<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 MDP15727

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMASAAAAAALRSGSPAREAVLDRVKVEEGTEAEKQSRVSALLERLHSKHNASRPWQETSKVVRTAMEKRGVMNSAGHQLLLNCLETLQRALKVSSLASMTDRLESIARQNMLGSHLSPSETECYITSDMFYVEVQLDSVGQLIDVKVAHHGENPASCPELIQHLREKNFEEFSKHLKGLVNLYKLPGDNKLKTKMYLALQSLELDLTKMMHMFRIATKANTVETILHGGVGLLTPRSGGHLLSLQCYVSPYDIFEEGNGAQLNFTDTTFPRSLGVGVSVTVEGTSSVYKLPIAPLITGSHPVDNKGTPTFSPASNSNCVDLPACFFLKMKRPMPFSLSFIHKMGNVTGIPVFESVPALSPLYDLIVKSQLSEEDCGNAPASTRSMRFYASLPGQQHCYFLNGDAPVQDGKSLQGALVSKIPFRHPAHVPTLLDIIRHQAAYNTLIGSCVKKTYIKEDAPGLLQFEVCPLTDSSFSVSFQHPVNESLVCVVMEVIDSRQVACKLYKGLSDALICTDEFITKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEIMVKKNLPPTGSPGYMGMGAGPDGSNTVGMPGVGGATTPTGSSSGGNLGPFPGVISSLFNMSHQGSSVVDTMGQIGSQQQLQQQLPLQHSHGSDDFNKVTQNPILTSLLKITGSVGSSPTPQGSAGSQPHLTPPPTTSPASNTKNHPMLMNLLKDNPSQDFAALYGSSPLERQNSSGSPRTDSQGQQCPGGGTKGKKKRPRGTDKGVMGVGGGMGMKQQSQQQQLGNISHQHHHTHQPTEDDFHRELFSMDVDASQNPIFDVNLPGDGLDTPHSITPAPSQCGTPPSGPGMSYHPQSHGQSQTQAQSQPSGSIPRMARLSSSESIGPDINDILSDIPDPATKGSGGSHGQHHMGGEEGGSLDTPLRDSSSSGQGSAVFEADLFNANSNENTYTDPADLIAEATTAATPNSDASSSNFFPDTDFNPELLPGQGTFPHTSYFDSSPSPEPDLDLVKNFSGGSQQNTPSGTPQNPMSHGRNTPDASLKDPFDVSMVFSGNSGGGKPLLGPGPDLGDSHSHGGGGQSPLMMGMAGLSSDFKSSEVKVKQQQMRPKEDNGGGNSGMLMGGTGSSEAKQLKRSRTPSSEGKSKEKPPKRKKLDPEGKSPSHSSGGRPYTPPSGSVSSGGSMSGGGSKSPGSSGRSQTPPGGATPPIPKITIQIPKTLTGGKTSSHSGYTSSSSAAVSTGGAGGTSSSKGHHSHSSSSSGKIKTSKMEGSMGQSNSSKPPSTGGSGSGMPPQSKSSSLGMGSGKPGSSPITKHGMSGSGSSGSSGAVSGNKMRPQGGKPPGSLINPSIKANISPSHSRSGSSDKLSSPMKLQQGQVPGTPPSSKAKSPIGSGSGSSGGSKSSSGGGMSSQKQLGSGSSSGSSTSCTTSSSSGSMSFSSGGQSQYGGSGGGGGGGSGGGGGGGGGGNNPNAKGKSPSRNKKPSLTAVIDKLKSVGSGGIGGEECEGGGGGGGSTTGSGGGGVPPNVGPPKRDKVEKEGKSKGSLSTGNSGDKKMMDPKGSGVCSTGVAKIIISKPDGGSPSIKSKVTLQKPGDGSAEGSMRPQHSGLKASPLFSGSTPKHDRSSPSHSRSPGYTPLFPDSESESGSSSVAEKSHQNSPSSDDDQSMRPLQPPQDYMSVSIGEKHKKHKKEKKKQKERERERDRDRDRDKEKKKSTMSCGPSSHPLKADSWSRSPLSSSEPSISLLSSERASRPSPVYMHTEDDDLMDSALTGSNLEPFK
Length1778
PositionMiddle
OrganismIctalurus punctatus (Channel catfish) (Silurus punctatus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Ostariophysi> Siluriformes> Ictaluridae> Ictalurus.
Aromaticity0.04
Grand average of hydropathy-0.640
Instability index59.18
Isoelectric point8.95
Molecular weight184395.09
Publications









