<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 MDP29642

Description Mediator of RNA polymerase II transcription subunit 1
SequenceGQEEYLEAEKQSRMAALLERLHAKHNASRPWQETCKVVRQAMEKRGVMNAAGHQLLLNCLETLQRALKVSSLPSMTDRLESIARQNMLGSHLSPSGTECYITMDMFYVEVQLDTSGQLVDVKVAHQGESPTSCPELFQHLREKNFEEFSKHLKGLVDLYKLPGDNKLKTKMYIALQSLELDLTKMMHMFRLATNANTVETILHGSVGLLTARSGGHLVSLQCYVSPYDIFEEGTGTQLNLMDNNVPRSLGVSVSVTIEGTSSVYKLPIAPLITGSHPVDNKGTPSFSTVTNSNCVDLPACFFLKMNQPMPFSLSFIQRMGNATSIPVFETPPTLSPLYQLIVQSQLQRLEEGSSPPPPPHNMHFYSVLPDQQHCYFLNGDAPVQDGRSLQGALVSKIPFRHPAQVPFLLDIIRHQAAYNTLIGSCVKRTSIKEDSAGLLQFEVCPLTDSSFSVSFQHPVNESLVCVVMEVIDSRQVSCKLYKGVSDALICTDEFITKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAQTVETMVKNNLPPSGSPTYNMVTADGSNPMGLPGLTGGNTPTGGGPNFTGPITSLYGMSRTDRQAQQGQGHSDDYSKVTQNPILTSLLQITGSVGSSPSSQNAPQPHQTPPPTSSPASNTKNHPMLMNLLKDNPTQDFASLYGSSPLERQNSSGSPRTEGMGGTCPGGMKSQQSSSMPQHHQHHQVTHEDDFHRELLSMDVDASQNSIYDVNLTSDGLDTPHSITPAPSQCGTPPSGPSMPYSQSHVQSQQQQPPGTVPPRMVRLSSSDSIGPDITEILSDLPEQTGKGSGGSHGQHPMGSGGEDGGALGTPIRDSSSSGQGSAVFDSADIFNTNSNENPFTDPADLIAEAAGTVTTPTSDSSSTNFFPDAADFNPDLLTSGHGFSQSYFDDSSPSADGDIDLVKGFGGSSQQNTPSGTPQNPTPHGQSTPEPSLKDPFDIGMVFGGNSGSGKPLLGQAPDLGDTHGGGSQSPLLSMGLGGTSSEPKVKQQQGLMRPKDENGGSGGSSSGMGMGSSSTEGKQVKRSRTPSSEGKSKDKPPKRKKLDPDGKSPSHSSGGRPYTPPSGGSGSGSSISGGGSKSPGSSGRSQTPPGGATPPIPKITIQIPKGTITGGKTSSHSGYTSSSSATSSTGGTGGTSSSKSHHSHSSSSGKIKSKEGSMTQGNSSKPGSGGGGPSQSKGSSQGMGVGKPGSSPITKHGLSGPGGTGGGIGSGNKVKPQGGKPPGSLMNPNIKPNISPSHSRSSSSGEKLSSPMKMQQSQVPGTPPSSKAKSPMGSGGGSSGGSKSSSGGGMSSQKPAGGSSSSGSSSSSSSSSSSSSSGSVGFSGGSQSQYGSGGGNAKGKSPSRNKKPSLIAVIDKLKSVGGGGVGEDGCEGGSGNVPSGPSNMAPSKHASSSQSGDYKREKSDKEAKAKVSVSGGSSGDKKLMDPKTGGVGSTALAKIIISKPDGGSPSIKAKVTLQKAGEGSGDNMRPQISSLKASPLFSGSTPKHDRSSPSHSRSPGYTPLNQDSESESGSSSVAEKSHQNSPSSDDDQTMRPLPPQDYMSSIPLSSGEKHKKHKKEKKKQKERERERDRDRERDRDKEKKKSMSMGPSSHPLKSDSWSRSPISASESSLSMLSSDRPSRPSPMYMRNEDDDLMDSALTGN
Length1677
PositionMiddle
OrganismOreochromis niloticus (Nile tilapia) (Tilapia nilotica)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Ovalentaria> Cichlomorphae> Cichliformes> Cichlidae> African cichlids> Pseudocrenilabrinae> Oreochromini> Oreochromis.
Aromaticity0.04
Grand average of hydropathy-0.686
Instability index58.39
Isoelectric point8.62
Molecular weight175033.09
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

