CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-029740
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 Archain 1, isoform CRA_a 
Protein Synonyms/Alias
 Coatomer subunit delta; Coatomer subunit delta variant 2 
Gene Name
 ARCN1 
Gene Synonyms/Alias
 hCG_40220 
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
79GLLAAFPKLMNTGKQubiquitination[1, 2, 3, 4]
85PKLMNTGKQHTFVETubiquitination[2, 4, 5]
183EMDSHEEKVFRAVREubiquitination[1, 2, 3, 4, 5, 6, 7]
265ARPSGPSKALKLGAKubiquitination[4, 5]
274LKLGAKGKEVDNFVDacetylation[4, 8]
274LKLGAKGKEVDNFVDubiquitination[2, 4, 5, 9]
282EVDNFVDKLKSEGETacetylation[10]
282EVDNFVDKLKSEGETubiquitination[1, 2, 3, 4, 5]
284DNFVDKLKSEGETIMubiquitination[2, 4, 9]
297IMSSSMGKRTSEATKubiquitination[2, 4, 5, 9]
304KRTSEATKMHAPPINubiquitination[2, 4, 5]
350MLRISDDKYGRIRLHacetylation[4, 8]
350MLRISDDKYGRIRLHubiquitination[2, 4]
363LHVENEDKKGVQLQTubiquitination[2, 5]
364HVENEDKKGVQLQTHubiquitination[2, 4]
376QTHPNVDKKLFTAESacetylation[4]
377THPNVDKKLFTAESLubiquitination[1, 2, 3, 4, 5, 7, 9]
388AESLIGLKNPEKSFPubiquitination[2, 4, 5, 9]
392IGLKNPEKSFPVNSDacetylation[10]
392IGLKNPEKSFPVNSDubiquitination[1, 2, 3, 4, 5, 7, 9]
404NSDVGVLKWRLQTTEubiquitination[1, 3, 4, 5, 9]
489CLPVIDAKNKSGSLEubiquitination[2, 5, 11]
491PVIDAKNKSGSLEFSubiquitination[4, 5]
526YCNIQVTKVTQVDGNubiquitination[2, 4, 5, 6, 12]
Reference
 [1] A proteome-wide, quantitative survey of in vivo ubiquitylation sites reveals widespread regulatory roles.
 Wagner SA, Beli P, Weinert BT, Nielsen ML, Cox J, Mann M, Choudhary C.
 Mol Cell Proteomics. 2011 Oct;10(10):M111.013284. [PMID: 21890473]
 [2] Systematic and quantitative assessment of the ubiquitin-modified proteome.
 Kim W, Bennett EJ, Huttlin EL, Guo A, Li J, Possemato A, Sowa ME, Rad R, Rush J, Comb MJ, Harper JW, Gygi SP.
 Mol Cell. 2011 Oct 21;44(2):325-40. [PMID: 21906983]
 [3] hCKSAAP_UbSite: improved prediction of human ubiquitination sites by exploiting amino acid pattern and properties.
 Chen Z, Zhou Y, Song J, Zhang Z.
 Biochim Biophys Acta. 2013 Aug;1834(8):1461-7. [PMID: 23603789]
 [4] Integrated proteomic analysis of post-translational modifications by serial enrichment.
 Mertins P, Qiao JW, Patel J, Udeshi ND, Clauser KR, Mani DR, Burgess MW, Gillette MA, Jaffe JD, Carr SA.
 Nat Methods. 2013 Jul;10(7):634-7. [PMID: 23749302]
 [5] Refined preparation and use of anti-diglycine remnant (K-ε-GG) antibody enables routine quantification of 10,000s of ubiquitination sites in single proteomics experiments.
 Udeshi ND, Svinkina T, Mertins P, Kuhn E, Mani DR, Qiao JW, Carr SA.
 Mol Cell Proteomics. 2013 Mar;12(3):825-31. [PMID: 23266961]
 [6] Proteome-wide identification of ubiquitylation sites by conjugation of engineered lysine-less ubiquitin.
 Oshikawa K, Matsumoto M, Oyamada K, Nakayama KI.
 J Proteome Res. 2012 Feb 3;11(2):796-807. [PMID: 22053931]
 [7] Systems-wide analysis of ubiquitylation dynamics reveals a key role for PAF15 ubiquitylation in DNA-damage bypass.
 Povlsen LK, Beli P, Wagner SA, Poulsen SL, Sylvestersen KB, Poulsen JW, Nielsen ML, Bekker-Jensen S, Mailand N, Choudhary C.
 Nat Cell Biol. 2012 Oct;14(10):1089-98. [PMID: 23000965]
 [8] Proteomic investigations reveal a role for RNA processing factor THRAP3 in the DNA damage response.
 Beli P, Lukashchuk N, Wagner SA, Weinert BT, Olsen JV, Baskcomb L, Mann M, Jackson SP, Choudhary C.
 Mol Cell. 2012 Apr 27;46(2):212-25. [PMID: 22424773]
 [9] Landscape of the PARKIN-dependent ubiquitylome in response to mitochondrial depolarization.
 Sarraf SA, Raman M, Guarani-Pereira V, Sowa ME, Huttlin EL, Gygi SP, Harper JW.
 Nature. 2013 Apr 18;496(7445):372-6. [PMID: 23503661]
 [10] Proteomic investigations of lysine acetylation identify diverse substrates of mitochondrial deacetylase sirt3.
 Sol EM, Wagner SA, Weinert BT, Kumar A, Kim HS, Deng CX, Choudhary C.
 PLoS One. 2012;7(12):e50545. [PMID: 23236377]
 [11] Methods for quantification of in vivo changes in protein ubiquitination following proteasome and deubiquitinase inhibition.
 Udeshi ND, Mani DR, Eisenhaure T, Mertins P, Jaffe JD, Clauser KR, Hacohen N, Carr SA.
 Mol Cell Proteomics. 2012 May;11(5):148-59. [PMID: 22505724]
 [12] Global identification of modular cullin-RING ligase substrates.
 Emanuele MJ, Elia AE, Xu Q, Thoma CR, Izhar L, Leng Y, Guo A, Chen YN, Rush J, Hsu PW, Yen HC, Elledge SJ.
 Cell. 2011 Oct 14;147(2):459-74. [PMID: 21963094
Functional Description
  
