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Q9NYX4 (CALY_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 104. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Neuron-specific vesicular protein calcyon
Gene names
Name:CALY
Synonyms:DRD1IP
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length217 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Interacts with clathrin light chain A and stimulates clathrin self-assembly and clathrin-mediated endocytosis. Ref.8

Subunit structure

Interacts with CLTA. Ref.8

Subcellular location

Cytoplasmic vesicle membrane; Single-pass membrane protein. Cell membrane; Single-pass membrane protein Ref.7 Ref.8.

Tissue specificity

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. Ref.6

Post-translational modification

Glycosylated Probable. Ref.9 Ref.10

Sequence similarities

Belongs to the NSG family.

Caution

Was originally (Ref.1) 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.

In cerebrospinal fluid (CSF), found to be O-glycosylated in the predicted intracellular region at Thr-180 and Thr-189 (Ref.9). This glycosylation has been confirmed by a separate mass spectrometry (MS) method (Ref.10). Glycosylation in this region of the protein is unexplained as yet.

Alternative products

This entry describes 3 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: Q9NYX4-1)

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.
Isoform 2 (identifier: Q9NYX4-2)

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.
Isoform 3 (identifier: Q9NYX4-3)

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.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 217217Neuron-specific vesicular protein calcyon
PRO_0000164368

Regions

Topological domain1 – 8787Extracellular Potential
Transmembrane88 – 10821Helical; Potential
Topological domain109 – 217109Cytoplasmic Potential
Compositional bias182 – 1887Poly-Ala

Amino acid modifications

Glycosylation731N-linked (GlcNAc...) Probable

Natural variations

Alternative sequence83 – 217135LPTAR…PPPAQ → VTTPTPPTVGTQDRRRRWKA AGGAWVPSRPVWGPLALREE RVAVSHPAQSWPHRLPCTHQ APSRGCRCRLTKQWRS in isoform 3.
VSP_034473
Alternative sequence121 – 1244HKIC → GPEF in isoform 2.
VSP_034474
Alternative sequence125 – 21793Missing in isoform 2.
VSP_034475

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified October 1, 2000. Version 1.
Checksum: 7B3ACA9042819F58

FASTA21723,434
        10         20         30         40         50         60 
MVKLGCSFSG KPGKDPGDQD GAAMDSVPLI SPLDISQLQP PLPDQVVIKT QTEYQLSSPD 

        70         80         90        100        110        120 
QQNFPDLEGQ RLNCSHPEEG RRLPTARMIA FAMALLGCVL IMYKAIWYDQ FTCPDGFLLR 

       130        140        150        160        170        180 
HKICTPLTLE MYYTEMDPER HRSILAAIGA YPLSRKHGTE TPAAWGDGYR AAKEERKGPT 

       190        200        210 
QAGAAAAATE PPGKPSAKAE KEAARKAAGS AAPPPAQ 

« Hide

Isoform 2 [UniParc].

Checksum: 5B3D77A683A73CC9
Show »

FASTA12413,701
Isoform 3 [UniParc].

Checksum: 3451BF975275F836
Show »

FASTA15817,547

References

« Hide 'large scale' references
[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]Erratum
Lezcano N., Mrzljak L., Levenson R., Bergson C.
Science 314:1681-1681(2006) [PubMed] [Europe PMC] [Abstract]
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. expand/collapse author list , 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]Mural R.J., Istrail S., Sutton G.G., Florea L., Halpern A.L., Mobarry C.M., Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J., Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S., Turner R. expand/collapse author list , Yooseph S., Lu F., Nusskern D.R., Shue B.C., Zheng X.H., Zhong F., Delcher A.L., Huson D.H., Kravitz S.A., Mouchard L., Reinert K., Remington K.A., Clark A.G., Waterman M.S., Eichler E.E., Adams M.D., Hunkapiller M.W., Myers E.W., Venter J.C.
Submitted (SEP-2005) to the EMBL/GenBank/DDBJ databases
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.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
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.
CCDSCCDS7678.1. [Q9NYX4-1]
RefSeqNP_056537.1. NM_015722.3. [Q9NYX4-1]
XP_005252742.1. XM_005252685.2. [Q9NYX4-1]
UniGeneHs.148680.

3D structure databases

ProteinModelPortalQ9NYX4.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

MINTMINT-123006.
STRING9606.ENSP00000252939.

Chemistry

DrugBankDB00714. Apomorphine.
DB00363. Clozapine.
DB00875. Flupenthixol.
DB00831. Trifluoperazine.

PTM databases

PhosphoSiteQ9NYX4.

Polymorphism databases

DMDM17374622.

Proteomic databases

PaxDbQ9NYX4.
PRIDEQ9NYX4.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000252939; ENSP00000252939; ENSG00000130643. [Q9NYX4-1]
ENST00000368555; ENSP00000357543; ENSG00000130643. [Q9NYX4-3]
ENST00000368556; ENSP00000357544; ENSG00000130643. [Q9NYX4-2]
ENST00000368558; ENSP00000357546; ENSG00000130643. [Q9NYX4-2]
GeneID50632.
KEGGhsa:50632.
UCSCuc001lmo.2. human. [Q9NYX4-1]

Organism-specific databases

CTD50632.
GeneCardsGC10M135138.
HGNCHGNC:17938. CALY.
HPAHPA042283.
MIM604647. gene.
neXtProtNX_Q9NYX4.
PharmGKBPA162380987.
GenAtlasSearch...

Phylogenomic databases

eggNOGNOG43575.
HOGENOMHOG000030909.
HOVERGENHBG012403.
InParanoidQ9NYX4.
KOK15493.
OMADQFSCPD.
OrthoDBEOG71CFNC.
PhylomeDBQ9NYX4.
TreeFamTF332232.

Gene expression databases

BgeeQ9NYX4.
CleanExHS_CALY.
GenevestigatorQ9NYX4.

Family and domain databases

InterProIPR009431. Calcyon_neuron-sp.
[Graphical view]
PfamPF06387. Calcyon. 1 hit.
[Graphical view]
PIRSFPIRSF002383. Calcyon. 1 hit.
ProtoNetSearch...

Other

GeneWikiDRD1IP.
GenomeRNAi50632.
NextBio53168.
PROQ9NYX4.
SOURCESearch...

Entry information

Entry nameCALY_HUMAN
AccessionPrimary (citable) accession number: Q9NYX4
Secondary accession number(s): Q5VWX3, Q5VWY5, Q5VWY6
Entry history
Integrated into UniProtKB/Swiss-Prot: September 26, 2001
Last sequence update: October 1, 2000
Last modified: July 9, 2014
This is version 104 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (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.

Relevant documents

SIMILARITY comments

Index of protein domains and families

MIM cross-references

Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

Human chromosome 10

Human chromosome 10: entries, gene names and cross-references to MIM