<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 MDP04098

Description Mediator of RNA polymerase II transcription subunit 13
SequenceNLLSVAELTGIKWRRYNFGGHGDCGPIISAPAQDDPILLSFIRCLQANLLCVWRRDVKPDCKELWIFWWGDEPNLVGVIHHELQVVEEGLWENGLSYECRTLLFKAIHNLLERCLMDKNFVRIGKWFVRPYDKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYVINEEHLHMAQSSPAPFQVLVSPYGLNGTLTGHAYKMSDPAARKLIEEWQCFYPMVLRKKEEPREEAELEYDDDFPVAVEVIVGGVRMVYPSAFVLISQNDIPVPQSGTSAGGHVTIAQQGLGSVKDPSNCGMPLTPPTSPEQVVIGESGVQSAASHLGSHDGGMIATHSPKRSKKIPPKLHSHMVHRVWKECILNRAQSKRSQMSAPAGEEEPAHSPAAWDFVDPTQRVSCSCSRCVHKLLKRCAVGPSRPPTLSQPGFSAGPPPPSSLPPPASSKHKTTERQEKGDKLQKRPLVPFHHRPSVAEELCMEQDAPGQKLGLAGIDSSLEVSSSRKYDKQMAVPSRNTSKQMDLNPMDSPHSPISPLPPTLSPQPRGQETESLDPPSVPVNPALYGNGLDLQQLSALEDRTVLVGQRLPLMAEASETALYSGLRPSYTESSDRWWQSFRLPPSEDAEFRPPELQGEGFHTVLDVSPESTALQRLLAQPNKRFKIWQDEQPQVQPLPFLDPSPLSQQPGDTLGEVNDPYTFEDGDIKYIFTANKKCKQGTEKDSLKKNKSEDGFGTKDVTTPGHSTPVPDGKNAMSIFSSATKTDVRQDNAAGRAGSGSLTQVTDLAPSLHDLDNIFDNSDDDELGAVSPALRSSKMPTVGTEERPPGKDGRAAGPYPPTVADLQRMFPTPPSLEQHPAFSPVMNYKDGVSSETVTALGMLESPVVSMVPTHLTEFRMEVEDGLGSPKPEDIKDFSYVHRVPQFQPFVGSSMFAPLKTLPSHCLLPLKTPDACLFRPSWAVPPKMEQLPMPPAASSIRDGYNNVPSVGSLADADYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQPIPEAHSLYVTLILSDSVMNVFKDRNFDSCCICACNMNVKGADVGLYIPDSSKEDQYRCTCGFSAIVNRRLGYNSGLFLEDELDIFGKNSDIGQAAERRLMMCQTSCQSTLLPQVEGARKAPEPPVSLLLLLQNQHTQPFASLSFLDYISSSSRHALPCVSWTYDRVQADNNDYWTECVNALEQGRQYVDNPTGGKVDEALVRSATVHCWPHSNVLDTSMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGYDKEFLTISPFSLPFWERLLLEPYGGHRDVAYIVVCPENEALLEGAKTFFRDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQKLTEELVSEWFNQPWSSEESDNHSRLKLYAQVCRHHLAPYLATLQLDSGLLMPPKHQSPPAEAQGQATPGNAGSSSSGSGAPPAGSAFNPTSSSSAASSSSSCSGPPGSSATSAPGITQMSTTSSSGFSGGVGGQNPSAGGSSTDGTPGNVACGDAEHAQSCAQPSQDGQDSVTERERIGIPTEPDSADSHAYPPAVVIYMVDPFTYTAEEDSSSGNFWLLSLMRCYTEMLDHIPEHMRSSFILQIVPCQYMLQTVKDEHVFYIQYLKSMAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTEPGEAFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCVVNIALPSRSRKSKVSARKIGLQKLWEWCLGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKQLKDVCRMCGISAADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNMQSSQLNTPQDASCTHILVFPTSSTIQVAPANYPNEDGFSPNNDDMFVDLPFPDDMDNDIGILMTGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAENLPQWFWSSCPQARNQCPLFLKASLHHHISVAQTDELLPVRNSQRAPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRTSCLPVHFVVLTQLYNAIMNML
Length2189
PositionMiddle
OrganismRattus norvegicus (Rat)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Glires> Rodentia> Myomorpha> Muroidea> Muridae> Murinae> Rattus.
Aromaticity0.07
Grand average of hydropathy-0.378
Instability index60.88
Isoelectric point5.72
Molecular weight239564.17
Publications
PubMed=15057822
PubMed=22673903

