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Protein

SLIT and NTRK-like protein 1

Gene

SLITRK1

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

Functioni

Enhances neuronal dendrite outgrowth.1 Publication

GO - Biological processi

  1. adult behavior Source: Ensembl
  2. axonogenesis Source: Ensembl
  3. homeostatic process Source: Ensembl
  4. multicellular organism growth Source: Ensembl
Complete GO annotation...

Names & Taxonomyi

Protein namesi
Recommended name:
SLIT and NTRK-like protein 1
Alternative name(s):
Leucine-rich repeat-containing protein 12
Gene namesi
Name:SLITRK1
Synonyms:KIAA1910, LRRC12
ORF Names:UNQ233/PRO266
OrganismiHomo sapiens (Human)Imported
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640 Componenti: Unplaced

Organism-specific databases

HGNCiHGNC:20297. SLITRK1.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini18 – 622605ExtracellularSequence AnalysisAdd
BLAST
Transmembranei623 – 64321HelicalSequence AnalysisAdd
BLAST
Topological domaini644 – 69653CytoplasmicSequence AnalysisAdd
BLAST

GO - Cellular componenti

  1. integral component of membrane Source: UniProtKB-KW
Complete GO annotation...

Keywords - Cellular componenti

Membrane

Pathology & Biotechi

Involvement in diseasei

Gilles de la Tourette syndrome (GTS)1 Publication

The disease may be caused by mutations affecting the gene represented in this entry.

Disease descriptionNeurologic disorder manifested particularly by motor and vocal tics and associated with behavioral abnormalities.

See also OMIM:137580
Trichotillomania (TTM)1 Publication

The disease may be caused by mutations affecting the gene represented in this entry.

Disease descriptionA neuropsychiatric disorder characterized by chronic, repetitive, or compulsive hair pulling resulting in noticeable hair loss. Affected individuals may develop physical complications and often have overlapping psychological disorders, such as Gilles de la Tourette syndrome or obsessive-compulsive disorder.

See also OMIM:613229

Organism-specific databases

MIMi137580. phenotype.
613229. phenotype.
Orphaneti856. Tourette syndrome.
PharmGKBiPA134944423.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 1717Sequence AnalysisAdd
BLAST
Chaini18 – 696679SLIT and NTRK-like protein 1Sequence AnalysisPRO_0000032673Add
BLAST

Proteomic databases

PaxDbiQ96PX8.
PeptideAtlasiQ96PX8.
PRIDEiQ96PX8.

PTM databases

PhosphoSiteiQ96PX8.

Expressioni

Tissue specificityi

Expressed predominantly in the frontal lobe of the cerebral cortex of the brain. Also expressed in some astrocytic brain tumors such as astrocytomas, oligodendrogliomas, glioblastomas, gangliogliomas and primitive neuroectodermal tumors.1 Publication

Developmental stagei

At 20 weeks of gestation, expressed in multiple brain regions, including the developing neo-cortical plate, subplate zone, striatum, globus pallidus, thalamus and subthalamus.1 Publication

Gene expression databases

BgeeiQ96PX8.
CleanExiHS_SLITRK1.
GenevestigatoriQ96PX8.

Organism-specific databases

HPAiHPA012414.

Interactioni

Protein-protein interaction databases

IntActiQ96PX8. 1 interaction.
MINTiMINT-7997455.
STRINGi9606.ENSP00000366288.

