<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 MDP11984

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTTAANWVANGASLEDCHSNLFSLAELTGIKWRCYSFRGGGEYGPVISAPAQDDPVLRSFMRCVQANLLCVWRRKVKPDAKELWIFWWGDEPNLSDVIHHELEVAEEGLWECGLSYECRTLLFKAIHNLLERCLLDKDFVRIGKWFVKPYELEEKPLATSEHLSCSFTFFLHGESNVCTSVEIAQHQPAYHITDDHIRLAQTSSAPVQVILSPYGLAGSLTGQAYKMSDQAVRKLMEEWSYFYPMVLQRHREGGTGGAGMGGMGAEKEGSDLPFDPNSHVAVEVIVGGVRMIYPAAFVLVAHGDLPVDQPLPAPGAQGLSRDPSHCSIPLTPPTSPEQPCSDSGFVTVSSILPAQERAIGATNHSPKHSGKKLTNQVVHQAWKECYLNQLQHKCSVPSNVTPKKEAPNGVTTWDFIDSGERAPCSCSRLKQQQKQQQQKQQQQKQQQQTNTSSANPLSGANPTPSLGPALPPPSLPKHKATDKSEKPDKQPKRVAAMTPFHHRLSVGQEGCLEQDSTEGSQLGLVALDPLLDPMPTCKYPKPLSAGRKGPQSLLHSPVSPLPPTLSPHPRVGQDPEVLDAPVGMAPCPDGASGLGVMEPSATALYAAPLGPREREAGVGWWRGFRTPRADKAEFRPPELPSDRVEIKTETQVTEGVALKRLFAQTEKCFKISEERVREHIQTLGLLQQPGVEGMGDLGDDPYDFKEGDIEYSFPTSKRLKGRDPSKRGPKGEDISNGALPDGKDAMSIFSSAPKADDDSPQDDEAAKAQNPPLTRETDLVVLISDLENIFDEDEEELGHTARVLVSGGEDRREGRVAVPYPSTVADLQRMFPTPPSLEQHPAFSPIMTYRDTPSQEPPAPSGGSDHPLGPLSSTQLQEYRMEVEEGMASPKHEDIKDFSFVYRVPSVQPQMGCSMFAPLRTLPSQCLPPIKVPDQCYYRPSWALLPKMEHYSSLPPSFIRDGYVNVPSVGDQEYAQLSASALSIGTTGSILPSPSPATPRFSVPTPRTPRTPKGVGTASGQGSVKQEGTGTELSSPASTPSTSLPMSSLTEPHASCPALPEAHSLYAALLLSDSVLNVFKDRNFDSCCICACNMNVKGADVGVYIPDSTLEDQYRCMCGFSAIVNRRLAHGTGLFLEDELDIFGRGSEVGRAAERRLALCRRDPPMGDPRAKRPQDSSPAPSSVMGLLQEQCSQPISSLASLHLPPACSCHGRQGALLQSWMADKQWTDGSDACVECYNALVQGQQYVDNPAGGKVDPAVVRSSALHSWPHTNVLDISILSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGSYGSEESPEPLPIPTLLLGYYDNYDRNFLALSPLALPFWEKLLLEPYGGQRDVAFLVLCPNSETLLAGAQAFFQELSAVYETCRLGKHRPLAKVSRDGLVRVGAETETETDKEKEKERHEEEQVDQWFTGPWAGQQHSDNLRKLQLYARACRKQLGPQLSALSLDSSLLLPPKPQPPPAPTPSSAQPAPSSSQPPYGPGAPAEGESTAPPVAHSSESTPTPTAAASGQPGPAESTQGGSTEVKNTPNAPPPPPSQPETPESVAERERIGIPTLADSADSHAHPPAIVIYVVDPFLCSGQARDGGGGEEEEGEEVETGSVWLLGLLRCYTEMLQTLPESMRPALVLQVVPCQYLLQPASGESPLYLQHLRSLAFSAYSQCRRLLPTQTHIKSLTGFGPASTLESVLKSPEHPSPLQGYSPPYILGPTRAKMPEPGEVWAEIPSRYNVLFVGYCLSHDQRWILVSCTDQQGELLETCIINIDVPNRARWPKVSARKMGLQKLWDWCVGIIQMTSLPWRIVIGRLGRLGHGELKDWSVLLGEHSLHSISRQLKEACRMCGISSADSPSILSACLVAMEPQGSIVVMPDAVTMGSVFGRSTALNLQTSQLNTPQDASCTHILVFPTSATTQLAASSYPTEDNADDMFDLPFPDELENDIGHDILNLHPSPNTSPVPSPGSPSGMGGSSHFQHNRSQGERFLSRENPPEELKQQPLALGYYVSTAQADSLPHWFWASCPQAQNQCPLFLKASLHHHIAIATAQSDEPNQTNSDKTTKRIPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRRSCLPVHLAVLTQMYNAVLNML
Length2162
PositionMiddle
OrganismSalmo salar (Atlantic salmon)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Protacanthopterygii> Salmoniformes> Salmonidae> Salmoninae> Salmo.
Aromaticity0.07
Grand average of hydropathy-0.426
Instability index58.53
Isoelectric point5.56
Molecular weight235896.70
Publications









