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Protein

Neuron-specific vesicular protein calcyon

Gene

CALY

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

Functioni

Interacts with clathrin light chain A and stimulates clathrin self-assembly and clathrin-mediated endocytosis.1 Publication

GO - Molecular functioni

  • clathrin light chain binding Source: UniProtKB

GO - Biological processi

  • clathrin coat assembly Source: UniProtKB
  • dopamine receptor signaling pathway Source: InterPro
  • endocytosis Source: UniProtKB-KW
  • positive regulation of endocytosis Source: UniProtKB
Complete GO annotation...

Keywords - Biological processi

Endocytosis

Names & Taxonomyi

Protein namesi
Recommended name:
Neuron-specific vesicular protein calcyon
Gene namesi
Name:CALY
Synonyms:DRD1IP
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640 Componenti: Chromosome 10

Organism-specific databases

HGNCiHGNC:17938. CALY.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini1 – 8787ExtracellularSequence AnalysisAdd
BLAST
Transmembranei88 – 10821HelicalSequence AnalysisAdd
BLAST
Topological domaini109 – 217109CytoplasmicSequence AnalysisAdd
BLAST

GO - Cellular componenti

  • cytoplasmic vesicle Source: UniProtKB
  • cytoplasmic vesicle membrane Source: UniProtKB-SubCell
  • integral component of plasma membrane Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Cytoplasmic vesicle, Membrane

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA162380987.

Chemistry

DrugBankiDB00714. Apomorphine.
DB00363. Clozapine.
DB00831. Trifluoperazine.

Polymorphism and mutation databases

BioMutaiCALY.
DMDMi17374622.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 217217Neuron-specific vesicular protein calcyonPRO_0000164368Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi73 – 731N-linked (GlcNAc...)Curated

Post-translational modificationi

Glycosylated.2 Publications

Keywords - PTMi

Glycoprotein

Proteomic databases

PaxDbiQ9NYX4.
PRIDEiQ9NYX4.

PTM databases

PhosphoSiteiQ9NYX4.

Expressioni

Tissue specificityi

Expressed in the pyramidal cells of the prefrontal cortex, in hippothalamus and in caudate nucleus. No expression in spleen. Up-regulated in the prefrontal cortex of schizophrenic patients with nearly twice the levels of non-schizophrenics.1 Publication

Gene expression databases

BgeeiQ9NYX4.
CleanExiHS_CALY.
GenevisibleiQ9NYX4. HS.

Organism-specific databases

HPAiHPA042283.

Interactioni

Subunit structurei

Interacts with CLTA.1 Publication

Protein-protein interaction databases

MINTiMINT-123006.
STRINGi9606.ENSP00000252939.

Structurei

3D structure databases

ProteinModelPortaliQ9NYX4.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi182 – 1887Poly-Ala

Sequence similaritiesi

Belongs to the NSG family.Curated

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiNOG43575.
GeneTreeiENSGT00390000000483.
HOGENOMiHOG000030909.
HOVERGENiHBG012403.
InParanoidiQ9NYX4.
KOiK15493.
OMAiDQFSCPD.
OrthoDBiEOG71CFNC.
PhylomeDBiQ9NYX4.
TreeFamiTF332232.

Family and domain databases

InterProiIPR009431. Calcyon_neuron-sp.
[Graphical view]
PfamiPF06387. Calcyon. 1 hit.
[Graphical view]
PIRSFiPIRSF002383. Calcyon. 1 hit.

Sequences (3)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9NYX4-1) [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
MVKLGCSFSG KPGKDPGDQD GAAMDSVPLI SPLDISQLQP PLPDQVVIKT
60 70 80 90 100
QTEYQLSSPD QQNFPDLEGQ RLNCSHPEEG RRLPTARMIA FAMALLGCVL
110 120 130 140 150
IMYKAIWYDQ FTCPDGFLLR HKICTPLTLE MYYTEMDPER HRSILAAIGA
160 170 180 190 200
YPLSRKHGTE TPAAWGDGYR AAKEERKGPT QAGAAAAATE PPGKPSAKAE
210
KEAARKAAGS AAPPPAQ
Length:217
Mass (Da):23,434
Last modified:October 1, 2000 - v1
Checksum:i7B3ACA9042819F58
GO
Isoform 2 (identifier: Q9NYX4-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     121-124: HKIC → GPEF
     125-217: Missing.

