<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 MDP25253

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMSGSNAKSSGTGFGSHIPSIEEKNKQIQQETMMEKLRAKYRNKPKSYEEIKKSVRMYFIEKHYPLDPLCKATLQSALDKLQHYIKVTSRHGLVERLESLSRQLGLKFMEDQQLLFISTDIDPAGRRRSLSDVKVHHECKIEQQSSELVACLKSGDFADFTVQLEGLSSIYQLNAEPKVKKKAFVALQAMETDIQSLYQLHLQSHSGDSYSLMTSSSVGLVLPRRGGHPMKLTYFCPPLHLPEGDPKLASGDFTIDQVMRSSYGLSATINLEGSSANKLQTLPTVTLVRDSQTGLEVPTYAQLNQNNSLLMPATYVLRLNKPMPVCLESLKALGLPGLDSVATPPSPPTTVLNLIVQTASKQAIKNTQRGLYVNLPKETHCYFFTDNRKLQGTLVSSLPFTEPAQVPRIVAFLKKQALFYTLLASCVREQQKQYNDMDSTVILEVTAVSFNQITVELQHPYEESLATVDFLLEDGQPTCSVYCLTNEYELLSQKLTRTVRKVVSIPMVIYKLLKCWDEEHEFKLHGAIGPGAGSGAIGGGGMSGGGPVSGVGNNFSQFAMDTATPTDGSLPGGGFTNINNLKMDAKSRSLADAFAASTSAAAAIAGLINLKRETDPQSGSSTSGTTVSGSSGSSGSAKTSDHDIADKYKNIWKDKTPNLKHCVSITPIPGDGKSGSAGGVSGVEVQRTGGIEIIPLNAQAAVAGGGVQASSSATPTTITITPITGKDPSKDSTKKSTSASAGVGVAAKRPHESSTSSSSTSGGSGSGSSMSSSASSGSSDTQKEKKRKKKRDDSPMGPPEKIYSRQNSPAGGGDASATGGVVRKFSSPSSSPKAGGAGQGLMAGVPTARPSPKHSPVYSSPKHNTASNSPKSPFGTHSPKHGSSGKPSMSTLKSAATAATILSPKGDKSSSAVGSTSSGPSASSGSGGATGLVRSFASVGAPPPPPPIPPLASASGSISSSQSLKKEKTSSASGSSSTTSSATAGVSSGGGISPASVAAAVAALKSSQQQMKSVASLSHLAEGGGLGSYAAPSGAGVSGAAAVVVGAGAGAGAGASGLEMSALRKGMAGGAVSLMTSTAALAPTIPAPTTTVAAGAAGSAASLVSPVSAVVGQGQETAGAAAAATLATATILQQQQQPGAAPTSSCLTTSGGSNDSAGSSNPAGASTEYMVKPSSQEGLKLTINKTGSSKSSGTGSGSSSSSGLQAKAKSSSIGATSFAGSTGSTKKQHTGLKPGVNSGPASKKATAAGSSAPASSSKHFFQKANSSGNLSSKLSGSGAGGGIPLTKSNSTNSFQEHNAPRRRPSMGALASGSSAGGSGQRKLGSTSAGGSGSSGSVSPALSGSMSQPPPRFDHHTDMMTILQYASPTMAASMEGFIKGLHNKFQIPKLSQRGSGGNTNSGRSTPSGSSETASAGTSASILGPAASSTGLTEPEAKPPVPPPPSGNEGLLNLSSTAGTPSADGIDEELLASLAGE
Length1474
PositionMiddle
OrganismDrosophila simulans (Fruit fly)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Diptera> Brachycera> Muscomorpha> Ephydroidea> Drosophilidae> Drosophila> Sophophora.
Aromaticity0.04
Grand average of hydropathy-0.315
Instability index52.90
Isoelectric point9.45
Molecular weight149415.41
Publications
PubMed=17994087

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:EnsemblMetazoa

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

GO - Biological Process
positive regulation of transcription by RNA polymerase II	GO:0045944	IEA:EnsemblMetazoa