Structurei

Secondary structure

1
696
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Turni23 – 264Combined sources
Beta strandi28 – 303Combined sources
Beta strandi35 – 417Combined sources
Beta strandi50 – 523Combined sources
Beta strandi61 – 644Combined sources
Turni75 – 784Combined sources
Helixi79 – 813Combined sources
Beta strandi84 – 885Combined sources
Turni99 – 1046Combined sources
Beta strandi110 – 1123Combined sources
Turni123 – 1286Combined sources
Beta strandi134 – 1363Combined sources
Helixi147 – 1493Combined sources
Beta strandi158 – 1603Combined sources
Turni171 – 1766Combined sources
Beta strandi181 – 1833Combined sources
Helixi194 – 1985Combined sources
Beta strandi205 – 2084Combined sources
Turni218 – 2203Combined sources
Helixi221 – 2299Combined sources
Beta strandi240 – 2434Combined sources
Turni245 – 2495Combined sources
Helixi252 – 2543Combined sources
Helixi257 – 2604Combined sources
Beta strandi344 – 3496Combined sources
Beta strandi355 – 3584Combined sources
Beta strandi377 – 3815Combined sources
Helixi392 – 3954Combined sources
Beta strandi402 – 4054Combined sources
Turni416 – 4216Combined sources
Beta strandi427 – 4293Combined sources
Helixi441 – 4433Combined sources
Beta strandi451 – 4533Combined sources
Helixi466 – 4683Combined sources
Beta strandi475 – 4773Combined sources
Beta strandi490 – 4934Combined sources
Beta strandi497 – 5004Combined sources
Helixi511 – 5155Combined sources
Beta strandi523 – 5253Combined sources
Turni535 – 5373Combined sources
Helixi538 – 5458Combined sources
Beta strandi549 – 5524Combined sources
Beta strandi557 – 5615Combined sources
Helixi562 – 5643Combined sources
Turni569 – 5713Combined sources
Helixi574 – 5774Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4RCAX-ray2.99B20-264[»]
4RCWX-ray3.19A/B341-580[»]
ProteinModelPortaliQ96PX8.
SMRiQ96PX8. Positions 29-579.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini18 – 5740LRRNT 1Add
BLAST
Repeati59 – 8022LRR 1Add
BLAST
Repeati83 – 10422LRR 2Add
BLAST
Repeati106 – 12823LRR 3Add
BLAST
Repeati131 – 15222LRR 4Add
BLAST
Repeati155 – 17622LRR 5Add
BLAST
Repeati178 – 19922LRR 6Add
BLAST
Domaini212 – 26352LRRCT 1Add
BLAST
Domaini332 – 37342LRRNT 2Add
BLAST
Repeati376 – 39722LRR 7Add
BLAST
Repeati400 – 42122LRR 8Add
BLAST
Repeati424 – 44522LRR 9Add
BLAST
Repeati448 – 46922LRR 10Add
BLAST
Repeati472 – 49322LRR 11Add
BLAST
Repeati495 – 51622LRR 12Add
BLAST
Domaini529 – 58052LRRCT 2Add
BLAST

Sequence similaritiesi

Belongs to the SLITRK family.Curated
Contains 12 LRR (leucine-rich) repeats.Curated
Contains 2 LRRCT domains.Curated
Contains 2 LRRNT domains.Curated

Keywords - Domaini

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

Phylogenomic databases

eggNOGiNOG236179.
GeneTreeiENSGT00780000121836.
HOGENOMiHOG000290667.
HOVERGENiHBG056407.
InParanoidiQ96PX8.
OMAiVICEAPT.
OrthoDBiEOG7W9RT2.
PhylomeDBiQ96PX8.
TreeFamiTF351826.

Family and domain databases

InterProiIPR000483. Cys-rich_flank_reg_C.
IPR001611. Leu-rich_rpt.
IPR003591. Leu-rich_rpt_typical-subtyp.
IPR000372. LRR-contain_N.
[Graphical view]
PfamiPF00560. LRR_1. 1 hit.
PF13855. LRR_8. 2 hits.
[Graphical view]
SMARTiSM00369. LRR_TYP. 2 hits.
SM00082. LRRCT. 2 hits.
SM00013. LRRNT. 1 hit.
[Graphical view]
PROSITEiPS51450. LRR. 12 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