Note: Gene prediction based on EST data.
Show »
Length:124
Mass (Da):13,701
Checksum:i5B3D77A683A73CC9
GO
Isoform 3 (identifier: Q9NYX4-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     83-217: LPTARMIAFA...AGSAAPPPAQ → VTTPTPPTVG...RCRLTKQWRS

Note: Gene prediction based on EST data.
Show »
Length:158
Mass (Da):17,547
Checksum:i3451BF975275F836
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei83 – 217135LPTAR…PPPAQ → VTTPTPPTVGTQDRRRRWKA AGGAWVPSRPVWGPLALREE RVAVSHPAQSWPHRLPCTHQ APSRGCRCRLTKQWRS in isoform 3. CuratedVSP_034473Add
BLAST
Alternative sequencei121 – 1244HKIC → GPEF in isoform 2. CuratedVSP_034474
Alternative sequencei125 – 21793Missing in isoform 2. CuratedVSP_034475Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF225903 mRNA. Translation: AAF34714.1.
AL360181 Genomic DNA. Translation: CAH70279.1.
AL360181 Genomic DNA. Translation: CAH70280.1.
AL360181 Genomic DNA. Translation: CAH70281.1.
CH471211 Genomic DNA. Translation: EAW61334.1.
BC038978 mRNA. Translation: AAH38978.1.
CCDSiCCDS7678.1. [Q9NYX4-1]
RefSeqiNP_056537.1. NM_015722.3. [Q9NYX4-1]
XP_011538141.1. XM_011539839.1. [Q9NYX4-2]
UniGeneiHs.148680.

Genome annotation databases

EnsembliENST00000252939; ENSP00000252939; ENSG00000130643.
ENST00000368555; ENSP00000357543; ENSG00000130643. [Q9NYX4-3]
ENST00000368558; ENSP00000357546; ENSG00000130643. [Q9NYX4-2]
GeneIDi50632.
KEGGihsa:50632.
UCSCiuc001lmo.2. human. [Q9NYX4-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF225903 mRNA. Translation: AAF34714.1.
AL360181 Genomic DNA. Translation: CAH70279.1.
AL360181 Genomic DNA. Translation: CAH70280.1.
AL360181 Genomic DNA. Translation: CAH70281.1.
CH471211 Genomic DNA. Translation: EAW61334.1.
BC038978 mRNA. Translation: AAH38978.1.
CCDSiCCDS7678.1. [Q9NYX4-1]
RefSeqiNP_056537.1. NM_015722.3. [Q9NYX4-1]
XP_011538141.1. XM_011539839.1. [Q9NYX4-2]
UniGeneiHs.148680.

3D structure databases

ProteinModelPortaliQ9NYX4.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

MINTiMINT-123006.
STRINGi9606.ENSP00000252939.

Chemistry

DrugBankiDB00714. Apomorphine.
DB00363. Clozapine.
DB00831. Trifluoperazine.

PTM databases

PhosphoSiteiQ9NYX4.

Polymorphism and mutation databases

BioMutaiCALY.
DMDMi17374622.

Proteomic databases

PaxDbiQ9NYX4.
PRIDEiQ9NYX4.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000252939; ENSP00000252939; ENSG00000130643.
ENST00000368555; ENSP00000357543; ENSG00000130643. [Q9NYX4-3]
ENST00000368558; ENSP00000357546; ENSG00000130643. [Q9NYX4-2]
GeneIDi50632.
KEGGihsa:50632.
UCSCiuc001lmo.2. human. [Q9NYX4-1]

Organism-specific databases

CTDi50632.
GeneCardsiGC10M135138.
HGNCiHGNC:17938. CALY.
HPAiHPA042283.
MIMi604647. gene.
neXtProtiNX_Q9NYX4.
PharmGKBiPA162380987.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiNOG43575.
GeneTreeiENSGT00390000000483.
HOGENOMiHOG000030909.
HOVERGENiHBG012403.
InParanoidiQ9NYX4.
KOiK15493.
OMAiDQFSCPD.
OrthoDBiEOG71CFNC.
PhylomeDBiQ9NYX4.
TreeFamiTF332232.

Miscellaneous databases

GeneWikiiDRD1IP.
GenomeRNAii50632.
NextBioi53168.
PROiQ9NYX4.
SOURCEiSearch...

Gene expression databases

BgeeiQ9NYX4.
CleanExiHS_CALY.
GenevisibleiQ9NYX4. HS.

