<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 MDP25104

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMSGSHAKNNSGGYGSHTVVAIPIPSIEEKNKQMQQETMMEKLRAKYRNKPKSYEDIKKSVRMYFIEKHYPLDPLCKAALQSALDKLQHYIKVSSRHGLVERLESLSRQLGLKFMEDQQLLFISTDMFYVEILLDASGNLNDVKVHHECKIEQQSNSSASSRELLNCLKAGDFADFTVQLEGLSSIYQLNAEPKVKKKAFVALQAMETDISNLYQQQLQKQQQLRGNSDSYYIMNNSPLGLVMERRGGHPMKLTYFCPPLQLIEKKVKGEKLATATASGTASRDFSIEQVMKSPNGLSATLNLEGSSANKLQILPIVSFTSESGLPLEQPSYAPLTQNNSMLMPATYVLRLNKPMPVCIESLRALALPGLGSLGVSGEGTTVMNLIVQTASRQLIKSTQKGLYVNLPKETHCYFFTDNRRLQGTLISTLPFTEPAQVPRIIAFLKKQALFCTLLSSCVREQQKQYNDMDSTVILEVTAVSLSQITVELQHPYEESLATVDFLLEDGQATCTIYCLSNDYEALSQKLTRTVRQVLSIPMVIYKLLKCWDEEHQQKLHGAIVPGAGSGAGSGTAGGFSSTGGGGGMHGTSNFGQFAMETGGGEGSSGVGGGFNSVGNLKMDSKVRSLADAFAASTSAAAAIAGLMNLKRETDPQLGEGNLPILSSSSSSASASKISENEIADKYKNIWKDKTPNLKHCVSITPIAGDGKAPPQQQVDVQRTGGIEIIPLNAPGSVVATPSAGSPATTITITPITGVGKELSKDAKKSVSSGSATKRPHESSSSSSSSSSNSNSNSSSSSSSSNSSSDTQKEKKRKKKRDDSPMGPPEKIYSRQNSPAGGGISDPVAGSGVVRKFSSPSASSSSPKAGGVGSGAGGGAALGLMSGQPARPSPKHSPVYSSPKHNSTSNTASNSPKSPFGTLSPKHGSSGKPSMSTLKSATAATSLSLSPKAEKSLSASGGGGGSNSAHPLPLASSGSGANPSMMRPVPPLASTISGITNQLSTSFKKDKPNASSCAPGAPPGVVAVPVAALKNSQQQQQLKSSVASLSHLAAGGNLSSYVAPTVAALELNALRKGLSGAGVGPGMGAAAGAVGAVSLMTSTAASTATIQTTTTASLSSTTTAVDSSATTAAAAVEAGVGLGVGAAIAPVAPIATTQIATQQQQAAGPHSSDNCSSSSASNSNSIISGAASGLSTGYMVKPSSQEGLKLTINKTGSGKRESKGGTTSSSSSTSSSASSSTGVKKQHTGLKPGVNSGPASKKAPTAAAGSSKHLFQKANSSGNLSSKLSGSSTSTSGGGLPLTKSNSTNSFQEQSVPRRRPSMGNSSGGGVQRKAQLTPSASASGSGAGVGIGSGMGAGRMSPAAMSGSMSQPPPRFDHDTDMMTILQYASPTMAASMEGFIKGLHNKFQIPKLSQRQSGNSSSSNTVGHSLTNTDQVQSHTSSGEQMQMSALASSLTGTTPSGSSGVPKPSSVASSSGSAANANDLLLSLNSSGSIDDGIDEELLASLAGE
Length1506
PositionMiddle
OrganismDrosophila grimshawi (Hawaiian fruit fly) (Idiomyia grimshawi)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Diptera> Brachycera> Muscomorpha> Ephydroidea> Drosophilidae> Drosophila> Hawaiian Drosophila.
