<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 MDP32894

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWKRYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLSVWRRDQRPGRRELWIFWWGDDPNFADLIHHDLSEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEISQHQPVYLLSEEHLTLAQQSNSPFQADAGCALEDRGVLGPESVILSPFGLNGTLTGQSFKLSDSSTKKLIGEWKQFYPVTSNLKEGSEEKQEEMDWEDDSLAAVEVLVAGVRMVYPACFVLVPQTDIPAPSSVGAPHCSTACLGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDAQSAQKWVKFSSVSDGFISDSTSHHGGKIPRKLANQVVDRVWQECNMNRAQNKRKYSATSNGLCEEETADKVASWDFVEATQRTNCNCSRHKNLKPRNSGQQGQAPPVGPQQPAAPKHKTNEKQDKGDKPQKRPLTPFHHRVSISDDVAMEADSASQRLVMSAPDSQVRFANMRAGEGAKPPALHGAELANSPQPPPLSPHPCDSTDEGGPKAPSTPQSQHFYQMPTPDPLVPTKAMEDRLDGLSQPFPAAFPEVIEPTVYVGTAVSLEEDEADTTWKYYKVPKKKDVEFLPPQLPNDKLRDDPVIPAGQENVTSVTELMVQCRKPLKVSDELVQQYQSKNQYLTAVATEADQEPEIDPYAFVDGDVEFLFPDSKKDRQNIEREVGKKHKAEDGTSSVTVLSHEGEDAMSLFSPSVKQDAQRLAAHARTASTSLFHETDLVVSYTDLDNLFNSDEDELTPGSKRTVNGTDDKSNCKEAKTGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSMDTTLGGTVLEGNSSTVGAQFRIEVDEGFCSPKPAEIKDFSYVYKPENCQALVGCSMFAPLKTLPSQCLPPIKLPEECIYRQSWTVGKLDLLPPGPAMPFIKDGDGSTMDQEYGPAYTPQTHTPFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEAQYRCTCGFSAVMNRKFGNSSGLFLEDELDILGRNTECGKEAEKRFEALRATSIEHGSGGLKEPEKLPDDLILLLQDQCTNLFSPFGAADQDSMAKVGAVSNLVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKTTCLHHWSKRNVVDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDFLVLSPFALPYWERLMLEPYGSQRDVAYVVVCPENEALLNGAKSFFRDLTAIYESCRLGQHRPICKLLPDGIMRVGPTASKKLSEKLVTEWFSQTANANNDAFSKLKLYAQVCRYELGPYLASQPLDNSLLSQTNLVPPSGQAASALPPVTAPAANPNTPASAPAAPTSSTITVTSSSAMSSAATTANSTLTTTAPSSSSASLASGIPTSKPSSFPPFSNMSNTTPASLPAQAAPVPNGQTGGQQQQPTLQTAGMSGDTAAAPAQPHPEVSESTMDRDKVGVPTDGDSHAITYPPAIVVYIIDPFTYEKKDENSSSSSLWTLGLLRCFLEMVQVLPPNIKNIISVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALRSPDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWLLASCTDLYGEQLETCIINIDVPNRARRKKGSARRLGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFIIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASSTYTTENLDLAFNTNNDGADGMGIFDLLDTGDDLDPDIINILPASPGGSPVHSPGSHYPHGGDMGKGQGTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPIHFVVLNQLYNFIMNML
Length2196
PositionMiddle
OrganismFicedula albicollis (Collared flycatcher) (Muscicapa albicollis)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Passeriformes> Muscicapidae> Ficedula.
Aromaticity0.07
Grand average of hydropathy-0.389
Instability index52.23
Isoelectric point5.35
Molecular weight240627.89
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:Ensembl
nucleoplasm	GO:0005654	IEA:Ensembl

GO - Biological Function
thyroid hormone receptor binding	GO:0046966	IEA:Ensembl
transcription coactivator activity	GO:0003713	IEA:Ensembl

GO - Biological Process
cholesterol homeostasis	GO:0042632	IEA:Ensembl
negative regulation of DNA-binding transcription factor activity	GO:0043433	IEA:Ensembl
positive regulation of transcription initiation from RNA polymerase II promoter	GO:0060261	IEA:Ensembl
triglyceride homeostasis	GO:0070328	IEA:Ensembl