Family and domain databases

InterProiIPR009431. Calcyon_neuron-sp.
[Graphical view]
PfamiPF06387. Calcyon. 1 hit.
[Graphical view]
PIRSFiPIRSF002383. Calcyon. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Dual signaling regulated by calcyon, a D1 dopamine receptor interacting protein."
    Lezcano N., Mrzljak L., Eubanks S., Levenson R., Goldman-Rakic P., Bergson C.
    Science 287:1660-1664(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
  2. Cited for: RETRACTION.
  3. "The DNA sequence and comparative analysis of human chromosome 10."
    Deloukas P., Earthrowl M.E., Grafham D.V., Rubenfield M., French L., Steward C.A., Sims S.K., Jones M.C., Searle S., Scott C., Howe K., Hunt S.E., Andrews T.D., Gilbert J.G.R., Swarbreck D., Ashurst J.L., Taylor A., Battles J.
    , Bird C.P., Ainscough R., Almeida J.P., Ashwell R.I.S., Ambrose K.D., Babbage A.K., Bagguley C.L., Bailey J., Banerjee R., Bates K., Beasley H., Bray-Allen S., Brown A.J., Brown J.Y., Burford D.C., Burrill W., Burton J., Cahill P., Camire D., Carter N.P., Chapman J.C., Clark S.Y., Clarke G., Clee C.M., Clegg S., Corby N., Coulson A., Dhami P., Dutta I., Dunn M., Faulkner L., Frankish A., Frankland J.A., Garner P., Garnett J., Gribble S., Griffiths C., Grocock R., Gustafson E., Hammond S., Harley J.L., Hart E., Heath P.D., Ho T.P., Hopkins B., Horne J., Howden P.J., Huckle E., Hynds C., Johnson C., Johnson D., Kana A., Kay M., Kimberley A.M., Kershaw J.K., Kokkinaki M., Laird G.K., Lawlor S., Lee H.M., Leongamornlert D.A., Laird G., Lloyd C., Lloyd D.M., Loveland J., Lovell J., McLaren S., McLay K.E., McMurray A., Mashreghi-Mohammadi M., Matthews L., Milne S., Nickerson T., Nguyen M., Overton-Larty E., Palmer S.A., Pearce A.V., Peck A.I., Pelan S., Phillimore B., Porter K., Rice C.M., Rogosin A., Ross M.T., Sarafidou T., Sehra H.K., Shownkeen R., Skuce C.D., Smith M., Standring L., Sycamore N., Tester J., Thorpe A., Torcasso W., Tracey A., Tromans A., Tsolas J., Wall M., Walsh J., Wang H., Weinstock K., West A.P., Willey D.L., Whitehead S.L., Wilming L., Wray P.W., Young L., Chen Y., Lovering R.C., Moschonas N.K., Siebert R., Fechtel K., Bentley D., Durbin R.M., Hubbard T., Doucette-Stamm L., Beck S., Smith D.R., Rogers J.
    Nature 429:375-381(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  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].
    Tissue: Brain.
  6. "Up-regulation of the D1 dopamine receptor-interacting protein, calcyon, in patients with schizophrenia."
    Koh P.O., Bergson C., Undie A.S., Goldman-Rakic P.S., Lidow M.S.
    Arch. Gen. Psychiatry 60:311-319(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: TISSUE SPECIFICITY.
  7. "Elevated intracellular calcium triggers recruitment of the receptor cross-talk accessory protein calcyon to the plasma membrane."
    Ali M.K., Bergson C.
    J. Biol. Chem. 278:51654-51663(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION.
  8. "Calcyon, a novel partner of clathrin light chain, stimulates clathrin-mediated endocytosis."
    Xiao J., Dai R., Negyessy L., Bergson C.
    J. Biol. Chem. 281:15182-15193(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION, INTERACTION WITH CLTA.
  9. "Enrichment of glycopeptides for glycan structure and attachment site identification."
    Nilsson J., Rueetschi U., Halim A., Hesse C., Carlsohn E., Brinkmalm G., Larson G.
    Nat. Methods 6:809-811(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: GLYCOSYLATION, IDENTIFICATION BY MASS SPECTROMETRY.
  10. "LC-MS/MS characterization of O-glycosylation sites and glycan structures of human cerebrospinal fluid glycoproteins."
    Halim A., Ruetschi U., Larson G., Nilsson J.
    J. Proteome Res. 12:573-584(2013) [PubMed] [Europe PMC] [Abstract]
    Cited for: GLYCOSYLATION, IDENTIFICATION BY MASS SPECTROMETRY.

Entry informationi

Entry nameiCALY_HUMAN
AccessioniPrimary (citable) accession number: Q9NYX4
Secondary accession number(s): Q5VWX3, Q5VWY5, Q5VWY6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 26, 2001
Last sequence update: October 1, 2000
Last modified: July 22, 2015
This is version 111 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

Caution

Was originally thought to interact with the D1 dopamine receptor (DRD1) and to play a role in potentiating calcium ion-dependent signaling but this work was later retracted.1 Publication
In cerebrospinal fluid (CSF), found to be O-glycosylated in the predicted intracellular region at Thr-180 and Thr-189 (PubMed:19838169). This glycosylation has been confirmed by a separate mass spectrometry (MS) method (PubMed:23234360). Glycosylation in this region of the protein is unexplained as yet.2 Publications

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 10
    Human chromosome 10: 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

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.