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP25253
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
            10|     734.42|      88|      91|     807|     894|       1
---------------------------------------------------------------------------
  529-  599 (43.68/ 6.10)	...................................P...GAG........sGAigG............G......GM...SGG.....GPVS...GVGNNFSQFAMDT..........ATPT........DGSLPGGGFtNIN..........NL..KMD.AKS.RS...ladafAAST..SA
  600-  666 (44.41/ 6.34)	...........AAAIAGL....InlK.RETDPQSGS...STS.........GT..T........................VSG.....SSGS...SGSAKTS................DHDI........A.DKYKNIW.KDK..........TPnlKHC.VSI.TP................
  668-  775 (74.48/16.21)	.PG....DGKSGSA.GGVsgveV..Q.RTGGIEIIPlnaQAA.........VA..G............G......GV...QAS..ssaTPTTitiTPITGKDPSKDST..........KKSTsasagvgvAAKRPHESS.TSS..........SS..TSG.GSGsGS........SMSSSASS
  807-  894 (157.80/43.55)	SPA....GGGDASATGGV....V..R.KFSSPSSSP...KAG.........GA..G............Q......GL...MAG.....VPTA...RPSPKHSPVYSSP..........KHNT........ASNSPKSPF.GTH..........SP..KHG.SSG.KP........SMSTLKSA
  902- 1006 (92.06/21.98)	SPK....GDKSSSAVGST....S......SGPSASS...GSG.........GA..T...................GLvrsFAS.....VGAP...PPPPPIPPLASASgsisssqslkKEKT........SSASGSSS..TTS..........SA..TAGvSSG.GGispasvaaAVAALKSS
 1011- 1102 (78.42/17.50)	KSV....ASLSHLAEGGG....L..G.SYAAPSG......AGvsgaaavvvGA..G............A......GA...GAGasgleMSAL...RKGMAGGAV..SL..........MTST........AALAPTIPA.PTT..........TV..AAG.AAG...........SAASL...
 1191- 1265 (71.70/15.30)	SGT....GSGSSSSSGLQ....A..KaKSSSIGATS...FAG.........ST..G............StkkqhtGL...KPG.....VNSG...PASKKATAAGSS..............................................AP....A.SSS.KH........FFQKANS.
 1266- 1311 (47.17/ 7.25)	..............................SGNLSS...KLS.........GS..G............A......G.....GG.....IPLT.......K...............................SNSTNS.F.QEH.........nAP..RR......RP........SMGALASG
 1313- 1382 (69.41/14.54)	............SAGGSG....Q..R.KLGS..TS.....AG.........GS..G............S............SG...................SV..SP..........ALSG........SMSQPPPRF.DHHtdmmtilqyaSP..TMA.ASM.EG........FIKGLHNK
 1385- 1459 (55.28/ 9.91)	IPKlsqrGSGGNTNSG.........R...STPSGSS...ETA.........SA..GtsasilgpaassT......GL...TE.......PEA...KP.....PVPPPP..........SGNE........GLLNLSSTA.GTP..........S.............................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     317.84|      89|      94|     151|     243|       2
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   96-  147 (48.05/21.20)	...............................................LESLsRQLGLKFME.DQQLLFISTDIDPAGRRRSLSDVKVHHEC.KiEQQSSEL
  151-  243 (143.48/91.31)	LKSGdfaDFTVQlEGLSSIYQLNAEPKVKKKAFVALQAMET.....DIQSL.YQLHLQSHSGDSYSLMTSSSVGLVLPRRGGHPMKLTYFC.P.PLHLPEG
  247-  336 (126.32/70.31)	LASG...DFTID.QVMRSSYGLSATINLEGSSANKLQTLPTvtlvrDSQTG.LEVPTYAQLNQNNSLLMPAT..YVL..RLNKPMPVCLESlK.ALGLP.G
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.08|      21|     660|     464|     484|       3
---------------------------------------------------------------------------
  464-  484 (39.18/25.75)	LATVDFLLEDGQP..TCSVYCLT
 1125- 1147 (32.90/20.29)	LATATILQQQQQPgaAPTSSCLT
---------------------------------------------------------------------------




































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 MDP25253 with Med1 domain of Kingdom Metazoa
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