<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Detailed information on MDP07113

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMSYPPHPTHSDNLTAYRQVIENGISSISRFRSNAPPDLYRQHVRFATLRNQLFILAQHYDLQLADTGPLLPPGASSSGGIAWRLAADCFSVVISAIPADGYSLPPGTTPPEDYPVSVAAVHFEFNQDKPIECSVLTEDIRKRIYYSLWKHVKNLIALYNLPGEIAQRCRAYLCLQALEQDLIALTTAVSNHLPHPATPMSLELTGGSSMKVANTSRDVECLAQSINGSAVGQVVPRTGGCFSCLTYYISPARRLQVLEEIHSRPPTGLKEGSESGMLDGYCASVGLRATANRAQHSLPLVSLVNLTKDADGYNVAQFTTADNITRVTLAAEFFLKLNPPLLFDIDSITEVEAITKIPMDSIRKQEPQSLRYILLCQREQEGLASIDPHFILPNRTQHSYHVLSNSLRGYLVGEIAFTCPSQLPPLIQLLRQKASWLLFISISVVVNILYRFLDPELTFHFKVGLPSQKTIIVNLMHPLWDTRMVEVSIDIGDLGVSGARLSGAVIPEYMRRQFDMEPNERMGSEEWFNPTAILSQTHNLPIAMTWLLIRLGCPATRVLTELFPYSGSPTPKKEAKEFNNNKIHRSNLQSKDLIERAISRLHFSNDAAANGVLSGADKISKQILDEARFFFLSGNVLEGIVYDPTANATPNWPAALQPNQQSLPPPPQLPTQQIPQVSRPPLLPPGVMATTPPSVITPDQLSNSSVPTPKQVPEDTFPTSASNNQGYRSIPIIPGVMATPSFSQSAQSMRPPVVSTPTNHTFKPQTPASCGPSMLVSLLDEDSSPQSLPPPPHVGSSAIPPNRIISSPVSAAIHQQNLPSGSPLSNSNHSAHTPPTYLKSSGSSSDVLNHLLTSSSSTSSTTMNQGSSSGATVNPSQSAATKPASITPSDPLVVVPSKKGRKRRMEPPLGATFISALPTRATAMENMKQSSVKAGMISSSKPPPLTTAAPVAKVSVYDFEDCPPASTTSTTSITPPPPLPSQSSQIPPQLPLQPPSQSKPQPFVFNEVTTTPERTTEMKSSLKFVIKTNRACLTGSNPVLEKASSVPKPRTKTVESKPVAYLKQMQQHLPSTSTTQQYPKKERKKRVSSKIKEAVSVPSSQPSLVMSISSPKVFPTNVVPVAQSPQKKHGLMKNKTGRKKTLSTSSAASEPKRHRLMPLEESQQPLEPTGSLGGGNGTNRLIKGYKIPKVRKLSTTSNTNASPSLNNNQEDSNASQTVSQATTASGSSIISPSATGKAPQRSLLYIVENLREKRAVEQSQSQQTMTSGSSATVNTYAAVDGTNSADDTLPLVDSSENLFEKFGNTATPNKPGVGSSSSVSSSTKRLKSTPPPPPSVYDQKDPRITTLEDTSAEHLALVPDVHLATEPEDNAADAILSLDTHSDSQTPPASMDEESVSAGGLIKAPTDTPDSPTESLSSKAFVALSKIIPVTQESTAQPPSQPTAVPTGPFYHKSLPPGRPGSNATRGGGMPRGTGPRFNHLRGSAGWGSRPFNAPMMPRGASGGGPGSGVWGGPPPGGIPPPSGGNWGSHPLPPRASAPPLYRAPPPSSFGSGGGGQSRQPPSKN
Length1564
PositionMiddle
OrganismHymenolepis diminuta (Rat tapeworm)
KingdomMetazoa
LineageEukaryota> Metazoa> Spiralia> Lophotrochozoa> Platyhelminthes> Cestoda> Eucestoda> Cyclophyllidea> Hymenolepididae> Hymenolepis.
Aromaticity0.05
Grand average of hydropathy-0.391
Instability index58.63
Isoelectric point9.21
Molecular weight167417.50
Publications









Function






Annotated function

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. 


GO - Cellular Component
mediator complex	GO:0016592	IEA:InterPro

GO - Biological Function
transcription coregulator activity	GO:0003712	IEA:InterPro

