<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 MDP05546

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMSGSHLKTAGYGSHTAVVIPIPSIEEKNKKMQQETMMEKLRAKYRNKPKSYEDIKKSVRMYFIEKHYPMDPLCKAALQSALDKLQHYIKVTSRHGLVERLESLSRQLGLKFMEDQQMLFISTDMFYVEILLDASGKLSDVKVHHECKIEQQSNSSASSRELLNCLKAGDFADFTVQLEGLSSIYQLNAEPKVKKKAYVALQAMETDIFNLYQHQLQQQISGSSDSYYIMNKSSVGLVQQRRGGHPMKLTYFCPPLHLIETKTKGEKVGAATGSGTASRDFSIEQVMKSPNGLSATLNLEASSANKLQILPILSFTSESGLPLEQPGYAPLTQNNSMLMPATYVLRLSKPMPVCIDSLRALSLPGLSGLSSEGTTTVMNLIVQTASRQVIKGTQKGLYVNLPRETHCYFLTDNRRLKGTLISSLPFTEPAQVPKIIAFLKKQALFYTLLSSCVREQQKQYNDMDSTVILEVTAVSLNQITVELQHPYEESLATVDFLLEDSQATCTIYCLSNDYEALSQKLTRTVRQVLSIPMVIYKLLKCWDEEHQQKLHGAIAPGAGSGTAGGFSSAGGGGVGGGGMHGSNFGQFAMETGAGEGSSGASGGFNSVNNLKMDSKVRSLADAFAASTSAAAAIAGLMNLKRETDPQAAEGSSNILNPSSVPASKASDNEIADKYKNIWKDKTPNLKNCVSITPIAGDGKSLLQQQVDVQRTGGIEIIPLNAPASVGATPSTESPATTITITPITGVSKDGSKEAKKQVMSGSGSGTKRPHESSSSLSASSNSSSSSNSSSSSDTQKEKKRKKKRDDSPMGPPEKVYSRQNSPAGGGMAEATVGSGVVRKFSSPSTSSSGTGAVLALMSGQISARPSPKHSPVYSSPKHNSNSNTASNSPKSPFGTLSPKHGSSGKPSMSTLKSATAATSLSLSPKAEKTITAGAGGGSLSLATAGSALSSSANPSMMRPVPPLASSSSQLPAAIKKDKQIATSSPSAPPPGVAAAVAALKSSQQQQQLKSSVASLSHLAAGGNLSSYVAPAVAALELNALRKGMAGAGMGPGLGAAAGAVV
Length1060
PositionMiddle
OrganismDrosophila virilis (Fruit fly)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Diptera> Brachycera> Muscomorpha> Ephydroidea> Drosophilidae> Drosophila.
Aromaticity0.05
Grand average of hydropathy-0.298
Instability index53.10
Isoelectric point9.35
Molecular weight111787.71
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: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

>MDP05546
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     129.90|      29|      30|     913|     941|       1
---------------------------------------------------------------------------
  913-  936 (31.74/11.04)	..........A..TAATSLS..LSP.......KAEKTITAGAGGG
  937-  966 (40.50/15.94)	S.LSLA...tA..GSALSSS..ANP.......SMMRPVPPLASSS
  967-  997 (31.69/11.01)	SqLPAAikkdK..QIATS.....SP.......SAPPPGVAAAVAA
 1013- 1049 (25.97/ 7.81)	S.LS.......hlAAGGNLSsyVAPavaalelNALRKGMAGAGMG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.90|      19|      30|     839|     868|       2
---------------------------------------------------------------------------
  839-  868 (25.06/20.91)	FSSPSTSSSGTGAvlalmsgqiSarPSPKH
  872-  890 (33.84/10.68)	YSSPKHNSNSNTA.........S..NSPKS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     222.29|      72|     318|     268|     348|       3
---------------------------------------------------------------------------
  268-  348 (107.37/72.20)	GAATGSGTASRDF.SIEQVMKSPNGLSATLNLEASSANKLQILPILSFTSESGlPLEQPGYAPLTQNNSmlMPAtyvlrlSK
  591-  663 (114.92/58.45)	GAGEGSSGASGGFnSVNNLKMDSKVRSLADAFAASTSAAAAIAGLMNLKRETD.PQAAEGSSNILNPSS..VPA......SK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.83|      17|      48|     681|     698|       6
---------------------------------------------------------------------------
  681-  697 (31.26/20.52)	TPNLKNCVSITPIAG...DG
  730-  749 (21.57/ 7.00)	TESPATTITITPITGvskDG
---------------------------------------------------------------------------




































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 MDP05546 with Med1 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) ATAGSALSSSANPSMMRPVPPLASSSSQLPAAIKKDKQIATSSPSAPP
2) KSLLQQQVDVQRTGGIEIIPLNAPASVGATPSTESPATTITITPITGVSKDGSKEAKKQVMSGSGSGTKRPHESSSSLSASSNSSSSSNSSSSSDTQKEKKRKKKRDDSPMGPPEKVYSRQNSPAGGGMAEATVGSGVVRKFSSPSTSSSGTGAVLALMSGQISARPSPKHSPVYSSPKHNSNSNTASNSPKSPFGTLSPKHGSSGKPSMSTLKSATAATSLSLSPKAEKTITAGAGG
3) NLKRETDPQAAEGSSNILNPSSVPASKASD
941
698
637
988
935
666










Molecular Recognition Features






MoRF SequenceStartStop




1) QLPAAIKKDKQIATS
968
982