Q96PX8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLLWILLLET SLCFAAGNVT GDVCKEKICS CNEIEGDLHV DCEKKGFTSL
60 70 80 90 100
QRFTAPTSQF YHLFLHGNSL TRLFPNEFAN FYNAVSLHME NNGLHEIVPG
110 120 130 140 150
AFLGLQLVKR LHINNNKIKS FRKQTFLGLD DLEYLQADFN LLRDIDPGAF
160 170 180 190 200
QDLNKLEVLI LNDNLISTLP ANVFQYVPIT HLDLRGNRLK TLPYEEVLEQ
210 220 230 240 250
IPGIAEILLE DNPWDCTCDL LSLKEWLENI PKNALIGRVV CEAPTRLQGK
260 270 280 290 300
DLNETTEQDL CPLKNRVDSS LPAPPAQEET FAPGPLPTPF KTNGQEDHAT
310 320 330 340 350
PGSAPNGGTK IPGNWQIKIR PTAAIATGSS RNKPLANSLP CPGGCSCDHI
360 370 380 390 400
PGSGLKMNCN NRNVSSLADL KPKLSNVQEL FLRDNKIHSI RKSHFVDYKN
410 420 430 440 450
LILLDLGNNN IATVENNTFK NLLDLRWLYM DSNYLDTLSR EKFAGLQNLE
460 470 480 490 500
YLNVEYNAIQ LILPGTFNAM PKLRILILNN NLLRSLPVDV FAGVSLSKLS
510 520 530 540 550
LHNNYFMYLP VAGVLDQLTS IIQIDLHGNP WECSCTIVPF KQWAERLGSE
560 570 580 590 600
VLMSDLKCET PVNFFRKDFM LLSNDEICPQ LYARISPTLT SHSKNSTGLA
610 620 630 640 650
ETGTHSNSYL DTSRVSISVL VPGLLLVFVT SAFTVVGMLV FILRNRKRSK
660 670 680 690
RRDANSSASE INSLQTVCDS SYWHNGPYNA DGAHRVYDCG SHSLSD
Length:696
Mass (Da):77,735
Last modified:March 29, 2004 - v2
Checksum:iE0E9ACEDE0F0ACEC
GO

Sequence cautioni

The sequence BAB67803.1 differs from that shown. Reason: Erroneous initiation. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti418 – 4181T → S in AAH51738 (PubMed:15489334).Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti552 – 5521L → M.
Corresponds to variant rs7491932 [ dbSNP | Ensembl ].
VAR_027755

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB067497 mRNA. Translation: BAB67803.1. Different initiation.
AY358289 mRNA. Translation: AAQ88656.1.
AL355481 Genomic DNA. Translation: CAC37488.1.
BC051738 mRNA. Translation: AAH51738.1.
CCDSiCCDS9464.1.
RefSeqiNP_001268432.1. NM_001281503.1.
NP_443142.1. NM_052910.2.
UniGeneiHs.415478.
Hs.627477.
Hs.694617.

Genome annotation databases

GeneIDi114798.
KEGGihsa:114798.
UCSCiuc001vlk.3. human.

Polymorphism databases

DMDMi46396997.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB067497 mRNA. Translation: BAB67803.1. Different initiation.
AY358289 mRNA. Translation: AAQ88656.1.
AL355481 Genomic DNA. Translation: CAC37488.1.
BC051738 mRNA. Translation: AAH51738.1.
CCDSiCCDS9464.1.
RefSeqiNP_001268432.1. NM_001281503.1.
NP_443142.1. NM_052910.2.
UniGeneiHs.415478.
Hs.627477.
Hs.694617.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4RCAX-ray2.99B20-264[»]
4RCWX-ray3.19A/B341-580[»]
ProteinModelPortaliQ96PX8.
SMRiQ96PX8. Positions 29-579.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiQ96PX8. 1 interaction.
MINTiMINT-7997455.
STRINGi9606.ENSP00000366288.

PTM databases

PhosphoSiteiQ96PX8.

Polymorphism databases

DMDMi46396997.

Proteomic databases

PaxDbiQ96PX8.
PeptideAtlasiQ96PX8.
PRIDEiQ96PX8.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi114798.
KEGGihsa:114798.
UCSCiuc001vlk.3. human.

Organism-specific databases

CTDi114798.
GeneCardsiGC13M084451.
GeneReviewsiSLITRK1.
HGNCiHGNC:20297. SLITRK1.
HPAiHPA012414.
MIMi137580. phenotype.
609678. gene.
613229. phenotype.
neXtProtiNX_Q96PX8.
Orphaneti856. Tourette syndrome.
PharmGKBiPA134944423.
HUGEiSearch...
GenAtlasiSearch...

Phylogenomic databases

eggNOGiNOG236179.
GeneTreeiENSGT00780000121836.
HOGENOMiHOG000290667.
HOVERGENiHBG056407.
InParanoidiQ96PX8.
OMAiVICEAPT.
OrthoDBiEOG7W9RT2.
PhylomeDBiQ96PX8.
TreeFamiTF351826.

Miscellaneous databases

GeneWikiiSLITRK1_(gene).
GenomeRNAii114798.
NextBioi79234.
PROiQ96PX8.
SOURCEiSearch...

