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P48444 (COPD_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 118. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (5) | 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:
Coatomer subunit delta
Alternative name(s):
Archain
Delta-coat protein
Short name=Delta-COP
Gene names
Name:ARCN1
Synonyms:COPD
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length511 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

The coatomer is a cytosolic protein complex that binds to dilysine motifs and reversibly associates with Golgi non-clathrin-coated vesicles, which further mediate biosynthetic protein transport from the ER, via the Golgi up to the trans Golgi network. Coatomer complex is required for budding from Golgi membranes, and is essential for the retrograde Golgi-to-ER transport of dilysine-tagged proteins. In mammals, the coatomer can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins; the complex also influences the Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors By similarity.

Subunit structure

Oligomeric complex that consists of at least the alpha, beta, beta', gamma, delta, epsilon and zeta subunits.

Subcellular location

Cytoplasm By similarity. Golgi apparatus membrane; Peripheral membrane protein; Cytoplasmic side By similarity. Cytoplasmic vesicleCOPI-coated vesicle membrane; Peripheral membrane protein; Cytoplasmic side By similarity. Note: The coatomer is cytoplasmic or polymerized on the cytoplasmic side of the Golgi, as well as on the vesicles/buds originating from it By similarity.

Tissue specificity

Ubiquitously expressed.

Sequence similarities

Belongs to the adaptor complexes medium subunit family. Delta-COP subfamily.

Contains 1 MHD (mu homology) domain.

Sequence caution

The sequence CAA57072.1 differs from that shown. Reason: Erroneous initiation.

Ontologies

Keywords
   Biological processER-Golgi transport
Protein transport
Transport
   Cellular componentCytoplasm
Cytoplasmic vesicle
Golgi apparatus
Membrane
   Coding sequence diversityAlternative splicing
Polymorphism
   PTMAcetylation
Phosphoprotein
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processCOPI coating of Golgi vesicle

Traceable author statement. Source: Reactome

adult locomotory behavior

Inferred from electronic annotation. Source: Ensembl

cerebellar Purkinje cell layer maturation

Inferred from electronic annotation. Source: Ensembl

intracellular protein transport

Traceable author statement Ref.1. Source: ProtInc

membrane organization

Traceable author statement. Source: Reactome

pigmentation

Inferred from electronic annotation. Source: Ensembl

retrograde vesicle-mediated transport, Golgi to ER

Traceable author statement. Source: Reactome

   Cellular_componentCOPI vesicle coat

Inferred from sequence or structural similarity. Source: UniProtKB

Golgi apparatus

Inferred from direct assay. Source: HPA

clathrin adaptor complex

Inferred from electronic annotation. Source: InterPro

cytoplasm

Inferred from direct assay. Source: HPA

cytosol

Traceable author statement. Source: Reactome

endoplasmic reticulum

Inferred from electronic annotation. Source: Ensembl

intracellular membrane-bounded organelle

Inferred from direct assay. Source: HPA

   Molecular_functionpoly(A) RNA binding

Inferred from direct assay PubMed 22658674. Source: UniProtKB

Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: P48444-1)

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: P48444-2)

The sequence of this isoform differs from the canonical sequence as follows:
     1-89: MVLLAAAVCT...LETLRLFSRV → M
Note: No experimental confirmation available.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 511511Coatomer subunit delta
PRO_0000193841

Regions

Domain271 – 511241MHD

Amino acid modifications

Modified residue2331N6-acetyllysine Ref.5
Modified residue2411N6-acetyllysine By similarity
Modified residue3091N6-acetyllysine Ref.5
Modified residue3511N6-acetyllysine By similarity
Modified residue4931Phosphoserine Ref.6 Ref.8

Natural variations

Alternative sequence1 – 8989MVLLA…LFSRV → M in isoform 2.
VSP_045636
Natural variant1861F → L.
Corresponds to variant rs682327 [ dbSNP | Ensembl ].
VAR_011788
Natural variant3091K → N.
Corresponds to variant rs1063124 [ dbSNP | Ensembl ].
VAR_011789