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP32894
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     262.47|      36|      40|     996|    1031|       1
---------------------------------------------------------------------------
  529-  557 (33.89/10.75)	......RAGEGA...........KPPA....LHGAELANSP.QPPPLsPHP
  571-  604 (40.69/14.48)	TPQS..QHFYQM....P..tPDPLVPT....KAMEDRLDGL.SQP.F.P..
  996- 1031 (73.77/32.62)	TPQT..HTPFGM....P...PSSAPPS....NSGAGILPSP.STPRF.PTP
 1033- 1072 (36.07/11.94)	TPRT.pRTPRGA...gG...PASAQGSvkyeNSD...LYSPaSTPST.CRP
 1523- 1562 (34.03/10.82)	TPASapAAPTSStitvT...SSSAMS......SAATTANST.LTTTA.PSS
 1563- 1599 (44.02/16.30)	SSAS..LAS.GI....PtskPSSFPPF....SNMSNTTPA..SLPAQ.AAP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.31|      26|      40|    1430|    1468|       2
---------------------------------------------------------------------------
 1430- 1459 (42.19/40.28)	KL.LPDGIMR..VGP.TASKKLSEKLvtewFSQT
 1469- 1498 (33.12/ 9.53)	KLkLYAQVCRyeLGPyLASQPLDNSL....LSQT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     120.97|      34|      40|    1135|    1174|       3
---------------------------------------------------------------------------
 1115- 1133 (29.87/14.47)	......CVCN....MNIK.GADVGVY.....IPD..........P
 1135- 1174 (54.79/49.77)	QEAQYRCTCGFSAVMNRKFGNSSGLF.....LEDELdILgrnteC
 1176- 1209 (36.31/17.83)	KEAEKR....FEALRATSIEHGSGGLkepekLPDDL.IL......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      84.95|      19|      40|     399|     417|       4
---------------------------------------------------------------------------
  359-  371 (15.85/ 6.24)	......AQKWVKFSSVSDG
  399-  417 (34.48/23.94)	ECNMNRAQNKRKYSATSNG
  440-  458 (34.62/24.07)	NCNCSRHKNLKPRNSGQQG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     206.23|      70|     721|     607|     702|       5
---------------------------------------------------------------------------
  606-  701 (103.72/120.21)	AFPEV.....IEPTVYV.GtavsleedeadttwkyykvpkkkDVEFLPPQLPNDKL...RDDPVIPAGQENVTSVTELMVQCRKPLKVSDELVQQyqsKNQYLTA
  702-  780 (102.51/68.51)	VATEAdqepeIDPYAFVdG.......................DVEFLFPDSKKDRQnieREVGKKHKAEDGTSSVTVLSHEGEDAMSLFSPSVKQ...DAQRLAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     210.74|      60|     720|     872|     981|       6
---------------------------------------------------------------------------
   20-   80 (104.55/36.84)	FCLADLTGIKWKRYVWQgPTSAPILFPVTEEDPILSSFSRCLKADVLS...VWRRDQRPGRREL
  907-  969 (106.19/ 7.61)	FCSPKPAEIKDFSYVYK.PENCQALVGCSMFAPLKTLPSQCLPPIKLPeecIYRQSWTVGKLDL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.16|      17|      18|    1603|    1619|       7
---------------------------------------------------------------------------
 1603- 1619 (31.00/21.27)	GQTGG..QQQQPTLQTAGM
 1621- 1639 (25.16/15.44)	GDTAAapAQPHPEVSESTM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.00|      10|      18|     465|     474|       8
---------------------------------------------------------------------------
  465-  474 (20.55/12.24)	PQQ.PAAPKHK
  485-  495 (17.45/ 8.85)	PQKrPLTPFHH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     143.65|      44|      70|    1680|    1727|      10
---------------------------------------------------------------------------
 1680- 1727 (68.64/55.09)	SSSLWTLGLLRCFLEMVQVL.PPNIKNIISVQIVPcqYLLQPVKheDRQ
 1751- 1795 (75.01/46.13)	STNVKTLTGFGPGLAMETALrSPDRPECIRLYTPP..FILAPVK..DKQ
---------------------------------------------------------------------------




































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 MDP32894 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) GPAMPFIKDGDGSTMDQEYGPAYTPQTHTPFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENS
2) GSPVHSPGSHYPHGGDMGKGQGTDRLLSTESH
3) NCNCSRHKNLKPRNSGQQGQAPPVGPQQPAAPKHKTNEKQDKGDKPQKRPLTPFHHRVSISDDVAMEADSASQRLVMSAPDSQVRFANMRAGEGAKPPALHGAELANSPQPPPLSPHPCDSTDEGGPKAPSTPQSQHFYQMPTPDPLVPTKAMEDRLDGLSQPFP
4) VPPSGQAASALPPVTAPAANPNTPASAPAAPTSSTITVTSSSAMSSAATTANSTLTTTAPSSSSASLASGIPTSKPSSFPPFSNMSNTTPASLPAQAAPVPNGQTGGQQQQPTLQTAGMSGDTAAAPAQPHPEVSESTMDRDKVGVPTDGD
973
2043
440
1501
1058
2074
604
1651










Molecular Recognition Features






MoRF SequenceStartStop




NANANA