<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 MDP11986

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTTAANWVANGASLEDCHSNLFSLAELTGIKWRCYSFRGGGEYGPVISAPAQDDPVLRSFMRCVQANLLCVWRRKVKPDAKELWIFWWGDEPNLSDVIHHELEVAEEGLWECGLSYECRTLLFKAIHNLLERCLLDKDFVRIGKWFVKPYELEEKPLATSEHLSCSFTFFLHGESNVCTSVEIAQHQPAYHITDDHIRLAQTSSAPVQVILSPYGLAGSLTGQAYKMSDQAVRKLMEEWSYFYPMVLQRHREGGTGGAGMGGMGAEKEGSDLPFDPNSHVAVEVIVGGVRMIYPAAFVLVAHGDLPVDQPLPAPGAQGLSRDPSHCSIPLTPPTSPEQPCSADSGFVTVSSILPAQERAIGATNHSPKHSGKKLTNQVVHQAWKECYLNQLQHKCSVPSNVTPKKEAPNGVTTWDFIDSGERAPCSCSRLKQQQKQQQQKQQQQKQQQQTNTSSANPLSGANPTPSLGPALPPPSLPKHKATDKSEKPDKQPKRVAAMTPFHHRLSVGQEGCLEQDSTEGSQLGLVALDPLLDPMPTCKYPKPLSAGRKGPQSLLHSPVSPLPPTLSPHPRVGQDPEVLDAPVGMAPCPDGASGLGVMEPSATALYAAPLGPREREAGVGWWRGFRTPRADKAEFRPPELPSDRVEIKTETQVTEGVALKRLFAQTEKCFKISEERVREHIQTLGLLQQPGVEGMGDLGDDPYDFKEGDIEYSFPTSKRLKGRDPSKRGPKGEDISNGALPDGKDAMSIFSSAPKADDDSPQDDEAAKAQNPPLTRETDLVVLISDLENIFDEDEEELGHTARVLVSGGEDRREGRVAVPYPSIADLQRMFPTPPSLEQHPAFSPIMTYRDTPSQEPPAPSGGSDHPLGPLSSTQLQEYRMEVEEGMASPKHEDIKDFSFVYRVPSVQPQMGCSMFAPLRTLPSQCLPPIKVPDQCYYRPSWALLPKMEHYSSLPPSFIRDGYVNVPSVGDQEYAQLSASALSIGTTGSILPSPSPATPRFSVPTPRTPRTPKGVGTASGQGSVKQEGTGTELSSPASTPSTSLPMSSLTEPHASCPALPEAHSLYAALLLSDSVLNVFKDRNFDSCCICACNMNVKGADVGVYIPDSTLEDQYRCMCGFSAIVNRRLAHGTGLFLEDELDIFGRGSEVGRAAERRLALCRRDPPMGDPRAKRPQDSSPAPSSVMGLLQEQCSQPISSLASLHLPPACSCHGRQGALLQSWMADKQWTDGSDACVECYNALVQGQQYVDNPAGGKVDPAVVRSSALHSWPHTNVLDISILSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGSYGSEESPEPLPIPTLLLGYYDNYDRNFLALSPLALPFWEKLLLEPYGGQRDVAFLVLCPNSETLLAGAQAFFQELSAVYETCRLGKHRPLAKVSRDGLVRVGAETETETDKEKEKERHEEEQVDQWFTGPWAGQQHSDNLRKLQLYARACRKQLGPQLSALSLDSSLLLPPKPQPPPAPTPSSAQPAPSSSQPPYGPGAPAEGESTAPPVAHSSESTPTPTAAASGQPGPAESTQGGSTEVKNTPNAPPPPPSQPETPESVAERERIGIPTLADSADSHAHPPAIVIYVVDPFLCSGQARDGGGGEEEEGEEVETGSVWLLGLLRCYTEMLQTLPESMRPALVLQVVPCQYLLQPASGESPLYLQHLRSLAFSAYSQCRRLLPTQTHIKSLTGFGPASTLESVLKSPEHPSPLQGYSPPYILGPTRAKMPEPGEVWAEIPSRYNVLFVGYCLSHDQRWILVSCTDQQGELLETCIINIDVPNRARWPKVSARKMGLQKLWDWCVGIIQMTSLPWRIVIGRLGRLGHGELKDWSVLLGEHSLHSISRQLKEACRMCGISSADSPSILSACLVAMEPQGSIVVMPDAVTMGSVFGRSTALNLQTSQLNTPQDASCTHILVFPTSATTQLAASSYPTEDNADDMFDLPFPDELENDIGHDILNLHPSPNTSPVPSPGSPSGMGGSSHFQHNRSQGERFLSRENPPEELKQQPLALGYYVSTAQADSLPHWFWASCPQAQNQCPLFLKASLHHHIAIATAQSDEPNQTNSDKTTKRIPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRRSCLPVHLAVLTQMYNAVLNML
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-0.425
Instability index58.49
Isoelectric point5.56
Molecular weight235880.70
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

