<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 MDP25179

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMSGTHSKTIGGAGYSSHTPVVMPIPSIEEKNKQMQQETMMEKLRAKYRNKPKSYEDIKKSVRMYFIEKHYPMDPLCKAALQSALDKLQHYIKVTSRHGLVERLESLSRQLGLKFMEDQQMLFISTDMFYVEILLDASGKLSDVKVHHECKIEQQSNSSASSRELLNCLKAGDFADFTVQLEGLSSIYQLNAEPKVKKKAYVALQAMETDIFNLYQHQLQQQISGSSDSYYIMNKSSVGLVQQRRGGHPMKLTYFCPPLHLIETKTKGEKVGAATGSGTASRDFSIEQVMKSPNGLSATLNLEASSANKLQILPILSFTSESGLPLEQPGYAPLTQNNSMLMPATYVLRLSKPMPVCIDSLRALSLPGLSGLSSEGTTTVMNLIVQTASRQVIKGTQKGLYVNLPRETHCYFFTDNRRLKGTLISSLPFTEPAQVPKIIAFLKKQALFYTLLSSCVREQQKQYNDMDSTVILEVTAVSLNQITVELQHPYEESLATVDFLLEDSQATCTIYCLSNDYEALSQKLTRTVRQVLSIPMVIYKLLKCWDEEHQQKLHGAIAPGAGSGTAGGFSSAGGGGVGGGGMHGSNFGQFAMETGAGEGSSGASGGFNSVNNLKMDSKVRSLADAFAASTSAAAAIAGLMNLKRETDPQAAEGSSSILTPSSVSASKASDNEIADKYKNIWKDKTSNLKHCVSITPIAGDGKSLLQQQVDVQRTGGIEIIPLNAPASVGATPSTDSPATTITITPITGVSKDGSKEAKKQVMSGSGSGTKRPHESSSSLSASSNSSSSSNSSSSSDTQKEKKRKKKRDDSPMGPPEKVYSRQNSPAGGGMADATTGSGAVRKFSSPSTSSSGTGAVLALMSGQPSARPSPKHSPVYSSPKHNSNSNTASNSPKSPFGTLSPKHGSSGKPSMSTLKSATAATSLSLSPKAEKSITAGAGGGSLSLATAGSALSSSANPSMMRPVPPLASSQLPSTIKKDKQIASSSPSGPPPGVAAAVAALKSSQQQQQQLKSSVASLSHLTAGGNLSSYVAPAVAALELNALRKGMAGPGLGAAAGAVGAASLMTSTAATTTIIQTTTTTAATTLADSSGTASATLVETGVGTSIATTTQQQQQQQGPAPRSSDNSSSSSTSSSSIAGAVSDLTTGYMVKPSSQEGLKLTINKTGSGKRESKGVATSSSSSSASSKKQHTGLKPGVNSGPASKKALSSASGTGLSSSSKHIFQKANSSGNLSSKLGGSSTSGGGLPLTKSNSTNSFQEHSVPRRRPSMCSPGNTSGGGVQRKSSLTASGSASGSGSGPGLGAGRMSPAALTGSMSQPPPRFDHHTDMMTILQYASPTMAASMEGFIKGMQNKFQIPKLSQRPTGNSGAAGHTVSPSEQQSATAVASSSSSASTSITSSQDQQQLNAELSALASSLTATPSSSSGAQNPSAPHSPATSDMLLNLSSNEAVGAGADGIDEELLASLAGE
Length1466
PositionMiddle
OrganismDrosophila virilis (Fruit fly)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Diptera> Brachycera> Muscomorpha> Ephydroidea> Drosophilidae> Drosophila.
Aromaticity0.04
Grand average of hydropathy-0.360
Instability index53.86
Isoelectric point9.39
Molecular weight151922.73
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: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

