<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. 
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
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