CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-023715
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 Mediator of RNA polymerase II transcription subunit 16 
Protein Synonyms/Alias
 Mediator complex subunit 16; Thyroid hormone receptor-associated protein 5; Thyroid hormone receptor-associated protein complex 95 kDa component; Trap95; Vitamin D3 receptor-interacting protein complex 92 kDa component; DRIP92 
Gene Name
 MED16 
Gene Synonyms/Alias
 DRIP92; THRAP5 
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
149KLALHVEKSGASSFGubiquitination[1]
158GASSFGEKFSRVKFSubiquitination[1, 2, 3]
313VECWSLRKEGLPVNNubiquitination[1]
332ISPVVGDKQPTILKWubiquitination[1]
530STRILAMKASLCKLSubiquitination[4]
574HFLNTPDKSPGDRLTubiquitination[1, 2, 3]
695LLFRLLTKLWICCRDubiquitination[2, 3]
745LVSRLQPKQPLRLQFubiquitination[2, 3, 5]
778ARAPGQPKIDHLRRLubiquitination[5, 6]
796ACPTEECKACTRCGCubiquitination[5, 6, 7]
808CGCVTMLKSPNRTTAubiquitination[5, 6, 8]
817PNRTTAVKQWEQRWIubiquitination[1, 2, 3, 5, 6]
Reference
 [1] 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]
 [2] 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]
 [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] 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]
 [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] 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]
 [7] 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]
 [8] 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] 
Functional Description
 Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. 
Sequence Annotation
 REPEAT 79 118 WD 1.
 REPEAT 210 252 WD 2.
 REPEAT 275 319 WD 3.
 REPEAT 634 675 WD 4.
 REPEAT 790 829 WD 5.  
Keyword
 Activator; Alternative splicing; Complete proteome; Direct protein sequencing; Nucleus; Polymorphism; Reference proteome; Repeat; Transcription; Transcription regulation; WD repeat. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 877 AA 
Protein Sequence
MCDLRRPAAG GMMDLAYVCE WEKWSKSTHC PSVPLACAWS CRNLIAFTMD LRSDDQDLTR 60
MIHILDTEHP WDLHSIPSEH HEAITCLEWD QSGSRLLSAD ADGQIKCWSM ADHLANSWES 120
SVGSLVEGDP IVALSWLHNG VKLALHVEKS GASSFGEKFS RVKFSPSLTL FGGKPMEGWI 180
AVTVSGLVTV SLLKPSGQVL TSTESLCRLR GRVALADIAF TGGGNIVVAT ADGSSASPVQ 240
FYKVCVSVVS EKCRIDTEIL PSLFMRCTTD LNRKDKFPAI THLKFLARDM SEQVLLCASS 300
QTSSIVECWS LRKEGLPVNN IFQQISPVVG DKQPTILKWR ILSATNDLDR VSAVALPKLP 360
ISLTNTDLKV ASDTQFYPGL GLALAFHDGS VHIVHRLSLQ TMAVFYSSAA PRPVDEPAMK 420
RPRTAGPAVH LKAMQLSWTS LALVGIDSHG KLSVLRLSPS MGHPLEVGLA LRHLLFLLEY 480
CMVTGYDWWD ILLHVQPSMV QSLVEKLHEE YTRQTAALQQ VLSTRILAMK ASLCKLSPCT 540
VTRVCDYHTK LFLIAISSTL KSLLRPHFLN TPDKSPGDRL TEICTKITDV DIDKVMINLK 600
TEEFVLDMNT LQALQQLLQW VGDFVLYLLA SLPNQGSLLR PGHSFLRDGT SLGMLRELMV 660
VIRIWGLLKP SCLPVYTATS DTQDSMSLLF RLLTKLWICC RDEGPASEPD EALVDECCLL 720
PSQLLIPSLD WLPASDGLVS RLQPKQPLRL QFGRAPTLPG SAATLQLDGL ARAPGQPKID 780
HLRRLHLGAC PTEECKACTR CGCVTMLKSP NRTTAVKQWE QRWIKNCLAV EGRGPDACVT 840
SRASEEAPAF VQLGPQSTHH SPRTPRSLDH LHPEDRP 877 
Gene Ontology
 GO:0016592; C:mediator complex; IDA:UniProtKB.
 GO:0004872; F:receptor activity; IDA:UniProtKB.
 GO:0046966; F:thyroid hormone receptor binding; IDA:UniProtKB.
 GO:0030375; F:thyroid hormone receptor coactivator activity; IDA:UniProtKB.
 GO:0042809; F:vitamin D receptor binding; NAS:UniProtKB.
 GO:0030521; P:androgen receptor signaling pathway; IDA:UniProtKB.
 GO:0045893; P:positive regulation of transcription, DNA-dependent; IDA:UniProtKB.
 GO:0006357; P:regulation of transcription from RNA polymerase II promoter; NAS:UniProtKB.
 GO:0006367; P:transcription initiation from RNA polymerase II promoter; IDA:UniProtKB. 
Interpro
 IPR021665; Mediator_Med16.
 IPR015943; WD40/YVTN_repeat-like_dom.
 IPR001680; WD40_repeat.
 IPR017986; WD40_repeat_dom. 
Pfam
 PF11635; Med16
 PF00400; WD40 
SMART
 SM00320; WD40 
PROSITE
 PS00678; WD_REPEATS_1
 PS50082; WD_REPEATS_2
 PS50294; WD_REPEATS_REGION 
PRINTS