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
>MDP15727
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     398.01|      57|      58|    1435|    1491|       1
---------------------------------------------------------------------------
  888-  941 (51.49/ 9.51)	DI....LS...DIPD...PATKGSGGSHG.....qhhmGGEEGGSLDTP.LRDS.S..SSGQGSAVFEA..DLFN
 1161- 1215 (70.62/16.63)	SHSSGGRP....YTP...P...SGSVSSG.........GSMSGGGSKSPGSSGR.SqtPPGGATPPIPKITIQIP
 1306- 1366 (42.26/ 6.08)	.....GSSpitKHGM...SGSGSSGSSGAvsgnkmrpqGGKPPGSLINPSIKANiS..PSHSRSGSS....DKLS
 1380- 1433 (71.67/17.02)	PPSSKAKS...PI.G...SGSGSSGGSKS.........SSGGGMSSQKQLGSGS.S..SGSS..TSCTTSSSSGS
 1435- 1491 (101.67/28.18)	SFSSGGQS...QYGG...SGGGGGGGSGG.........GGGGGGGGNNPNAKGK.S..PSRNKKPSLTAVIDKLK
 1492- 1538 (60.31/12.79)	SVGSGG......IGGeecEGGGGGGGSTT.........GSGGGGVP..PNV.G..P..PKRDK......VEKEGK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     382.22|      56|      80|     595|     650|       2
---------------------------------------------------------------------------
  595-  650 (98.89/32.30)	TPTGSS...SGGNLGP........FPGVI....SSLFNMS....HQG....SSV..VDTMGQI.......GSQQ..QLQQQ....LPL....QH..SH....GS
  677-  735 (65.06/18.27)	TPQGSA..gSQPHLTP.........PPTT....SPASNTK....NH.....PML..MNLLKDN.......PSQDfaALYGS....SPL..erQN..SS....GS
  745-  797 (57.57/15.17)	CPGGGT...KGKKKRP.........RG............T....DKG......V..MGVGGGM.......GMKQ..QSQQQqlgnISH....QH..HHthqpTE
  964- 1034 (61.79/16.92)	TPNSDA...SSSNFFPdtdfnpelLPGQGtfphTSYFDSS....PSP....EPD..LDLVKNF.....sgGSQQ..NTPSG....TP.....QNpmSH....GR
 1231- 1280 (54.87/14.05)	..SSSS...AAVSTGG........AGGTS....SSKGHHS....HSS....SSSgkIKTSKME.......GSMG..QSNSS....KP................P
 1574- 1645 (44.03/ 9.55)	.PDGGSpsiKSKVTLQ........KPGDG....SAEG..SmrpqHSGlkasPL.....FSGSTpkhdrssPSHS..RSPGY....TPLfpdsES..ES....GS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     165.61|      59|      76|     229|     301|       3
---------------------------------------------------------------------------
  184-  288 (72.04/47.28)	KLPgdnklktkmylalqsleldltkmmhmfriatkantvetilhgGVGLLTPRSGGHLLSL.QCYvspYDIFEEGNGAQLNFTDtTFPRSLGVGVSVTVEGTSSVY
  289-  362 (93.57/64.83)	KLP............................iaplitgshpvdnkGTPTFSPASNSNCVDLpACF...FLKMKRPMPFSLSFIH.KMGNVTGIPVFESVPALSPLY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.36|      18|      18|    1716|    1733|       4
---------------------------------------------------------------------------
 1716- 1733 (36.79/21.26)	SCGPSSHPLKADSWSR.SP
 1736- 1754 (26.57/12.69)	SSEPSISLLSSERASRpSP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      74.53|      19|      35|    1076|    1094|       6
---------------------------------------------------------------------------
 1060- 1080 (24.16/ 7.08)	PLL....GPGPDLG...........dshshgGGGQS
 1081- 1116 (27.63/ 9.43)	PLMMGMAGLSSDFKssevkvkqqqmrpkednGGGNS
 1117- 1143 (22.74/ 6.12)	GMLMGGTG.SSEAK........qlkrsrtpsSEGKS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.31|      12|      17|    1681|    1692|       7
---------------------------------------------------------------------------
 1681- 1692 (20.62/14.67)	EKHKKHKKEKKK
 1701- 1712 (20.68/14.73)	DRDRDRDKEKKK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     102.98|      23|     275|     565|     588|       8
---------------------------------------------------------------------------
  565-  588 (42.56/17.13)	PPTGSPG..YMGMGAGPDGSNTVGmP
  842-  864 (31.23/ 7.97)	PPSG.PGmsYHPQSHGQSQTQAQS..
  866-  884 (29.18/ 7.15)	.PSGSIP..RM...ARLSSSESIG.P
---------------------------------------------------------------------------




