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	ISO:RGD
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

>MDP04098
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.19|      15|      21|    1527|    1546|       1
---------------------------------------------------------------------------
  420-  434 (22.82/ 7.75)	PS.........RPPTLSQPGFSAG
 1541- 1564 (21.37/ 7.85)	PPagsafnptsSSSAASSSSSCSG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.72|      26|      27|    1016|    1041|       2
---------------------------------------------------------------------------
 1016- 1041 (47.54/31.59)	GAGVLPSPATPRFSVPTPRTP.RTPRT
 1044- 1070 (41.17/25.90)	GGGTASGQGSVKYDSTDQGSPaSTPST
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.46|      20|      21|     931|     951|       3
---------------------------------------------------------------------------
  931-  951 (34.56/20.35)	MFAPLKTLPSHC.LLPLkTPDA
  953-  973 (35.89/17.22)	LFRPSWAVPPKMeQLPM.PPAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.85|      15|      27|    1594|    1620|       4
---------------------------------------------------------------------------
 1572- 1592 (21.91/ 7.72)	SAPGitqmstTSSSGFSGGVG
 1597- 1611 (27.94/18.18)	SAGG......SSTDGTPGNVA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.69|      12|      26|     525|     536|       5
---------------------------------------------------------------------------
  525-  536 (24.80/12.41)	NPMDSPHSPISP
  551-  562 (22.89/10.72)	ESLDPPSVPVNP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.97|      21|      26|    1673|    1698|       6
---------------------------------------------------------------------------
 1671- 1696 (32.31/30.71)	DSSSgnfWLLSLMRC.YteMLDHI.PEH
 1697- 1719 (31.66/15.86)	MRSS...FILQIVPCqY..MLQTVkDEH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      87.79|      27|      28|    2049|    2076|       8
---------------------------------------------------------------------------
 2049- 2076 (41.86/28.66)	HFQhSRSQGERL...LSREAPEELKQQPLAL
 2078- 2107 (45.94/26.53)	YFV.STAKAENLpqwFWSSCPQARNQCPLFL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.85|      23|      25|     636|     658|       9
---------------------------------------------------------------------------
  636-  658 (38.24/19.67)	EGFHTVLDVSPESTALQRLLAQP
  660-  682 (43.62/23.55)	KRFKIWQDEQPQVQPLPFLDPSP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.34|      24|      25|      41|      65|      10
---------------------------------------------------------------------------
   41-   64 (45.77/32.61)	FIRCLQANLLCV............WRRDVKPDCKEL
   67-  102 (38.57/20.01)	FWWGDEPNLVGVihhelqvveeglWENGLSYECRTL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.03|      23|      28|    1114|    1140|      11
---------------------------------------------------------------------------
 1111- 1133 (46.21/34.15)	DSC.CICACNMNVK...GADVGLYIPD
 1138- 1164 (34.83/15.41)	DQYrCTCGFSAIVNrrlGYNSGLFLED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     183.90|      52|     254|    1484|    1535|      13
---------------------------------------------------------------------------
  835-  861 (28.40/ 6.99)	..............PYPPTVA.DLQRMFP.........TPPSLEQH.........PAfSP........
 1484- 1535 (93.77/39.38)	RLKLYAQVCRHHLAPYLATLQLDSGLLMP..P...KHQSPPAEAQG.........QA.TPGNA.GSSS
 1738- 1799 (61.74/23.51)	RRPLPTQIHIKSLTGFGPAASIEMTLKNPerPspiQLYSPP.....filapikdkQT.EPGEAfGEAS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.43|      18|      27|     444|     461|      14
---------------------------------------------------------------------------
  444-  461 (29.94/19.57)	PASSKHKTTERQEKGDKL
  473-  490 (31.48/21.03)	PSVAEELCMEQDAPGQKL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.17|      14|      21|    1362|    1375|      15
---------------------------------------------------------------------------
 1362- 1375 (27.54/16.00)	SPEPLPI..PTLLVGY
 1383- 1398 (22.63/11.47)	SPFSLPFweRLLLEPY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.20|      11|      27|    1614|    1624|      16
---------------------------------------------------------------------------
 1614- 1624 (21.06/ 9.99)	DAEHAQSCAQP
 1643- 1653 (21.14/10.06)	EPDSADSHAYP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.07|      18|      28|    1998|    2020|      17
---------------------------------------------------------------------------
 1998- 2020 (24.82/25.87)	SPNNDdmfvDLPFPDDmDNDIGI
 2029- 2046 (34.25/17.47)	SPNSS....PVPSPGS.PSGIGV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.15|      14|      21|     875|     895|      18
---------------------------------------------------------------------------
  875-  895 (15.34/21.29)	TALGmleSPvvsmVPTHLTEF
  901-  914 (26.81/12.58)	DGLG...SP....KPEDIKDF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.15|      14|      16|     593|     606|      19
---------------------------------------------------------------------------
  593-  606 (24.34/12.38)	EASETALYS.GLRPS
  609-  623 (24.81/12.77)	ESSDRWWQSfRLPPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.12|      19|      28|     343|     361|      20
---------------------------------------------------------------------------
  343-  361 (36.14/22.49)	KRSKKIPPKLHSHMVHR..VW
  372-  392 (29.99/17.17)	KRSQMSAPAGEEEPAHSpaAW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.52|      16|      16|    1210|    1225|      21
---------------------------------------------------------------------------
 1210- 1225 (27.36/14.04)	SLLLLL..QNQHTQPFAS
 1227- 1244 (24.16/11.55)	SFLDYIssSSRHALPCVS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      61.34|      20|      22|     761|     782|      23
---------------------------------------------------------------------------
  750-  767 (13.01/11.01)	....GKNAMSIFSSATktDVRQ
  768-  787 (31.47/20.57)	DNAAGRAGSGSLTQVT..DLAP
  793-  807 (16.86/ 6.37)	DNIFDNSDDDELGAV.......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.20|      17|      27|     276|     292|      25
---------------------------------------------------------------------------
  276-  292 (29.24/14.74)	PQSGTSAGGHVTIAQQG
  305-  321 (27.96/13.72)	PLTPPTSPEQVVIGESG
---------------------------------------------------------------------------




































