<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 MDP25045

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMSGTNAKCSAGAGGGFGSHIPSIEEKNRQIQQETMMEKLRAKYRNKPKSALDKLQHYIKVTSRHGLVERLESLSRQLGLKFMEDQQLLFISTDMFYVEILLDASGNLSDVKVHHECKIEQQSSELVKCLKSGDFADFTVQLEGLSSIYQLNAEPKVKKKAFVALQAMETDIYSLYSHQMQNRTGDSYDIMNSSAVGLVLQRRGGHPMKLTYFCPPIHLAEGESKLASSEFSIDQVMHSSHGLSATVNLEGSSANKLQIMPILSFSRDPQTGLELPTYAQLNQNNSMLMPATYVLRLNKPMPVCYETLKGLGLPGVEGMAAAPSPPVATVLNLIVQTASKQAIKNTQRGLYVNLPKETHCYFFTDNRKLQGTLISSLPFTEPAQVPKIMTFLKKQALFYTLLASCVREQQKQYNDMDSTVILEVTAVSFNQITVELQHPYEESLATVDFLLEDGQATCSIYCLNNEYEVLSQKLTRTVRKVLSIPMVIYKLLKCWDEEHQFKLHGVIGSGAGAGAGSGAGAGTGNGGGVGTGLAHAHNFNQFAMEAGPSLDGSLPSGGFTSINSLKMEAKSRSLADAFVASTSAAAAIASLINLKRETDPQSALGPVSSGNSSSSGSSSTVLAAAKATDHEIADKYKNIWKDKTPNLKHCVSITPIPGDGKTGGGGAGGGPVGSSVGGVVPTVDVQRTGGIEIIPLNAQSQTSGTRDGGSATTTTAPTTITITPITGKDPAKESSKKSSSSAPAGVSIATKRPHESSTSASSSSAGSGGSSSSTSSTGSSSSSSTDTQKEKKRKKKRDDSPMGPPEKIYSRQNSPAAGGDASATGGVVRKFSSPSSSPKAGGSGQGILSGVPPARPSPKHSPVYSSPKHNTASNSPKSPFGTHSPKHGSSGKPSMSTLKSAATAGTSLSPKGDKSTSSVGPPPSASVGSSTGASANPSLVRSFASVGAPPPPPPVPPLSSAISSSSSSSSSCSSSGSAGGSSSQQSGSSGIKKEKSSAAGPSSSSGASSGPSGGSGGVGGVSPASVVSVASVAAAVAALKTSQQQQQQQQLKSSVASLSHLAAGGSLGSYAAAGGAAAVAAAAATVGAEAGAITSGSALEMSALAERPWRERGKSVSLMTSTAALATAIPATATAAAAGTGLGLGQGQGLGQGVGTAPSTSAAVGVGVGPAASAGAAPVQAAAPATFQQQQPGAAPPSSCLATSGASSSDGGASNITSGTSSEYMVKPSSQEGLKLTINKTGSSKSSSSGASSSSIGMGKTKGPSSGSSGGASASASSSSYAKKQHTGLKPGVNSGPASKKATASTGGATTSGGASSSSKHLFQKANSSGNLSSKLSGSASGGGVLLTKSNSTNSFQEHNAPRRRPSMGGLASSGGGAGGAPRKGGSSAGGGSSSGAVSPAALTGSMSQPPPRFDHHTDMMTILQYASPTMAASMEGFIKGLHNKFQIPKLSQRGSGGSGRSTPSSTEQTSTTATSTVVSATTSSALPDPDTKPSAAPPPPGNDLLLNLSTTAPMPSGDGIDEELLASLAGE
Length1531
PositionMiddle
OrganismDrosophila persimilis (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-0.302
Instability index52.99
Isoelectric point9.39
Molecular weight154182.11
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. 
ECO:0000256	RuleBase:RU364059
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