Function






Annotated function

Component of the Mediator complex, a coactivator involved in
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:RU364134

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

>MDP11984
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.85|      16|      20|    1506|    1524|       1
---------------------------------------------------------------------------
  832-  849 (16.19/ 8.02)	PTPPsLE.QhPAFSPIMTY
  850-  866 (22.66/ 7.38)	RDTP.SQeP.PAPSGGSDH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.92|      18|      20|    1697|    1714|       3
---------------------------------------------------------------------------
 1697- 1714 (32.40/18.13)	Q.HLRSL.AFSAYSQCRRLL
 1717- 1736 (22.52/10.26)	QtHIKSLtGFGPASTLESVL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     118.70|      23|      24|     540|     562|       4
---------------------------------------------------------------------------
  540-  562 (41.90/18.66)	PKPLSAGRKGPQSLLHSPV..SPLP
  567-  588 (35.41/14.53)	PHP.RVG.QDPE.VLDAPVgmAPCP
 1560- 1582 (41.39/18.33)	PGPAESTQGGSTEVKNTPN..APPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     383.87|     115|     701|     205|     365|       6
---------------------------------------------------------------------------
  205-  324 (183.85/75.96)	APVQVILSPYGLAGSLTGQAYKMSDQAVRKLMEEWSYFYPMVLqrhREGGTGGAGMG..........GMGAEKEGSDLPfDPnSHVAVEVIVGGVRMIYPAAFVLVAHGDLPVDQPLPAPGAQGLSRDPS
  917- 1041 (200.02/72.49)	APLRTLPSQCLPPIKVPDQCYYRPSWALLPKMEHYSSLPPSFI...RDGYVNVPSVGdqeyaqlsasALSIGTTGSILP.SP.SPATPRFSVPTPRTPRTPKGVGTASGQGSVKQEGTGTELSSPASTPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.34|      15|      21|    1658|    1676|       7
---------------------------------------------------------------------------
 1658- 1676 (20.81/26.62)	C.YteMLQtlPESMRPALVL
 1681- 1696 (25.53/15.21)	CqY..LLQ..PASGESPLYL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.38|      14|      15|    1137|    1150|       8
---------------------------------------------------------------------------
 1137- 1150 (23.87/12.84)	EDELDIFGRGSEVG
 1154- 1167 (26.51/15.16)	ERRLALCRRDPPMG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.65|      12|     230|    1525|    1536|       9
---------------------------------------------------------------------------
 1525- 1536 (24.41/10.46)	PPYGPGAPAEGE
 1548- 1559 (21.24/ 8.04)	STPTPTAAASGQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.77|      23|      24|    1342|    1364|      10
---------------------------------------------------------------------------
 1342- 1364 (43.72/26.20)	LPIPTLLL..GYYDNYDRNFLALSP
 1367- 1391 (41.05/24.12)	LPFWEKLLlePYGGQRDVAFLVLCP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      79.60|      19|      21|    1210|    1229|      11
---------------------------------------------------------------------------
 1210- 1229 (31.81/25.29)	CHGR.QGALLQSwMADKQWTD
 1234- 1249 (28.80/15.96)	CVEC.YNALVQG....QQYVD
 1252- 1269 (18.99/ 7.76)	AGGKvDPAVVRS.SALHSW..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      28.59|       9|      15|     792|     801|      12
---------------------------------------------------------------------------
  792-  801 (12.35/12.70)	EDEEElGHTA
  809-  817 (16.24/10.27)	EDRRE.GRVA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.67|      26|     711|     327|     365|      13
---------------------------------------------------------------------------
  327-  358 (33.14/25.82)	SIP..LTPPtsPEQPcsdSGfVTVSSILPAQERA
  395-  422 (43.54/17.92)	SVPsnVTPK..KEAP...NG.VTTWDFIDSGERA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.58|      22|    1142|     599|     620|      16
---------------------------------------------------------------------------
  599-  620 (42.64/21.03)	PSATALYAAP..LGP.RER..EAGVGW
 1742- 1768 (30.94/12.93)	PSPLQGYSPPyiLGPtRAKmpEPGEVW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      85.40|      18|      22|    1860|    1877|      17
---------------------------------------------------------------------------
 1830- 1851 (23.59/13.93)	KLWDWCVgIIQMTSLPwriVIG
 1860- 1877 (31.28/21.53)	ELKDWSV.LLGEHSLH...SIS
 1879- 1896 (30.53/20.78)	QLKEACR.MCGISSAD...SPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.63|      24|      25|    1915|    1939|      18
---------------------------------------------------------------------------
 1916- 1939 (40.01/24.26)	DA.VTMGSVFGRSTALNLQTSQLNT
 1942- 1966 (36.62/16.23)	DAsCTHILVFPTSATTQLAASSYPT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.60|      16|      22|     649|     664|      20
---------------------------------------------------------------------------
  649-  664 (25.22/16.97)	ETQVTEGVALKRLFAQ
  673-  688 (26.37/18.10)	EERVREHIQTLGLLQQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     117.35|      34|     400|      99|     133|      21
---------------------------------------------------------------------------
   99-  133 (60.49/47.29)	HHELEVAEEGLWECGlSYECRTLLFKAIHNLLE...RC
  501-  537 (56.86/39.18)	HHRLSVGQEGCLEQD.STEGSQLGLVALDPLLDpmpTC
---------------------------------------------------------------------------




