>MDP25179
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     183.18|      28|      28|     899|     926|       1
---------------------------------------------------------------------------
  768-  794 (31.99/ 8.91)	T.......KRPHE.....SSSSL....SASS.NSSSSSNSSSSS
  891-  925 (39.33/13.09)	PkspfgtlSPKHG.....SSGKP....SMSTLKSATAATSLSLS
  926-  953 (27.29/ 6.23)	P...kaekSITAG.....AGG.G....SLS.L..ATAGSALSSS
 1108- 1135 (26.89/ 6.01)	T.......QQQQQ.....QQGPA....PRSSDNSSSSSTSSSSI
 1185- 1216 (30.22/ 7.90)	K.......KQHTGlkpgvNSGPA....SKKALSSAS.GTGLSSS
 1361- 1389 (27.45/ 6.32)	P..........TG.....NSGAAghtvSPSEQQSATAVASSSSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     596.78|     117|     237|     979|    1095|       2
---------------------------------------------------------------------------
  272-  369 (107.35/44.14)	AATGS.GTAS...RDFSIEQVMKSPNGLSATLNL.EA.S...SANK..........................................lQILP..........ilsfTSESGLPleqPGYAPL...........................................TQNNSMLMPATYV.L.RLSKP..MPVCID.SLRALSL...........PGLS
  372-  491 (132.01/56.10)	SSEGTTTVMNLIVQT.ASRQVIKGTQKGLYVNLP.RE.THCYFFTD.....................................nrrlkgTLIS..............SLPFTEP...AQVPKIIAFLKK........................Q............ALFYTLLSSCVR...EQQKQYNDMDSTVILEVTAVSLNQITVELQH..PYEE
  492-  587 (77.79/29.81)	SLA...TVDFLLEDSQATCTIYCLSNDYEALS.................................................................................................qkltrtvrqvlsipmviykllkcwD............EEHQQKLHGAIAPgAGSGTAGG.FSSAGGGGVGG.......GGMHG..SNFG
  595-  722 (97.26/39.25)	AGEGSSGA......SGGFNSVNNLKMDSKVRSLA.DAfAASTSAAA...........................................AIAGlmnlkretdpqaaeGSSSILT...P...SSVSASKA........................SdneiadkykniwKDKTSNLKHCV.S.ITPIAGDG..KSLLQQQV.....DVQRTGGIEiiP.LN
  723-  848 (86.25/33.91)	APA.SVGATPSTDSPATTITI......TPITGVSkDG.SKEAKKQVmsgsgsgtkrphesssslsassnsssssnsssssdtqkekkrkKKRD..............DSPMGPP..........E..................................................KVYS.RQNSPAGGGM......ADATTGSGAVRK.FSS..PSTS
  979- 1051 (96.12/38.70)	.........................................................................................QIAS..............SSPSGPP...PGVAAAVAALKS........................S............QQQQQQLKSSVAS.LSHLTAGGNLSSYVAPAVAALELNALRKGMAG..PGLG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      81.71|      22|      72|    1162|    1183|       3
---------------------------------------------------------------------------
 1162- 1181 (26.68/ 7.25)	..K...TGSGKRESKGVATSSSSSS
 1252- 1276 (28.46/ 8.25)	TNSfqeHSVPRRRPSMCSPGNTSGG
 1277- 1293 (26.58/ 7.20)	GVQ........RKSSLTASGSASGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.19|      21|      21|    1059|    1079|       8
---------------------------------------------------------------------------
 1059- 1079 (33.51/18.30)	AASLM.TSTAATTTIIQTTTTT
 1081- 1102 (28.68/14.49)	ATTLAdSSGTASATLVETGVGT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.58|      16|    1097|      43|      58|       9
---------------------------------------------------------------------------
   43-   58 (28.83/18.49)	LRAKYRNKPKSYEDIK
 1142- 1157 (28.75/18.42)	LTTGYMVKPSSQEGLK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.12|      19|      21|    1396|    1414|      10
---------------------------------------------------------------------------
 1396- 1414 (29.85/16.68)	SSQDQQQLNAELSALASSL
 1420- 1438 (34.27/20.54)	SSSGAQNPSAPHSPATSDM
---------------------------------------------------------------------------




































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 MDP25179 with Med1 domain of Kingdom Metazoa
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