>MDP25045
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             9|     465.12|      57|      57|    1200|    1256|       3
---------------------------------------------------------------------------
  514-  564 (41.80/ 7.15)	.A.GSGAGA.G....TGNGGGVGTGLAHAHNF...NQF....AMEAGPSLDGS....LPS.............GGFTSiNSL.
  573-  622 (46.60/ 9.02)	LA.DAFVAS.T....SAAAA.IASLINLKRETDPQSAL....G......PVSSGN..SSS.............SGSSS.TVLA
  799-  843 (41.85/ 7.17)	........S.P....MGPPEKIYSRQNSPAAGGDASAT....G...GVVRKFSSP..SSS.............PKAGG.S..G
  870-  919 (53.63/11.76)	TA..SNSPK.S....PFGTHSPKHGSSG....KP.SMS....TLK.SAATAGTSL..SPK.............GDKST.SSVG
 1005- 1061 (42.59/ 7.46)	.....GASS.G....PSGGSGGVGGVSPASVVSVASVAaavaALKTSQQQQQQQQ..LKS.............SVASL.SHLA
 1134- 1199 (44.15/ 8.07)	AA.AAGTGL.G....LGQGQGLGQGVGT....APSTSA....AVGVGVGPAASAG..AAPvqaaapatfqqqqPGAAP.PSSC
 1200- 1256 (88.78/25.44)	LA.TSGASS.S....DGGASNITSGTSSEYMVKPSSQE....GLKLTINKTGSSK..SSS.............SGASS.SSIG
 1257- 1313 (53.07/11.54)	MGkTKGPSSgS....SGGAS..ASASSSSYAKK..QHT....GLKPGVNSGPASKkaTAS.............TGGAT.TSGG
 1370- 1419 (52.63/11.37)	LA.SSGGGA.GgaprKGGSS..AGGGSSSGAVSPAA.........L....TGSMS..QPP.............PRFDH.HTDM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.92|      19|      25|     737|     761|       4
---------------------------------------------------------------------------
  716-  741 (21.42/ 6.18)	PTTITIT...PITGKDPakesskkSSSSA
  742-  764 (23.51/10.67)	PAGVSIAtkrPHESSTS......aSSSSA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.39|      22|     651|       3|      24|       5
---------------------------------------------------------------------------
    3-   24 (41.98/17.45)	GTNAKCSAGAGGG.....FGSHIPSIE
  657-  683 (35.41/13.49)	GDGKTGGGGAGGGpvgssVGGVVPTVD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      93.12|      29|     349|    1081|    1131|      10
---------------------------------------------------------------------------
 1103- 1131 (50.05/46.54)	LAERPWRERGKSV...SLMTSTAALATAIPAT
 1450- 1481 (43.07/10.52)	LSQRGSGGSGRSTpssTEQTSTTATSTVVSAT
---------------------------------------------------------------------------




































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 MDP25045 with Med1 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) APVQAAAPATFQQQQPGAAPPSSCLATSGASSSDGGASNITSGTSSEYMVKPSSQEGLKLTINKTGSSKSSSSGASSSSIGMGKTKGPSSGSSGGASASASSSSYAKKQHTGLKPGVNSGPASKKATASTGGATTSGGASSSSKHLFQKANSSGNLSSKLSGSASGGGVLLTKSNSTNSFQEHNAPRRRPSMGGLASSGGGAGGAPRKGGSSAGGGSSSGAVSPAALTGSMSQPPPRFDHHTDMMTILQYA
2) KHCVSITPIPGDGKTGGGGAGGGPVGSSVGGVVPTVDVQRTGGIEIIPLNAQSQTSGTRDGGSATTTTAPTTITITPITGKDPAKESSKKSSSSAPAGVSIATKRPHESSTSASSSSAGSGGSSSSTSSTGSSSSSSTDTQKEKKRKKKRDDSPMGPPEKIYSRQNSPAAGGDASATGGVVRKFSSPSSSPKAGGSGQGILSGVPPARPSPKHSPVYSSPKHNTASNSPKSPFGTHSPKHGSSGKPSMSTLKSAATAGTSLSPKGDKSTSSVGPPPSASVGSSTGASANPSLVRSFASVGAPPPPPPVPPLSSAISSSSSSSSSCSSSGSAGGSSSQQSGSSGIKKEKSSAAGPSSSSGASSGPSGGSGGVGGV
3) LHNKFQIPKLSQRGSGGSGRSTPSSTEQTSTTATSTVVSATTSSALPDPDTKPSAAPPPPGNDLLLNLSTTAPMPSGDGIDEELLASLAGE
1176
647
1441
1426
1020
1531










Molecular Recognition Features






MoRF SequenceStartStop




1) EKIYSRQ
2) IDEELLASLA
3) KHLFQKA
4) SGIKKEKSSAA
5) YAKKQHTGLK
805
1520
1319
988
1280
811
1529
1325
998
1289