Sequence Annotation
  
Keyword
 Complete proteome; Reference proteome. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 552 AA 
Protein Sequence
MAECNLVAIL ISSIDNPLDK NLDNGGNSCL DFRPLNSFSQ PQVLLAAAVC TKAGKAIVSR 60
QFVEMTRTRI EGLLAAFPKL MNTGKQHTFV ETESVRYVYQ PMEKLYMVLI TTKNSNILED 120
LETLRLFSRV IPEYCRALEE NEISEHCFDL IFAFDEIVAL GYRENVNLAQ IRTFTEMDSH 180
EEKVFRAVRE TQEREAKAEM RRKAKELQQA RRDAERQGKK APGFGGFGSS AVSGGSTAAM 240
ITETIIETDK PKVAPAPARP SGPSKALKLG AKGKEVDNFV DKLKSEGETI MSSSMGKRTS 300
EATKMHAPPI NMESVHMKIE EKITLTCGRD GGLQNMELHG MIMLRISDDK YGRIRLHVEN 360
EDKKGVQLQT HPNVDKKLFT AESLIGLKNP EKSFPVNSDV GVLKWRLQTT EESFIPLTIN 420
CWPSESGNGC DVNIEYELQE DNLELNDVVI TIPLPSGVGA PVIGEIDGEY RHDSRRNTLE 480
WCLPVIDAKN KSGSLEFSIA GQPNDFFPVQ VSFVSKKNYC NIQVTKVTQV DGNSPVRFST 540
ETTFLVDKYE IL 552 
Gene Ontology
 GO:0030131; C:clathrin adaptor complex; IEA:InterPro.
 GO:0030126; C:COPI vesicle coat; IEA:InterPro.
 GO:0006886; P:intracellular protein transport; IEA:InterPro.
 GO:0006890; P:retrograde vesicle-mediated transport, Golgi to ER; IEA:InterPro. 
Interpro
 IPR022775; AP_mu_sigma_su.
 IPR008968; Clathrin_mu_C.
 IPR027059; Coatomer_dsu.
 IPR011012; Longin-like_dom. 
Pfam
 PF00928; Adap_comp_sub
 PF01217; Clat_adaptor_s 
SMART
  
PROSITE
 PS51072; MHD 
PRINTS