<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 MDP27399

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMDKNFVRIGKWFVRPYEKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYLINEEHIHMAQSSPAPFQVLVSPYGLNGTLTGQAYKMSDPATRKLIEEWQYFYPMVLKKKELKEEEELGYDDDFPVAVEVIVGGVRMVYPSAFVLISQNDIPVPQSVASAGGHITVGQQGLGSVKDPSNCGMPLTPPTSPEQAVIGESGGTQSALSHLGSQDGGMITMHSPKRSGKIPPKLHNHMVHRVWKECILNRTQSKRSQMSTPTLEEEPANNPATWDFVDPTQRVSCSCSRQKLLKRCAVGPSRPPTASQPGLSAGPSSSSSLPPPASSKHKTTERQEKGDKLQKRPLIPFHHRPSVAEELCMEQDTAGQKLGLAGIDSSLEVSSSRKYDKQMAVPSRNTSKQMNLNPMDSPHSPISPLPPTLSPQPRGQETESLDPPSVPVNPALYGNGLELQQLSTLDDRTVLVGQRLPLMAEVSETALYCGIRPSNPESSDKWWHSYRLPPLDDAEFRPPELQGERCDAKMEVNSESTALQRLLAQPNKRFKIWQDKQPQMQPLHFLDPLPLSQQPGDSLGEVNDPYTFEDGDIKYIFTANKKCKQGTEKDSLKKNKSEDGFGTKDVTTPGHSTPVPDGKNAMSIFSSATKTDVRQDNAAGRAGSSSLTQVTDLAPSLHDLDNIFDNSDDDELGAVSPALRSSKLPAVGTEDRPLGKDGRAAVPYPPTVADLQRMFPTPPSLEQHPAFSPVMNYKDGISSETVTALGMMESPMVSMVSTQLTEFKMEVEDGLGSPKPEEIKDFSYVHKVPTFQPFVGSSMFAPLKMLPSQCLLPLKIPDACLFRPSWAIPPKIEQLPMPPAATFIRDGYNNVPSVGSLADPDYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQPIPEAHSLYVTLILSDSVMNIFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIMNRKLGYNSGLFLEDELDIFGKNSDIGQAAERRLMMCQTTFLPQMEGARKSQEPPISLLLLLQNQHTQPFASLSFLDYISSNSRQTLPCVSWSYDRVQADNNDYWTECFNALEQGRQYVDNPTGGKVDEALVRSATVHSWPHSNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGYDKDFLTISPFSLPFWERLLLDPYGGHRDVAYIVVCPENEALLEGAKTFFRDLSAVYEMCRLGQHKPICKVMRDGIMRVGKTAAQKLTDELVSEWFTQPWGSEENDNHSRLKLYAQVCRHHLAPYLATLQLDSSLLIPPKYQTPPAAAQGQATPGNAGPLASNSGSAAPSAGSTFNPTSNGSSANPAASGSASGSSVPPVSSAASAPGINQISTASSSGFSGSAGGQNPSAGAGSADRTQGNAGCAGDTESGQSSSQPSQDGQESVTERERIGIPTEPDSADSQAYPPAVVIYMVDPFTYTAEEDSTSGNFWLLSLMRCYTEMLDNLPEHMRNSFILQIVPCQYMLQTMKDEHVFYIQYLKSMAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCIVNIALPNRSRRSKVSARKIGLQKLWEWCIGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKRLKDVCRMCGISAADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNMQSSQLNTPQDASCTHILVFPTSSTIQVAPANYPNEDGFSPNNDDMFVDLPFPDDMDNDIGILMTGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPEELKQQPLALGYLVSTARAENLPQWFWSSCPQAQNQCPLFLKASLHHHISVAQTDELLPARNSQRVPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRTSCLPVHFVVLTQLYNAIMNIL
Length2076
PositionMiddle
OrganismEquus caballus (Horse)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Laurasiatheria> Perissodactyla> Equidae> Equus.
Aromaticity0.07
Grand average of hydropathy-0.404
Instability index58.12
Isoelectric point5.70
Molecular weight227112.17
Publications
PubMed=19892987

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	IBA:GO_Central
GO - Biological Function
transcription coregulator activity	GO:0003712	IBA:GO_Central
GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central