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 MDP15727 with Med1 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) GSPGYMGMGAGPDGSNTVGMPGVGGATTPTGSSSGGNLG
2) SSVVDTMGQIGSQQQLQQQLPLQHSHGSDDFNKVTQNPILTSLLKITGSVGSSPTPQGSAGSQPHLTPPPTTSPASNTKNHPMLMNLLKDNPSQDFAALYGSSPLERQNSSGSPRTDSQGQQCPGGGTKGKKKRPRGTDKGVMGVGGGMGMKQQSQQQQLGNISHQHHHTHQPTEDDFHRELFSMDVDASQNPIFDVNLPGDGLDTPHSITPAPSQCGTPPSGPGMSYHPQSHGQSQTQAQSQPSGSIPRMARLSSSESIGPDINDILSDIPDPATKGSGGSHGQHHMGGEEGGSLDTPLRDSSSSGQGSAVFEADLFNANSNENTYTDPADLIAEATTAATPNSDASSSNFFPDTDFNPELLPGQGTFPHTSYFDSSPSPEPDLDLVKNFSGGSQQNTPSGTPQNPMSHGRNTPDASLKDPFDVSMVFSGNSGGGKPLLGPGPDLGDSHSHGGGGQSPLMMGMAGLSSDFKSSEVKVKQQQMRPKEDNGGGNSGMLMGGTGSSEAKQLKRSRTPSSEGKSKEKPPKRKKLDPEGKSPSHSSGGRPYTPPSGSVSSGGSMSGGGSKSPGSSGRSQTPPGGATPPIPKITIQIPKTLTGGKTSSHSGYTSSSSAAVSTGGAGGTSSSKGHHSHSSSSSGKIKTSKMEGSMGQSNSSKPPSTGGSGSGMPPQSKSSSLGMGSGKPGSSPITKHGMSGSGSSGSSGAVSGNKMRPQGGKPPGSLINPSIKANISPSHSRSGSSDKLSSPMKLQQGQVPGTPPSSKAKSPIGSGSGSSGGSKSSSGGGMSSQKQLGSGSSSGSSTSCTTSSSSGSMSFSSGGQSQYGGSGGGGGGGSGGGGGGGGGGNNPNAKGKSPSRNKKPSLTAVIDKLKSVGSGGIGGEECEGGGGGGGSTTGSGGGGVPPNVGPPKRDKVEKEGKSKGSLSTGNSGDKKMMDPKGSGVCSTGVAKIIISKPDGGSPSIKSKVTLQKPGDGSAEGSMRPQHSGLKASPLFSGSTPKHDRSSPSHSRSPGYTPLFPDSESESGSSSVAEKSHQNSPSSDDDQSMRPLQPPQDYMSVSIGEKHKKHKKEKKKQKERERERDRDRDRDKEKKKSTMSCGPSSHPLKADSWSRSPLSSSEPSISLLSSERASRPSPVYMHTEDDDLMDSALTGSNLEPFK
568
623
606
1778










Molecular Recognition Features






MoRF SequenceStartStop




1) IKSKVTL
2) KKPSLTAVIDKL
3) KRKKL
4) PIPKITIQIPKTLTG
5) SFSSGGQSQYGGSGG
6) SSERASRPSPVYMHTEDDDLMDSALTGSNLEPFK
7) STGVAKIIIS
8) VPPNVGPPKRDKV
9) YMSVSIGE
1581
1479
1149
1206
1435
1745
1563
1521
1674
1587
1490
1153
1220
1449
1778
1572
1533
1681