Experimental info

Sequence conflict3871N → D in BAG64934. Ref.2

Sequences

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

Last modified February 1, 1996. Version 1.
Checksum: 4ED1F7D2D12A7F75

FASTA51157,210
        10         20         30         40         50         60 
MVLLAAAVCT KAGKAIVSRQ FVEMTRTRIE GLLAAFPKLM NTGKQHTFVE TESVRYVYQP 

        70         80         90        100        110        120 
MEKLYMVLIT TKNSNILEDL ETLRLFSRVI PEYCRALEEN EISEHCFDLI FAFDEIVALG 

       130        140        150        160        170        180 
YRENVNLAQI RTFTEMDSHE EKVFRAVRET QEREAKAEMR RKAKELQQAR RDAERQGKKA 

       190        200        210        220        230        240 
PGFGGFGSSA VSGGSTAAMI TETIIETDKP KVAPAPARPS GPSKALKLGA KGKEVDNFVD 

       250        260        270        280        290        300 
KLKSEGETIM SSSMGKRTSE ATKMHAPPIN MESVHMKIEE KITLTCGRDG GLQNMELHGM 

       310        320        330        340        350        360 
IMLRISDDKY GRIRLHVENE DKKGVQLQTH PNVDKKLFTA ESLIGLKNPE KSFPVNSDVG 

       370        380        390        400        410        420 
VLKWRLQTTE ESFIPLTINC WPSESGNGCD VNIEYELQED NLELNDVVIT IPLPSGVGAP 

       430        440        450        460        470        480 
VIGEIDGEYR HDSRRNTLEW CLPVIDAKNK SGSLEFSIAG QPNDFFPVQV SFVSKKNYCN 

       490        500        510 
IQVTKVTQVD GNSPVRFSTE TTFLVDKYEI L 

« Hide

Isoform 2 [UniParc].

Checksum: D3688717D77E2AD2
Show »

FASTA42347,205

References

« Hide 'large scale' references
[1]"The human archain gene, ARCN1, has highly conserved homologs in rice and Drosophila."
Radice P., Pensotti V., Jones C., Perry H., Pierotti M.A., Tunnacliffe A.
Genomics 26:101-106(1995) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
[2]"Complete sequencing and characterization of 21,243 full-length human cDNAs."
Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S. expand/collapse author list , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
Tissue: Trachea.
[3]"Human chromosome 11 DNA sequence and analysis including novel gene identification."
Taylor T.D., Noguchi H., Totoki Y., Toyoda A., Kuroki Y., Dewar K., Lloyd C., Itoh T., Takeda T., Kim D.-W., She X., Barlow K.F., Bloom T., Bruford E., Chang J.L., Cuomo C.A., Eichler E., FitzGerald M.G. expand/collapse author list , Jaffe D.B., LaButti K., Nicol R., Park H.-S., Seaman C., Sougnez C., Yang X., Zimmer A.R., Zody M.C., Birren B.W., Nusbaum C., Fujiyama A., Hattori M., Rogers J., Lander E.S., Sakaki Y.
Nature 440:497-500(2006) [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(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
Tissue: Brain.
[5]"Lysine acetylation targets protein complexes and co-regulates major cellular functions."
Choudhary C., Kumar C., Gnad F., Nielsen M.L., Rehman M., Walther T.C., Olsen J.V., Mann M.
Science 325:834-840(2009) [PubMed] [Europe PMC] [Abstract]
Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT LYS-233 AND LYS-309, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
[6]"Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis."
Olsen J.V., Vermeulen M., Santamaria A., Kumar C., Miller M.L., Jensen L.J., Gnad F., Cox J., Jensen T.S., Nigg E.A., Brunak S., Mann M.
Sci. Signal. 3:RA3-RA3(2010) [PubMed] [Europe PMC] [Abstract]
Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-493, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
Tissue: Cervix carcinoma.
[7]"Initial characterization of the human central proteome."
Burkard T.R., Planyavsky M., Kaupe I., Breitwieser F.P., Buerckstuemmer T., Bennett K.L., Superti-Furga G., Colinge J.
BMC Syst. Biol. 5:17-17(2011) [PubMed] [Europe PMC] [Abstract]
Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
[8]"System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation."
Rigbolt K.T., Prokhorova T.A., Akimov V., Henningsen J., Johansen P.T., Kratchmarova I., Kassem M., Mann M., Olsen J.V., Blagoev B.
Sci. Signal. 4:RS3-RS3(2011) [PubMed] [Europe PMC] [Abstract]
Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-493, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
X81197 mRNA. Translation: CAA57071.1.
X81198 mRNA. Translation: CAA57072.1. Different initiation.
AK304019 mRNA. Translation: BAG64934.1.
AP000941 Genomic DNA. No translation available.
BC093636 mRNA. Translation: AAH93636.1.
BC093638 mRNA. Translation: AAH93638.1.
PIRA56750.
RefSeqNP_001135753.1. NM_001142281.1.
NP_001646.2. NM_001655.4.
UniGeneHs.33642.