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 MDP11984 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) CSCSRLKQQQKQQQQKQQQQKQQQQTNTSSANPLSGANPTPSLGPALPPPSLPKHKATDKSEKPDKQPKRVAAMTPFHHRLSVGQEGCLEQDSTEGSQLGLVALDPLLDPMPTCKYPKPLSAGRKGPQSLLHSPVSPLPPTLSPHPRVGQDPEVLDAPVGMAPCPDGASGLGVMEPSATALYAAPL
2) DIGHDILNLHPSPNTSPVPSPGSPSGMGGSSHFQHNRSQGERFLSRENPPE
3) FPTSKRLKGRDPSKRGPKGEDISNGALPDGKDAMSIFSSAPKADDDSPQDDEAAKAQNPPLTRETDLVVLISDLENIFDEDEEELGHTARVLVSGGEDRREGRVAVPYPSTVADLQRMFPTPPSLEQHPAFSPIMTYRDTPSQEPPAPSGGSDHPLGPLSSTQLQEYRMEVEEGMA
4) HIQTLGLLQQPGVEGMGDLGDDPYDFKEGD
5) LGPQLSALSLDSSLLLPPKPQPPPAPTPSSAQPAPSSSQPPYGPGAPAEGESTAPPVAHSSESTPTPTAAASGQPGPAESTQGGSTEVKNTPNAPPPPPSQPETPESVAERERIGIPTLADSA
6) QPLPAPGAQGLSRDPSHCSIPLTPPTSPEQPCSDSGFVT
7) RDGLVRVGAETETETDKEKEKERHEEEQVDQWFTGPWAGQ
8) SPSPATPRFSVPTPRTPRTPKGVGTASGQGSVKQEGTGTELSSPASTPSTSLPMSSLTEPH
424
1985
713
679
1486
309
1427
993
609
2035
888
708
1608
347
1466
1053










Molecular Recognition Features






MoRF SequenceStartStop




1) WWRGF
2) YDFKE
620
702
624
706