>MDP11986
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     112.45|      21|      24|    1719|    1742|       2
---------------------------------------------------------------------------
  457-  477 (40.22/12.59)	PLSGANPTPSLGPA.LPPPSLP
 1722- 1742 (36.35/16.66)	SLTGFGPASTLESV.LKSPEHP
 1744- 1764 (35.88/10.08)	PLQGYSPPYILGPTrAKMPE.P
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     461.83|     185|     703|      48|     342|       3
---------------------------------------------------------------------------
  149-  261 (146.52/156.80)	...........................................................................................................PYELEEKPLATSEHLSCSFTFFL.HGESNVCTSveiAQHQ.PAYHITD..DHIRLAQT.SS...........................................APVQVILSPYGLAGSLTGQAYKMSDQAVRKLMEEWSYFYPMVLqrhREGGTGGAGMG
  262-  342 (84.28/19.39)	GMGAEKEGSDLPfDPnSHVAVEVIVGGVRMIYPAAFVLVAHGDLPVDQPLPAPGAQGLSRDPShCSIPLTPP.TSPEQPCSA..........................................................................................................................................................................................
  851-  970 (104.06/38.74)	..........................................DTPSQEP.PAP..SGGS......DHPLGPL.SS.............................................................................................tqlqeyrmeveegmaspkhedikdfsfvyrvpsvqpqmgcsmfAPLRTLPSQCLPPIKVPDQCYYRPSWALLPKMEHYSSLPPSFI...RDGYVNVPSVG
  981- 1058 (82.10/ 9.67)	ALSIGTTGSILP.SP.SPATPRFSVPTPRTPRTPKGVGTASGQGSVKQEGTGTELSSPASTPS.TSLPMSSL.TEPHASCPA..........................................................................................................................................................................................
 1995- 2095 (44.87/11.29)	.............................................................PS....PNTSPvPSPGSP...sgmggsshfqhnrsqgerflsrenpPEELKQQPLALGYYVSTAQADSLpHWFWASCPQ...AQNQcPLFLKASlhHHIAIATAqSD...........................................EPNQ.....................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.38|      23|      24|     541|     563|       4
---------------------------------------------------------------------------
  544-  570 (37.28/13.85)	LSAGRKGPQSLLHSPVSPLPptlsPH.P
 1563- 1590 (29.10/ 9.06)	AESTQGGSTEVKNTPNAPPPppsqPEtP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.03|      21|      22|     722|     742|       5
---------------------------------------------------------------------------
  699-  721 (29.83/12.71)	GDDPYdfKEGDIEYSFPTSKRLK
  722-  742 (37.21/17.63)	GRDPS..KRGPKGEDISNGALPD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.68|      16|      22|    1658|    1677|       6
---------------------------------------------------------------------------
 1658- 1677 (22.98/26.63)	C.YteMLQtlPESMRPALVLQ
 1681- 1697 (27.70/15.98)	CqY..LLQ..PASGESPLYLQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.71|      16|      21|    1210|    1229|       7
---------------------------------------------------------------------------
 1210- 1229 (25.82/24.90)	CHGRQGALLQSwmadKQWTD
 1234- 1249 (30.89/16.97)	CVECYNALVQG....QQYVD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      90.37|      25|      25|    1338|    1362|       8
---------------------------------------------------------------------------
 1338- 1362 (47.89/22.79)	SPEPLPIPTLLL..GYYDNYDRNFLAL
 1363- 1389 (42.48/19.41)	SPLALPFWEKLLlePYGGQRDVAFLVL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.38|      14|      15|    1137|    1150|       9
---------------------------------------------------------------------------
 1137- 1150 (23.87/14.36)	EDELDIFGRGSEVG
 1154- 1167 (26.51/16.95)	ERRLALCRRDPPMG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      31.61|       9|      21|    1529|    1540|      10
---------------------------------------------------------------------------
 1529- 1540 (13.82/12.25)	PGAPAEGEstaP
 1552- 1560 (17.79/ 6.86)	PTAAASGQ...P
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      85.40|      18|      21|    1860|    1877|      11
---------------------------------------------------------------------------
 1830- 1851 (23.59/10.49)	KLWDWCVgIIQMTSLPwriVIG
 1860- 1877 (31.28/16.29)	ELKDWSV.LLGEHSLH...SIS
 1879- 1896 (30.53/15.72)	QLKEACR.MCGISSAD...SPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      28.59|       9|      15|     793|     802|      12
---------------------------------------------------------------------------
  793-  802 (12.35/11.46)	EDEEElGHTA
  810-  818 (16.24/ 9.28)	EDRRE.GRVA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.63|      24|      25|    1915|    1939|      13
---------------------------------------------------------------------------
 1916- 1939 (40.01/22.56)	DA.VTMGSVFGRSTALNLQTSQLNT
 1942- 1966 (36.62/15.11)	DAsCTHILVFPTSATTQLAASSYPT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.61|      26|     230|     587|     612|      16
---------------------------------------------------------------------------
  584-  610 (42.99/23.17)	GMaPCPDGASGL.GVMEPSA.TALYAAPL
  611-  639 (37.62/19.17)	GPrEREAGVGWWrGFRTPRAdKAEFRPPE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     112.52|      32|     164|     483|     535|      17
---------------------------------------------------------------------------
   99-  131 (55.40/22.13)	HHELEVAEEGLWECGlSYECRTLLFKAIHNLLE
  502-  533 (57.12/27.36)	HHRLSVGQEGCLEQD.STEGSQLGLVALDPLLD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.60|      16|      21|     650|     665|      19
---------------------------------------------------------------------------
  650-  665 (25.22/16.99)	ETQVTEGVALKRLFAQ
  674-  689 (26.37/18.12)	EERVREHIQTLGLLQQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.35|      26|     768|     823|     849|      28
---------------------------------------------------------------------------
  823-  849 (45.98/28.63)	SIADLQRM.FPT.PPSLEQHpAFSP.IMTY
 1592- 1620 (34.37/15.68)	SVAERERIgIPTlADSADSH.AHPPaIVIY
---------------------------------------------------------------------------




