3D structure databases

ProteinModelPortalP48444.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid106867. 20 interactions.
DIPDIP-50375N.
IntActP48444. 12 interactions.
MINTMINT-3016718.
STRING9606.ENSP00000264028.

PTM databases

PhosphoSiteP48444.

Polymorphism databases

DMDM1351970.

2D gel databases

OGPP48444.

Proteomic databases

PaxDbP48444.
PRIDEP48444.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000264028; ENSP00000264028; ENSG00000095139. [P48444-1]
ENST00000392859; ENSP00000376599; ENSG00000095139. [P48444-2]
ENST00000593602; ENSP00000468926; ENSG00000269382. [P48444-2]
ENST00000596715; ENSP00000471768; ENSG00000269382. [P48444-1]
GeneID372.
KEGGhsa:372.
UCSCuc001ptq.3. human. [P48444-1]

Organism-specific databases

CTD372.
GeneCardsGC11P118444.
HGNCHGNC:649. ARCN1.
HPAHPA037573.
HPA044874.
MIM600820. gene.
neXtProtNX_P48444.
PharmGKBPA24931.
GenAtlasSearch...

Phylogenomic databases

eggNOGNOG309668.
HOGENOMHOG000203984.
HOVERGENHBG005381.
PhylomeDBP48444.
TreeFamTF105760.

Enzyme and pathway databases

ReactomeREACT_11123. Membrane Trafficking.
SignaLinkP48444.

Gene expression databases

ArrayExpressP48444.
BgeeP48444.
CleanExHS_ARCN1.
GenevestigatorP48444.

Family and domain databases

InterProIPR022775. AP_mu_sigma_su.
IPR008968. Clathrin_mu_C.
IPR027059. Coatomer_dsu.
IPR011012. Longin-like_dom.
IPR028565. MHD.
[Graphical view]
PANTHERPTHR10121. PTHR10121. 1 hit.
PfamPF00928. Adap_comp_sub. 1 hit.
PF01217. Clat_adaptor_s. 1 hit.
[Graphical view]
SUPFAMSSF49447. SSF49447. 1 hit.
SSF64356. SSF64356. 1 hit.
PROSITEPS51072. MHD. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

ChiTaRSARCN1. human.
GenomeRNAi372.
NextBio1553.
PROP48444.
SOURCESearch...

Entry information

Entry nameCOPD_HUMAN
AccessionPrimary (citable) accession number: P48444
Secondary accession number(s): B4E1X2, E9PEU4, Q52M80
Entry history
Integrated into UniProtKB/Swiss-Prot: February 1, 1996
Last sequence update: February 1, 1996
Last modified: April 16, 2014
This is version 118 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 polymorphisms and disease mutations

Index of human polymorphisms and disease mutations

Human entries with polymorphisms or disease mutations

List of human entries with polymorphisms or disease mutations

Human chromosome 11

Human chromosome 11: entries, gene names and cross-references to MIM