<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 MDP19116

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMDKNFVRIGKWFVRPYEKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYLINEEHIHMAQSSPAPFQVLVSPYGLNGTLTGQAYKMSDPATRKLIEEWQYFYPMVLKKKEELKEEDELGYDDDFPVAVEVIVGGVRMVYPSAFVLISQNDIPVPQSVASAGGHITVGQQGLGSVKDPSNCGMPLTPPTSPEQAILGESGGMQSATSHLGSQDGGMITMHSPKRSGKIPPKLHNHMVHRVWKECILNRTQYKRSQMSTPTLEEEPASNPATWDFVDPTQRVSCSCSRHKLLKRCAVGPNRPPTISQPGFSAGPSSSSSLPPPASSKHKTTERQEKGDKLQKRPLIPFHHRPSVAEELCMEQDTTGQKLGLAGIDSSLEVSSSRKYDKQMAVPSRNTSKQMNLNPMDSPNSPISPLPPTLSPQPRGQETESLDPPSVPVNPALYGNGLELQQLSTLDDRTVLVGQRLPLMAEVSETALYCGIRPSNPESSDKWWHSYRLPPCEDAEFRPPELQGERCDAKMEVNSESTALQRLLAQPNKRFKIWQDKQPQMQPLHFVDPLPLSQQPGDSLGEVNDPYTFEDGDIKYIFTANKKCKQGTEKDSLKKNKSEDGFGTKDVTTPGHSTPVPDGKNAMSIFSSATKTDVRQDNAAGRAGSSSLTQVTDLAPSLHDLDNIFDNSDDDELGAVSPALRSSKMPTVGTEDRPLGKDGRAAVPYPPTVADLQRMFPTPPSLEQHPAFSPVMNYKDGISSETVTALGMMESPMVSMVSAQLTEFKMEVEDGLGSPKPEEIKDFSYVHKVPSFQPFVGSSMFAPLKMLPSHCLLPLKIPDACLFRPSWAIPPKIEQLPMPPAATFIRDGYNNVPSVGSLADPDYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQPIPEAHSLYVTLILSDSVMNIFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIMNRKLGYNSGLFLEDELDIFGKNSDIGQAAERRLLMCQTTFLPQAEGTRKSQEPPISLLLLLQSQHTQPFASLSFLDYISSNNRQTLPCVSWSYDRVQADNNDYWTECFNALEQGRQYVDNPTGGKVDEALVRSATVHSWPHSNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGYDKDFLTISPFSLPFWERLLLDPYGGHRDVAYIVVCPENEALLEGAKTFFRDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQKLTDELVSEWFNQPWSGEENDNHSRLKLYAQVCRHHLAPYLATLQLDSSLLIPPKYQTPPAAAQGQATPGNAGPLAPNSGSAAPPAGSAFNPTSNSSTTNPAASSSASGSSVPPVSSSASAPGISQISTTSSSGFSGSVGGQNPSTGGISTDRTQGNIGCGGDTDPGQSSSQPSQDGQESVTERERIGIPTEPDSADSHAHPPAVVIYMVDPFTYSSEEDSTSGNFWLLSLMRCYTEMLDNLPEHMRNSFILQIVPCQYMLQTMKDEQVFYIQYLKSMAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCVVNIALPNRSRRSKVSARKIGLQKLWEWCIGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKQLKDVCRMCGISAADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNMQSSQLNTPQDASCTHILVFPTSSTIQVAPANYPNEDGFSPNNDDMFVDLPFPDDMDNDIGILMTGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAENLPQWFWSSCPQAQNQCPLFLKASLHHHISVAQTDELLPARNSQRVPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRTSCLPVHFVVLTQLYNAIMNIL
Length2077
PositionMiddle
OrganismSaimiri boliviensis boliviensis (Bolivian squirrel monkey)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Primates> Haplorrhini> Platyrrhini> Cebidae> Saimiriinae> Saimiri.
Aromaticity0.07
Grand average of hydropathy-0.412
Instability index59.05
Isoelectric point5.68
Molecular weight227612.66
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: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