>MDP29642
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     330.92|      55|      56|    1016|    1070|       1
---------------------------------------------------------------------------
  606-  654 (43.62/ 6.53)	SKVTQNPILTSLL...Q.I.....TGSVGS..S......PSSQNAPQPHQTPPPTSSPASntKNH.......P.
  888-  946 (48.95/ 8.37)	PTSDSSSTNFFPDaaDF.NpdlltSGHGFS..QSYFDDSSPSADG.DIDLVKGFG..GSS..QQN.......TP
 1017- 1070 (94.49/24.04)	.KVKQQQGLMRPK..DE.N.....GGSGGS..SSGMGMGSSSTEGKQVKRSRTPSSEGKS..KDK.......PP
 1130- 1181 (47.18/ 7.76)	PKITIQI....PK..GTiT.....GGKTSS..HSGYTSSSSAT.......SSTGGTGGTS..SSKshhshssSS
 1226- 1255 (46.67/ 7.58)	...ITKHGLSGP............GGTGG.....GIG..S....GNKVK....P..QG.....GK.......PP
 1261- 1304 (50.01/ 8.73)	PNIKPN...ISPS..HS.R.....SSSSGEklSSPMKM..........QQSQVPGTPPSS..KAK.......SP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     468.51|      97|     103|    1349|    1451|       2
---------------------------------------------------------------------------
  762-  848 (101.28/20.98)	...........................GTP........PSGPS......MPYSQSHVQ..S.QQQ....QPPGTVP.................PRMVRLSSSDSIGPDiteilsdlpeQTGK.G.S...........GGSHG........QHpmGSGGedG.GAL.............G.TPIRDS.SS
 1083- 1127 (49.29/ 6.29)	S........HSSGGRPYTPPS.GGSGSGSS........ISGGG.........SKSPGS..SgRSQ....TPPGGAT.................P...............................................................................................
 1318- 1381 (112.59/25.05)	S...........SGGGMSSQK.PAGGSSS..........SGSSS......SSSSSSSS..S.........................................................SSGSVGFS...........GGSQS........QY..GSGG..G.NAK.............GKSPSRNK.KP
 1382- 1526 (119.76/31.50)	SliavidKLKSVGGGGVGEDG.CEGGSGNV........PSGPSN.....MAPSKHASS..S.QSG....DYKREKS.................DKEAKAKVSVSGGSS..gdkklmdpKTGGVGSTalakiiiskpdGGSPSikakvtlqKA..GEGS..GdNMRpqisslkasplfsGSTPKHDRsSP
 1527- 1657 (85.59/17.05)	S......HSRSPGYTPLNQDSeSESGSSSVaekshqnsPSSDDDqtmrpLPPQDYMSSipL.SSGekhkKHKKEKKkqkerererdrdrerdrDKEKKKSMSM.GPSS.hplksdswsRS.PISAS...........ESSLS........ML..SSD..........................RPS.RP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.18|      21|     103|     573|     597|       4
---------------------------------------------------------------------------
  576-  596 (36.07/19.11)	PNFTGPITSLYGMSRTDRQAQ
  662-  682 (34.11/ 8.67)	DNPTQDFASLYGSSPLERQNS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.79|      22|      29|     311|     338|       5
---------------------------------------------------------------------------
  314-  338 (36.26/28.32)	SFIQRMGNATSIPvfeTPPTLSPLY
  344-  365 (44.53/19.15)	SQLQRLEEGSSPP...PPPHNMHFY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.66|      13|      71|     296|     308|       6
---------------------------------------------------------------------------
  296-  308 (26.47/16.97)	DLPACFFLKMNQP
  370-  382 (27.18/17.62)	DQQHCYFLNGDAP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.85|      13|     240|     972|     990|       7
---------------------------------------------------------------------------
  972-  986 (22.54/ 8.31)	GMVFGGnsGSGKPLL
  993- 1005 (25.31/10.91)	GDTHGG..GSQSPLL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.21|      19|      29|     219|     240|       9
---------------------------------------------------------------------------
  219-  240 (29.13/24.39)	SLQCYVSpydIFEEGTGTQLNL
  248-  266 (31.09/16.38)	SLGVSVS...VTIEGTSSVYKL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.46|      14|      28|     452|     465|      10
---------------------------------------------------------------------------
  452-  465 (25.33/17.96)	SVSFQHPVNESLVC
  477-  490 (25.12/17.74)	SCKLYKGVSDALIC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.76|      18|      29|     152|     169|      12
---------------------------------------------------------------------------
  152-  169 (29.33/19.58)	LKGLVDLYKLPGD.NKLKT
  182-  200 (26.43/16.89)	LTKMMHMFRLATNaNTVET
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.72|      12|     124|     561|     575|      18
---------------------------------------------------------------------------
  561-  575 (17.32/12.52)	GLP...GLtGGNTPtgGG
  684-  698 (23.41/ 7.04)	GSPrteGM.GGTCP..GG
---------------------------------------------------------------------------




