Interaction

Binary Interactions











Repeat regions





Repeats

>MDP27399
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     328.26|     104|     109|     644|     751|       1
---------------------------------------------------------------------------
  644-  711 (78.40/37.16)	..............................................TKT......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................dvrQDNAAGRAGSSSLTQV.TDLAPSLHDLDNIFDNSDDDELGAVSPALRSSKL.PAVGTED.RPLGK
  712-  820 (149.40/71.10)	DGRAAVPYP.PTVADLQRMFPTPPSLEQHPaFSPVMNY.KDGisseTVT............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................ALGMMESPMVSMVsTQLTEFKMEVEDGLGSPKPEEIKDFSYVHKVPTFqPFVGSSMfAPLKM
  822-  862 (32.32/ 8.10)	PSQCLLPLKiPDACLFRPSWAIPPKIEQLP.MPPAATFiRDG.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
 1480- 1534 (68.15/26.01)	.................................................ynnvpsvgsladpdylntpqmntpvtlnsaapasnsgagvlpspatprfsvptprtprtprtprgggtasgqgsvkydstdqgspastpsttrplnsvepatmqpipeahslyvtlilsdsvmnifkdrnfdsccicacnmnikgadvglyipdssnedqyrctcgfsaimnrklgynsglfledeldifgknsdigqaaerrlmmcqttflpqmegarksqeppislllllqnqhtqpfaslsfldyissnsrqtlpcvswsydrvqadnndywtecfnaleqgrqyvdnptggkvdealvrsatvhswphsnvldismlssqdvvrmllslqpflqdaiqkkrtgrtweniqhvqgpltwqqfhkmagrgtygseespeplpiptllvgydkdfltispfslpfwerllldpygghrdvayivvcpeneallegaktffrdlsavyemcrlgqhkpickvmrdgimrvgktaaqkltdelvsewftqpwgseendnhsrlklyaqvcrhhlapylatlqldssllippkyqtppaaaqgqatpgnagplasnsgsaapsagstfnptsngssanpaasgsasgssvppvssaasapginqistasssgfsgsaggQNPSAG.AGSADRTQG.N..AGCAGDTESGQSSSQPSQDGQESVTERER.....IGIPT.EPDSA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     193.59|      58|    1265|      22|      81|       2
---------------------------------------------------------------------------
   22-   81 (99.20/80.67)	PVNKSeHLSCAFTFFlHGESNVCTSVEIAQHQPIYLINEEHIHMAQSSPAP..FQVLVS.....PYG
 1290- 1354 (94.39/67.17)	PENEA.LLEGAKTFF.RDLSAVYEMCRLGQHKPICKVMRDGIMRVGKTAAQklTDELVSewftqPWG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     320.98|      93|     914|     891|     986|       3
---------------------------------------------------------------------------
  315-  428 (87.79/34.04)	SAGPSSSSS...LPPPASSKHKTTErqekgDKLQKRPLIPfHHRPSVAEElcmeqdtagqklglagidsslevsSSRKYDK.QMAV.......PSRNTSKQMNLNPMDsphspisplPPTLSPQP.................
  891-  986 (157.49/71.83)	SAAPASNSGagvLPSPATPRFSVPT.....PRTPRTPRTP.RGGGTASGQ........................GSVKYDSTDQGS.......PASTPSTTRPLNSVE.........PATMQPIPEAHSLYVTLILSDSVMN
 1839- 1903 (75.71/27.75)	..........................................GRSTALNM........................QSSQLNTPQDAScthilvfPTSSTIQVAPAN..Y.........PNEDGFSPNNDDMFVDLPFPDDMDN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     313.89|     102|    1499|     148|     262|       4
---------------------------------------------------------------------------
  148-  252 (173.43/87.29)	AFVLISQNDIPVP.....QSVASAGGHITVgQQGLGSVKDPSNCGMPLTP....PTSPEQAVIGESGGTQSalSHLGSQDGGMITMHSPKRSGKIPPKLHNHMVHRVWKECILN
 1617- 1723 (165.40/75.41)	AFSVYCQCRRPLPtqihiKSLTGFGPAASI.EMTLKNPERPSPIQLYSPPfilaPIKDKQTELGETFGEAS..QKYNVLFVGYCLSHDQRWLLASCTDLHGELL....ETCIVN
 1742- 1750 (-24.94/ 6.48)	.......................................................................................................LQKLWEWCI..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.34|      12|      27|    1739|    1750|       5
---------------------------------------------------------------------------
 1739- 1750 (24.58/15.95)	KIGLQKLWEWCI
 1769- 1780 (22.75/14.15)	RLGHGELKDWSI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     242.58|      85|     542|     549|     639|       6
---------------------------------------------------------------------------
  549-  595 (62.85/30.42)	....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................QDKQPQ.MQPLH.FLDPLPLSQQPG...DSLGEVNDPYTFEDGDIKYIFTAN
  596-  639 (27.57/27.06)	KKCKQGTEK.DSLKKNKSEDGFgTKDVTTpgHSTPvpdGKNAMSI...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
 1095- 1140 (54.98/25.38)	.............................................fssatktdvrqdnaagragsssltqvtdlapslhdldnifdnsdddelgavspalrssklpavgtedrplgkdgraavpypptvadlqrmfptppsleqhpafspvmnykdgissetvtalgmmespmvsmvstqltefkmevedglgspkpeeikdfsyvhkvptfqpfvgssmfaplkmlpsqcllplkipdaclfrpswaippkieqlpmppaatfirdgynnvpsvgsladpdylntpqmntpvtlnsaapasnsgagvlpspatprfsvptprtprtprtprgggtasgqgsvkydstdqgspastpsttrplnsvepatmqpipeahslyvtlilsdsvmnifkdrnfdsccicacnmnikgadvglyipdssnedqyrctcgfsaimnrklgynsglfledeldifgknsdigqaaerrlmmcqttflpqmegarksqeppislllllQNQHTQpFASLS.FLD..YISSNSR...QTLPCVSWSYDRVQADNNDYWTEC
 1142- 1226 (97.18/53.97)	NALEQGRQYvDNPTGGKVDEAL.VRSATV..HSWP...HSNVLDI..................................................................................................................................................................................................................................................................................................................................................................................................................................................................smlssQDVVRM.LLSLQpFLQDAIQKKRTGrtwENIQHVQGPLTWQQ..........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.77|      21|      24|    1425|    1447|       7
---------------------------------------------------------------------------
 1425- 1445 (36.97/12.38)	GSTFNPTSNGSSA...NPAASGSA
 1447- 1470 (28.80/10.77)	GSSVPPVSSAASApgiNQISTASS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.38|      20|      25|    1563|    1583|       8
---------------------------------------------------------------------------
 1563- 1583 (34.50/24.47)	NFWLLSLMRCyTEMLDNL.PEH
 1586- 1606 (33.88/18.65)	NSFILQIVPC.QYMLQTMkDEH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.67|      11|      29|    1953|    1963|      11
---------------------------------------------------------------------------
 1953- 1963 (19.53/10.01)	PEELKQQPLAL
 1984- 1994 (22.14/12.44)	PQAQNQCPLFL
---------------------------------------------------------------------------




