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IEA:InterPro









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP07113
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     101.39|      31|      31|     785|     815|       2
---------------------------------------------------------------------------
  762-  804 (38.08/11.89)	KPQTPASCGPSmlvslldedsspQSLPPPP.HVGS.....SAIPPNRII
  960-  991 (35.78/10.61)	DCPPASTTSTT............SITPPPPlPSQS.....SQIPPQLPL
 1532- 1563 (27.53/ 6.04)	P.PRASAPPLY............RA.PPPS.SFGSggggqSRQPPSK..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             7|     736.60|     124|     187|     632|     755|       3
---------------------------------------------------------------------------
  501-  614 (102.57/34.18)	SGAVIPEYMrrqFDMEPNermGSEEWfnP.....TAI..................................LSQT.HN.......L....PiamtwllirlgcPATRVLTE............................LFP......................................Y......SGSPTP.............KKEAKE.....FNNN..KIHRSNLQS.KDLIER.AISRL.HFSND..A......AA..N......................GVLSG
  632-  755 (224.75/84.34)	SGNVLEGIV...YDPTAN...ATPNW..P.....AAL..................................QPNQ.QS.......L....P............PPPQLPTQ..........QIPQ.V......SRPPL.LPPGV.MATTP.....PS..........VITP.DQL....SN......SSVPTP.............KQVPEDT....FPTS..ASNNQGYRS.IPIIPG.VMATP.SFSQS..A......QSMRP......................PVVST
  819-  946 (121.53/41.96)	SGSPLSN.....SNHSAH....TP....P.....TYL..................................KSSG.SSsdvlnhlL....T............SSSSTSST..........TMNQgS......SSGAT.VNPSQ.SAATK.....PA..........SITPsDPL............VVVPSK.............KGRKRRM....EPP.......LGATF.ISALPTrATAME.NMKQS..SvkagmiSSSKP......................PPLTT
  954- 1088 (56.44/15.23)	S.......V...YD.......................fedcppasttsttsitpppplpsqssqippqlplQPPS.QS.......K....P............................................QPF.VFNEV..TTTP.....ERttemksslkfVIKT.NRAcltgSNpvlekaSSVPKPrtktveskpvaylKQM.QQH....LP.S..TSTTQQY..............P...............KKERK......................KRVSS
 1091- 1157 (50.76/12.90)	................KE...AV.SV..P.....SS...................................QPSLvMS.......I....S............SPKVFPTN..........VVP..V......AQSPQ.KKHGL.M.............................................KN.............KTGRKKT....LSTSsaASEPKRHRL.MP.........................................................
 1158- 1293 (68.66/20.25)	....................................L..................................EESQ.QP.......L....E............PTGSLGGGngtnrlikgyKIPK.V......RK....LSTTS.NTNAS.....PS..........LNNN.QED....SN......AS.QTV.............SQATTASgssiISPS..ATGKAPQRSlLYIVEN.LREKR.AVEQSqsQ......QTMTSgssatvntyaavdgtnsaddtlPLVDS
 1294- 1424 (111.92/38.02)	SENLFEK.....FGNT.....ATPNK..PgvgssSSV..................................SSST.KR.......LkstpP............PPPSVYDQ..........KDPR.IttledtSAEHLaLVPDVhLATEPednaaDA..........ILSL.DTH....SD......SQTP.P.............ASMDEES......VS..AG...G......LIKA.PTDTPdSPTES..L......SSKAF......................VALS.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.37|      19|      26|    1428|    1451|       4
---------------------------------------------------------------------------
 1428- 1451 (35.01/20.58)	PvtqesTAQPPSQPT...AVP..TGP.FYH
 1455- 1479 (27.36/ 8.08)	P.....PGRPGSNATrggGMPrgTGPrFNH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      93.08|      25|      31|      64|      89|       5
---------------------------------------------------------------------------
   64-   89 (43.48/23.44)	ADtGPLLPPGASSSGGIAWRLAADCF
   98-  122 (49.60/23.45)	AD.GYSLPPGTTPPEDYPVSVAAVHF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.48|      18|      26|     140|     157|       6
---------------------------------------------------------------------------
  140-  157 (33.05/27.38)	RKRIYYSLWKHVKNLIAL
  167-  184 (32.43/26.72)	RCRAYLCLQALEQDLIAL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      82.47|      26|      31|     261|     291|       7
---------------------------------------------------------------------------
  261-  290 (37.43/33.06)	HSRPPTGLKEGSESGmlDGYcaSVGLRATA
  295-  320 (45.04/21.33)	HSLPLVSLVNLTKDA..DGY..NVAQFTTA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.76|      14|      26|     443|     456|       8
---------------------------------------------------------------------------
  443-  456 (23.24/13.52)	VVVNILYRFLDPEL
  470-  483 (26.52/16.45)	IIVNLMHPLWDTRM
---------------------------------------------------------------------------




































Explaination for Stockholm format
  The  "Stockholm" format is a system for marking up features in a multiple alignment. These mark-up annotations are preceded by a 'magic' label, of which there are four types. The Stockholm format is used by HMMER, Pfam, and Belvu. Mark-up lines include any characters except whitespace. Underscore ("_") is used instead of space. 

 #=GR (seqname) PP (Generic per-Sequence AND per-Column markup, exactly 1 char per column) where PP is Posterior Probability  [0-9*], (0=0.00-0.05; 1=0.05-0.15; *=0.95-1.00) 
 
 #=GC PP_cons line is Stockholm-format consensus posterior probability annotation for the entire column.  It’s calculated simply as the arithmetic mean of the per-residue posterior probabilities in that column.  This should prove useful in phylogenetic inference applications, for example, where it’s common to mask away non confidently aligned columns of a multiple alignment. The PP_cons line provides an objective measure of the confidence assigned to each column.
 
 #=GC RF line is Stockholm-format reference coordinate annotation, with an x marking each column that the profile considered to be consensus.





Alignment of MDP07113 with Med1 domain of Kingdom Metazoa
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