanExiHS_LRRTM4
ExpressionAtlasiQ86VH4 baseline and differential
GenevisibleiQ86VH4 HS

Family and domain databases

Gene3Di3.80.10.10, 1 hit
InterProiView protein in InterPro
IPR001611 Leu-rich_rpt
IPR003591 Leu-rich_rpt_typical-subtyp
IPR032675 LRR_dom_sf
PfamiView protein in Pfam
PF13855 LRR_8, 3 hits
SMARTiView protein in SMART
SM00369 LRR_TYP, 9 hits
PROSITEiView protein in PROSITE
PS51450 LRR, 9 hits
ProtoNetiSearch...

Entry informationi

Entry nameiLRRT4_HUMAN
AccessioniPrimary (citable) accession number: Q86VH4
Secondary accession number(s): Q4FZ98, Q6UXJ7
Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 21, 2005
Last sequence update: February 5, 2008
Last modified: November 7, 2018
This is version 122 of the entry and version 2 of the sequence. See 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. SIMILARITY comments
    Index of protein domains and families
  2. Human chromosome 2
    Human chromosome 2: entries, gene names and cross-references to MIM
  3. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
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