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 MDP29642 with Med1 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) NNLPPSGSPTYNMVTADGSNPMGLPGLTGGNTPTGGGPNFTGPITSLYGMSRTDRQAQQGQGHSDDYSKVTQNPILTSLLQITGSVGSSPSSQNAPQPHQTPPPTSSPASNTKNHPMLMNLLKDNPTQDFASLYGSSPLERQNSSGSPRTEGMGGTCPGGMKSQQSSSMPQHHQHHQVTHEDDFHRELLSMDVDASQNSIYDVNLTSDGLDTPHSITPAPSQCGTPPSGPSMPYSQSHVQSQQQQPPGTVPPRMVRLSSSDSIGPDITEILSDLPEQTGKGSGGSHGQHPMGSGGEDGGALGTPIRDSSSSGQGSAVFDSADIFNTNSNENPFTDPADLIAEAAGTVTTPTSDSSSTNFFPDAADFNPDLLTSGHGFSQSYFDDSSPSADGDIDLVKGFGGSSQQNTPSGTPQNPTPHGQSTPEPSLKDPFDIGMVFGGNSGSGKPLLGQAPDLGDTHGGGSQSPLLSMGLGGTSSEPKVKQQQGLMRPKDENGGSGGSSSGMGMGSSSTEGKQVKRSRTPSSEGKSKDKPPKRKKLDPDGKSPSHSSGGRPYTPPSGGSGSGSSISGGGSKSPGSSGRSQTPPGGATPPIPKITIQIPKGTITGGKTSSHSGYTSSSSATSSTGGTGGTSSSKSHHSHSSSSGKIKSKEGSMTQGNSSKPGSGGGGPSQSKGSSQGMGVGKPGSSPITKHGLSGPGGTGGGIGSGNKVKPQGGKPPGSLMNPNIKPNISPSHSRSSSSGEKLSSPMKMQQSQVPGTPPSSKAKSPMGSGGGSSGGSKSSSGGGMSSQKPAGGSSSSGSSSSSSSSSSSSSSGSVGFSGGSQSQYGSGGGNAKGKSPSRNKKPSLIAVIDKLKSVGGGGVGEDGCEGGSGNVPSGPSNMAPSKHASSSQSGDYKREKSDKEAKAKVSVSGGSSGDKKLMDPKTGGVGSTALAKIIISKPDGGSPSIKAKVTLQKAGEGSGDNMRPQISSLKASPLFSGSTPKHDRSSPSHSRSPGYTPLNQDSESESGSSSVAEKSHQNSPSSDDDQTMRPLPPQDYMSSIPLSSGEKHKKHKKEKKKQKERERERDRDRERDRDKEKKKSMSMGPSSHPLKSDSWSRSPISASESSLSMLSSDRPSRPSPMYMRNEDDDLMDSALTGN
539
1677










Molecular Recognition Features






MoRF SequenceStartStop




1) DYKREKSDKEAK
2) EKHKKHKKEK
3) LMDPKTGGVGSTALAKIIISKP
4) NKKPSLIAVIDKLK
5) PIPKITIQIPKGTIT
6) PITKHGL
7) RPSPMYMRNEDDDLMDSALT
8) SIKAKVTLQKA
9) SSIPLS
1430
1585
1456
1378
1128
1225
1656
1483
1577
1441
1594
1477
1391
1142
1231
1675
1493
1582