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 MDP27399 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) CAVGPSRPPTASQPGLSAGPSSSSSLPPPASSKHKTTERQEKGDKLQKRPLIPFHHRPSVAEELCMEQDTAGQKLGLAGIDSSLEVSSSRKYDKQMAVPSRNTSKQMNLNPMDSPHSPISPLPPTLSPQPRGQETESLDPPSVPVNPALYG
2) ECILNRTQSKRSQMSTPTLEEEPANNPATWDFVDPT
3) GILMTGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPE
4) GTEKDSLKKNKSEDGFGTKDVTTPGHSTPVPDGKNAMSIFSSATKTDVRQDNAAGRAGSSSLTQVTD
5) ITVGQQGLGSVKDPSNCGMPLTPPTSPEQAVIGESGGTQSALSHLGSQDGGMITMHSPKRSGKIPPKLH
6) PPKYQTPPAAAQGQATPGNAGPLASNSGSAAPSAGSTFNPTSNGSSANPAASGSASGSSVPPVSSAASAPGINQISTASSSGFSGSAGGQNPSAGAGSADRTQGNAGCAGDTESGQSSSQPSQDGQESVTERERIGIPTEPDSA
7) PSLHDLDNIFDNSDDDELGAVSPALRSSKLPAVGTEDRPLGKDGRAAVP
8) VGSLADPDYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQ
433
382
2040
735
304
1525
804
1003
583
417
2088
801
372
1668
852
1100










Molecular Recognition Features






MoRF SequenceStartStop




1) KRFKIW
677
682