P48444 (COPD_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Coatomer subunit delta

Alternative name(s):
Archain
Delta-coat protein
Short name=Delta-COP

Gene names

Name:	ARCN1
Synonyms:	COPD

Organism

Homo sapiens (Human) [Reference proteome]

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Primates › Haplorrhini › Simiiformes › Catarrhini › Hominoidea › Hominidae › Homininae › Homo

Protein attributes

Sequence length	511 AA.
Sequence status	Complete.
Protein existence	Evidence 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 vesicle › COPI-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 process	ER-Golgi transport Protein transport Transport
Cellular component	Cytoplasm Cytoplasmic vesicle Golgi apparatus Membrane
Coding sequence diversity	Alternative splicing Polymorphism
PTM	Acetylation Phosphoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	COPI coating of Golgi vesicle Traceable author statement. Source: Reactome intracellular protein transport Traceable author statement Ref.1. Source: ProtInc retrograde vesicle-mediated transport, Golgi to ER Traceable author statement. Source: Reactome
Cellular_component	COPI vesicle coat Inferred from sequence or structural similarity. Source: UniProtKB clathrin adaptor complex Inferred from electronic annotation. Source: InterPro cytosol Traceable author statement. Source: Reactome
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 key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 511	511	Coatomer subunit delta		PRO_0000193841
Regions
	Domain	268 – 511	244	MHD
Amino acid modifications
	Modified residue	233	1	N6-acetyllysine Ref.5
	Modified residue	309	1	N6-acetyllysine Ref.5
	Modified residue	493	1	Phosphoserine Ref.6 Ref.8
Natural variations
	Alternative sequence	1 – 89	89	MVLLA…LFSRV → M in isoform 2.		VSP_045636
	Natural variant	186	1	F → L. Corresponds to variant rs682327 [ dbSNP | Ensembl ].		VAR_011788
	Natural variant	309	1	K → N. Corresponds to variant rs1063124 [ dbSNP | Ensembl ].		VAR_011789
Experimental info
	Sequence conflict	387	1	N → D in BAG64934. Ref.2

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified February 1, 1996. Version 1. Checksum: 4ED1F7D2D12A7F75	FASTA	511	57,210
	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
	Isoform 2 [UniParc]. Checksum: D3688717D77E2AD2	FASTA	423	47,205
	10 20 30 40 50 60 MIPEYCRALE ENEISEHCFD LIFAFDEIVA LGYRENVNLA QIRTFTEMDS HEEKVFRAVR 70 80 90 100 110 120 ETQEREAKAE MRRKAKELQQ ARRDAERQGK KAPGFGGFGS SAVSGGSTAA MITETIIETD 130 140 150 160 170 180 KPKVAPAPAR PSGPSKALKL GAKGKEVDNF VDKLKSEGET IMSSSMGKRT SEATKMHAPP 190 200 210 220 230 240 INMESVHMKI EEKITLTCGR DGGLQNMELH GMIMLRISDD KYGRIRLHVE NEDKKGVQLQ 250 260 270 280 290 300 THPNVDKKLF TAESLIGLKN PEKSFPVNSD VGVLKWRLQT TEESFIPLTI NCWPSESGNG 310 320 330 340 350 360 CDVNIEYELQ EDNLELNDVV ITIPLPSGVG APVIGEIDGE YRHDSRRNTL EWCLPVIDAK 370 380 390 400 410 420 NKSGSLEFSI AGQPNDFFPV QVSFVSKKNY CNIQVTKVTQ VDGNSPVRFS TETTFLVDKY EIL

References

	« Hide 'large scale' referencesShow '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. , 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. , 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, MASS SPECTROMETRY.
[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, MASS SPECTROMETRY. 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, MASS SPECTROMETRY.
+	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.
IPI	IPI00514053. IPI00915422.
PIR	A56750.
RefSeq	NP_001135753.1. NM_001142281.1. NP_001646.2. NM_001655.4.
UniGene	Hs.33642.
3D structure databases
ProteinModelPortal	P48444.
ModBase	Search...
Protein-protein interaction databases
IntAct	P48444. 8 interactions.
STRING	9606.ENSP00000264028.
PTM databases
PhosphoSite	P48444.
Polymorphism databases
DMDM	1351970.
2D gel databases
OGP	P48444.
Proteomic databases
PaxDb	P48444.
PRIDE	P48444.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
Ensembl	ENST00000264028; ENSP00000264028; ENSG00000095139. ENST00000392859; ENSP00000376599; ENSG00000095139. ENST00000593602; ENSP00000468926; ENSG00000269382. ENST00000596715; ENSP00000471768; ENSG00000269382.
GeneID	372.
KEGG	hsa:372.
UCSC	uc001ptq.3. human.
Organism-specific databases
CTD	372.
GeneCards	GC11P118444.
HGNC	HGNC:649. ARCN1.
HPA	HPA037573.
MIM	600820. gene.
neXtProt	NX_P48444.
PharmGKB	PA24931.
GenAtlas	Search...
Phylogenomic databases
eggNOG	NOG309668.
HOGENOM	HOG000203984.
HOVERGEN	HBG005381.
Enzyme and pathway databases
Reactome	REACT_11123. Membrane Trafficking.
Gene expression databases
ArrayExpress	P48444.
Bgee	P48444.
CleanEx	HS_ARCN1.
Genevestigator	P48444.
GermOnline	ENSG00000095139. Homo sapiens.
Family and domain databases
InterPro	IPR022775. AP_mu_sigma_su. IPR008968. Clathrin_mu_C. IPR027059. Coatomer_dsu. IPR011012. Longin-like_dom. [Graphical view]
PANTHER	PTHR10121. PTHR10121. 1 hit.
Pfam	PF00928. Adap_comp_sub. 1 hit. PF01217. Clat_adaptor_s. 1 hit. [Graphical view]
SUPFAM	SSF49447. AP50. 1 hit. SSF64356. Longin_like. 1 hit.
PROSITE	PS51072. MHD. 1 hit. [Graphical view]
ProtoNet	Search...
Other
ChiTaRS	ARCN1. human.
GenomeRNAi	372.
NextBio	1553.
SOURCE	Search...

Entry information

Entry name

COPD_HUMAN

Accession

Primary (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:	May 1, 2013
This is version 110 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program

Disclaimer

Any 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.