Aromaticity0.04
Grand average of hydropathy-0.330
Instability index51.78
Isoelectric point9.40
Molecular weight155081.26
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

>MDP25104
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.23|      16|      17|     563|     579|       2
---------------------------------------------------------------------------
  561-  577 (25.57/12.05)	GAGSGAgSGTAGGFSST
  597-  612 (24.66/ 7.05)	GGGEGS.SGVGGGFNSV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     124.40|      23|      26|    1318|    1340|       3
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  952-  973 (30.28/10.50)	SASGGGGGSNSAHPLPLAS.SGS
 1318- 1340 (42.57/18.75)	GNSSGGGVQRKAQLTPSASASGS
 1345- 1363 (26.97/ 8.28)	GIGSGMGAGR...MSPAA.MSGS
 1455- 1474 (24.57/ 6.67)	TPSGSSGVPKPSSV...ASSSGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     453.78|      72|     267|     857|     928|       4
---------------------------------------------------------------------------
  857-  928 (132.03/50.29)	SS..S.........SPKAGGVGSG..AG.....GGAALG....L......MS......................GQPARPSPKHSPVYSSPKHNSTSNTASNSPKSPFGTLS.P.KHGS..SGKPS
  930- 1017 (47.36/12.75)	STlkSataatslslSPKAEK................SL..............sasgggggsnsahplplassgsG..ANPS.MMRPV...PPLASTISGITNQLSTSFKKDK.P.NASScaPGAPP
 1042- 1121 (79.58/27.03)	SL..S.........HLAAGGNLSSyvAP.....TVAALE....LnalrkgLS......................GAGVGPGMGAAAGAVGAVSLMTSTAASTATIQTTTTAS.L.SSTT..TAVDS
 1126- 1197 (79.15/26.84)	AA..A.........AVEA.GVGLG..VG.......AAIApvapI......AT......................TQIATQQQQAAGPHSS..DNCSSSSASNSNSIISGAAS.GlSTGY..MVKPS
 1222- 1279 (68.82/22.26)	SS..S.........SSTSSSASSS..TGvkkqhTGLKPG....V......NS......................G....PASKKAP...........TAAAGSSKHLF.....Q.KANS..SGNLS
 1284- 1316 (46.83/12.51)	GS..S.........T.......ST..SG.....GG..LP....L......................................................TKSNSTNS.FQEQSvP.RR......RPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     141.43|      45|     139|      74|     120|       5
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   74-  120 (67.60/61.94)	LCKAALQSAlDKLQ.....HYIKVSSRHGLV.ERLESLSRQLGLkFMEDQQLL
  212-  262 (73.84/56.89)	LYQQQLQKQ.QQLRgnsdsYYIMNNSPLGLVmERRGGHPMKLTY.FCPPLQLI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.50|      24|      26|    1404|    1429|       6
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 1404- 1429 (36.81/29.81)	QIPklSQRQSGNSSSSNTVGHSLTNT
 1431- 1454 (40.69/26.17)	QVQ..SHTSSGEQMQMSALASSLTGT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.74|      19|      26|     718|     740|       7
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  718-  740 (28.94/19.84)	TGGIEIIPLNAPG.........SVvatpSAGS
  742-  769 (25.80/ 9.54)	ATTITITPITGVGkelskdakkSV....SSGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      82.87|      26|      26|     289|     314|       8
---------------------------------------------------------------------------
  274-  291 (20.68/ 8.15)	......ATAS..GTASRDFSIEQVMK
  292-  317 (42.56/26.38)	SPNGLSATLNLEGSSANKLQILPIVS
  320-  334 (19.64/ 7.28)	SESGLP....LEQPSYAPL.......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.84|      19|      26|     453|     471|       9
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  453-  471 (33.95/23.56)	LSSCVREQQKQYNDMDSTV
  480-  498 (31.90/21.69)	LSQITVELQHPYEESLATV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     128.28|      42|     130|     661|     709|      10
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  661-  705 (63.19/46.68)	SSSSSSASASKiSENEIADKYKNiWKDKTP.............NLKHCVSiTPIAGDG
  792-  846 (65.09/28.35)	SSSSSSSSNSS.SDTQKEKKRKK.KRDDSPmgppekiysrqnsPAGGGIS.DPVAGSG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.47|      12|      26|     511|     525|      11
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  511-  525 (18.28/17.59)	IY....CLSNDYEalsQKL
  539-  554 (20.19/10.75)	IYkllkCWDEEHQ...QKL
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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 MDP25104 with Med1 domain of Kingdom Metazoa
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