Gene expression databases

BgeeiQ96PX8.
CleanExiHS_SLITRK1.
GenevestigatoriQ96PX8.

Family and domain databases

InterProiIPR000483. Cys-rich_flank_reg_C.
IPR001611. Leu-rich_rpt.
IPR003591. Leu-rich_rpt_typical-subtyp.
IPR000372. LRR-contain_N.
[Graphical view]
PfamiPF00560. LRR_1. 1 hit.
PF13855. LRR_8. 2 hits.
[Graphical view]
SMARTiSM00369. LRR_TYP. 2 hits.
SM00082. LRRCT. 2 hits.
SM00013. LRRNT. 1 hit.
[Graphical view]
PROSITEiPS51450. LRR. 12 hits.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Prediction of the coding sequences of unidentified human genes. XXI. The complete sequences of 60 new cDNA clones from brain which code for large proteins."
    Nagase T., Kikuno R., Ohara O.
    DNA Res. 8:179-187(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: BrainImported.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
  3. "The DNA sequence and analysis of human chromosome 13."
    Dunham A., Matthews L.H., Burton J., Ashurst J.L., Howe K.L., Ashcroft K.J., Beare D.M., Burford D.C., Hunt S.E., Griffiths-Jones S., Jones M.C., Keenan S.J., Oliver K., Scott C.E., Ainscough R., Almeida J.P., Ambrose K.D., Andrews D.T.
    , Ashwell R.I.S., Babbage A.K., Bagguley C.L., Bailey J., Bannerjee R., Barlow K.F., Bates K., Beasley H., Bird C.P., Bray-Allen S., Brown A.J., Brown J.Y., Burrill W., Carder C., Carter N.P., Chapman J.C., Clamp M.E., Clark S.Y., Clarke G., Clee C.M., Clegg S.C., Cobley V., Collins J.E., Corby N., Coville G.J., Deloukas P., Dhami P., Dunham I., Dunn M., Earthrowl M.E., Ellington A.G., Faulkner L., Frankish A.G., Frankland J., French L., Garner P., Garnett J., Gilbert J.G.R., Gilson C.J., Ghori J., Grafham D.V., Gribble S.M., Griffiths C., Hall R.E., Hammond S., Harley J.L., Hart E.A., Heath P.D., Howden P.J., Huckle E.J., Hunt P.J., Hunt A.R., Johnson C., Johnson D., Kay M., Kimberley A.M., King A., Laird G.K., Langford C.J., Lawlor S., Leongamornlert D.A., Lloyd D.M., Lloyd C., Loveland J.E., Lovell J., Martin S., Mashreghi-Mohammadi M., McLaren S.J., McMurray A., Milne S., Moore M.J.F., Nickerson T., Palmer S.A., Pearce A.V., Peck A.I., Pelan S., Phillimore B., Porter K.M., Rice C.M., Searle S., Sehra H.K., Shownkeen R., Skuce C.D., Smith M., Steward C.A., Sycamore N., Tester J., Thomas D.W., Tracey A., Tromans A., Tubby B., Wall M., Wallis J.M., West A.P., Whitehead S.L., Willey D.L., Wilming L., Wray P.W., Wright M.W., Young L., Coulson A., Durbin R.M., Hubbard T., Sulston J.E., Beck S., Bentley D.R., Rogers J., Ross M.T.
    Nature 428:522-528(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  4. "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(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Hippocampus.
  5. "Human SLITRK family genes: genomic organization and expression profiling in normal brain and brain tumor tissue."
    Aruga J., Yokota N., Mikoshiba K.
    Gene 315:87-94(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION, TISSUE SPECIFICITY.
    Tissue: Brain1 Publication and Brain tumor1 Publication.
  6. Cited for: FUNCTION, DEVELOPMENTAL STAGE, INVOLVEMENT IN TTM, INVOLVEMENT IN GTS SYNDROME.

Entry informationi

Entry nameiSLIK1_HUMAN
AccessioniPrimary (citable) accession number: Q96PX8
Secondary accession number(s): Q5U5I6, Q96SF9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 13, 2004
Last sequence update: March 29, 2004
Last modified: March 4, 2015
This is version 124 of the entry and version 2 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 13
    Human chromosome 13: 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. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  6. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.