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 MDP04098 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) GILMTGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPE
2) GSLADADYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQ
3) GTEKDSLKKNKSEDGFGTKDVTTPGHSTPVPDGKNAMSIFSSATKTDVRQDNAAGRAGSGSLTQVTDLAPSLHDLDNIFDNSDDDELGAVSPALRSSKMPTVGTEERPPGKDGRAAGPYPPTVADLQRMFPTPPSLEQHPAFSPVMNY
4) KDPSNCGMPLTPPTSPEQVVIGESGVQSAASHLGSHDGGMIATHSPKRSKKIPPKLH
5) SGLLMPPKHQSPPAEAQGQATPGNAGSSSSGSGAPPAGSAFNPTSSSSAASSSSSCSGPPGSSATSAPGITQMSTTSSSGFSGGVGGQNPSAGGSSTDGTPGNVACGDAEHAQSCAQPSQDGQDSVTERERIGIPTEPDSA
6) VGPSRPPTLSQPGFSAGPPPPSSLPPPASSKHKTTERQEKGDKLQKRPLVPFHHRPSVAEELCMEQDAPGQKLGLAGIDSSLEVSSSRKYDKQMAVPSRNTSKQMDLNPMDSPHSPISPLPPTLSPQPRGQETESLDPPSVPVNPALY
2019
987
718
297
1507
418
2067
1083
865
353
1647
565










Molecular Recognition Features






MoRF SequenceStartStop




1) KRFKIWQ
660
666