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 MDP11986 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) CSCSRLKQQQKQQQQKQQQQKQQQQTNTSSANPLSGANPTPSLGPALPPPSLPKHKATDKSEKPDKQPKRVAAMTPFHHRLSVGQEGCLEQDSTEGSQLGLVALDPLLDPMPTCKYPKPLSAGRKGPQSLLHSPVSPLPPTLSPHPRVGQDPEVLDAPVGMAPCPDGASGLGVMEPSATALYAAPL
2) DIGHDILNLHPSPNTSPVPSPGSPSGMGGSSHFQHNRSQGERFLSRENPPE
3) FPTSKRLKGRDPSKRGPKGEDISNGALPDGKDAMSIFSSAPKADDDSPQDDEAAKAQNPPLTRETDLVVL
4) HIQTLGLLQQPGVEGMGDLGDDPYDFKEGD
5) LGPQLSALSLDSSLLLPPKPQPPPAPTPSSAQPAPSSSQPPYGPGAPAEGESTAPPVAHSSESTPTPTAAASGQPGPAESTQGGSTEVKNTPNAPPPPPSQPETPESVAERERIGIPTLADSA
6) QPLPAPGAQGLSRDPSHCSIPLTPPTSPEQPCSADSGFV
7) RDGLVRVGAETETETDKEKEKERHEEEQVDQWFTGPWAGQ
8) SDLENIFDEDEEELGHTARVLVSGGEDRREGRVAVPYPSIADLQRMFPTPPSLEQHPAFSPIMTYRDTPSQEPPAPSGGSDHPLGPLSSTQLQEYRMEVEEGMA
9) SPSPATPRFSVPTPRTPRTPKGVGTASGQGSVKQEGTGTELSSPASTPSTSLPMSSLTEPH
425
1985
714
680
1486
309
1427
785
993
610
2035
783
709
1608
347
1466
888
1053










Molecular Recognition Features






MoRF SequenceStartStop




1) WWRGF
621
625