>MDP19116
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.80|      24|      28|    1462|    1487|       1
---------------------------------------------------------------------------
 1464- 1487 (43.27/27.73)	SQISTTSSSGFSGSVG.GQN...PSTGG
 1489- 1516 (36.54/15.86)	STDRTQGNIGCGGDTDpGQSssqPSQDG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     124.96|      28|      28|     900|     927|       2
---------------------------------------------------------------------------
  881-  908 (45.98/25.38)	TPQMNTPVTLNSAAPASNSGAGV..LPSPA
  909-  936 (47.80/26.76)	TPRFSVPTPRTPRTPRTPRGGGT..ASGQG
 1431- 1458 (31.18/14.09)	.PTSNSSTT.NPAASSSASGSSVppVSSSA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     123.32|      35|     626|     173|     220|       3
---------------------------------------------------------------------------
  184-  220 (63.10/27.80)	PSNCGMPLTPPTS....PEQAILG..ESGGMQSATSHLgsQDG
  823-  863 (60.21/31.24)	PSHCLLPLKIPDAclfrPSWAIPPkiEQLPMPPAATFI..RDG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     170.91|      54|     626|    1316|    1376|       4
---------------------------------------------------------------------------
 1316- 1376 (77.29/67.01)	LGQHKPicKVLRDGIMRVGKTVAQKLTDELvSEWFnqpWSG.EENDNHSRLKLYAQVcRHHL
 1949- 2003 (93.62/54.75)	LSREAP..EELKQQPLALGYFVSTAKAENL.PQWF...WSScPQAQNQCPLFLKASL.HHHI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.32|      17|      21|    1102|    1122|       5
---------------------------------------------------------------------------
 1105- 1122 (27.29/22.61)	SLSFlDYI.SSNNRQTLPC
 1124- 1141 (31.03/12.24)	SWSY.DRVqADNNDYWTEC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.86|      19|      21|    1564|    1583|       6
---------------------------------------------------------------------------
 1564- 1583 (31.05/27.77)	NFWLLSLMRCyTEMLDNLPE
 1587- 1605 (34.81/24.67)	NSFILQIVPC.QYMLQTMKD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     123.85|      36|     547|     388|     429|       7
---------------------------------------------------------------------------
  392-  429 (66.65/51.16)	DKQMAVPSRNTSKQMNL.............NPMDSPNSPISPLPptLSPQP
  523-  571 (57.20/27.87)	DAKMEVNSESTALQRLLaqpnkrfkiwqdkQPQMQPLHFVDPLP..LSQQP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.55|      25|      28|     993|    1017|       8
---------------------------------------------------------------------------
  993- 1017 (51.64/34.55)	NFDSC.CICACN..MNIK.GADVGLYIPD
 1020- 1048 (36.91/22.45)	NEDQYrCTCGFSaiMNRKlGYNSGLFLED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.09|      17|      22|    1242|    1258|      10
---------------------------------------------------------------------------
 1242- 1258 (32.92/18.47)	SPEPLPI.PTLLV...GYDKD
 1263- 1283 (23.18/10.56)	SPFSLPFwERLLLdpyGGHRD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.89|      18|      22|    1867|    1884|      11
---------------------------------------------------------------------------
 1867- 1884 (32.43/20.39)	PTSSTIQVA...PANYPNEDG
 1887- 1907 (29.46/17.71)	PNNDDMFVDlpfPDDMDNDIG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.38|      19|      21|     684|     703|      12
---------------------------------------------------------------------------
  684-  703 (27.94/17.49)	DDDELGAVSPALRSSKmPTV
  706-  724 (35.45/18.11)	EDRPLGKDGRAAVPYP.PTV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.55|      10|     913|      46|      55|      13
---------------------------------------------------------------------------
   46-   55 (19.55/11.27)	SVEIAQHQPI
  960-  969 (20.00/11.72)	SVEPATMQPI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.01|      20|    1266|     255|     283|      19
---------------------------------------------------------------------------
   91-  110 (40.40/18.26)	YKMSDPATRKLIEE.......WQYFYP
  257-  283 (32.61/27.57)	YKRSQMSTPTLEEEpasnpatWDFVDP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.34|      12|      27|    1740|    1751|      21
---------------------------------------------------------------------------
 1740- 1751 (24.58/15.61)	KIGLQKLWEWCI
 1770- 1781 (22.75/13.86)	RLGHGELKDWSI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.92|      23|     466|     306|     331|      27
---------------------------------------------------------------------------
  307-  331 (34.35/25.78)	PPTISQpGfSAGPSSSSSLPPPASS
 1398- 1420 (43.57/18.17)	PPAAAQ.G.QATPGNAGPLAPNSGS
---------------------------------------------------------------------------




































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 MDP19116 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) APSLHDLDNIFDNSDDDELGAVSPALRSSKMPTVGTEDRPLGKDGRAAVP
2) CAVGPNRPPTISQPGFSAGPSSSSSLPPPASSKHKTTERQEKGDKLQKRPLIPFHHRPSVAEELCMEQDTTGQKLGLAGIDSSLEVSSSRKYDKQMAVPSRNTSKQMNLNPMDSPNSPISPLPPTLSPQPRGQETESLDPPSVPVNPALYGNGLEL
3) GILMTGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPE
4) GTEKDSLKKNKSEDGFGTKDVTTPGHSTPVPDGKNAMSIFSSATKTDVRQDNAAGRAGSSSLTQVTD
5) ITVGQQGLGSVKDPSNCGMPLTPPTSPEQAILGESGGMQSATSHLGSQDGGMITMHSPKRSGKIPPKLH
6) PPKYQTPPAAAQGQATPGNAGPLAPNSGSAAPPAGSAFNPTSNSSTTNPAASSSASGSSVPPVSSSASAPGISQISTTSSSGFSGSVGGQNPSTGGISTDRTQGNIGCGGDTDPGQSSSQPSQDGQESVTERERIGIPTEPDSADSHAH
7) VGSLADPDYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQ
670
300
1907
602
171
1392
870
719
455
1955
668
239
1540
967










Molecular Recognition Features






MoRF SequenceStartStop




1) KRFKIW
544
549