<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 MDP20223

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMSSSSGTSHRAQTYHSLFRKCLLKRTPVDTFGEYVSQLLLKSPLPSSSICPIILSPTVSSRVDPLHLEYIQRLVEKDTVSLPDVLVALLRTSSARSAVSTSASLGHGATSGENGMSTNREALEEDIFTVLATVVREYRPKSNDFVWAAIQALSDWMEVVMAVSGAGMLDEPGDDVSGMAGTMNVGKGRLEALAELTIAIGGNEDVRRILGEGGRKERKSVFQTSLSLFMQYTQVQNPALAARMDALFRHQPSQQSPQQNRNLRNTKGAETIDGMMMGIGDGTDNDGPIVWARGGLFVWLNGLLAGRPQVDDEAVIGYLYSRYRNDINTLLLDFVTAVLDVLSNAILRNEAASTLFLLRSFLTNKVPILLSRLSPSPMTASYALSQALLRTDASTLANPPPSLFDPYSHNTSTNPDMIFNTLVDLRQEFLFACALHGVVGEEDIQGIIGELPLGALPVAGKYDVGDLMNQCAMDPDRVERLLEEIEGVEGNSGAVVRTVVEIMRNMCEQKETMPLRSICSFLARKTSSLDVMLLFVKPVYLLEPLCELLDTWRYEEDQGEYQPVYEEFGYILLLVLTLIHRYDIQVTDLTSSSTPNTDSFIPQLLSKGSTSQRIENFESSDKHAQLGGWIREIFEGEGISDGLMSSCRPQDFYKLVPTLFMQSVMACERGVLDIDTLKEGFAFLLEPFLLPSLVGGLGWLGNHLWESHEDISIPVQILHSLLVPSSISPDASEVHKTVISISARQLERVLRELVRRGTAGSHQNVVEGLVANLRPYTSFKRNGAATRDELENWTHHAGGGGLMQSLGLAFQSLVNWSQGDINIVRPSATYTHRLVLATWRVLGARNTVKGIIGEVVKCRIQGTAQGYAEDIAMSMILSMGSPTEEGGAGGGGGKMGLLEALRAEEAEESGNESVKAEALRGVLRKVETQLTPFTPVHQHAAVGGGVDATGGHPSGMGVDGDTQDVDLDLAMGDDGMAGLLGDGGLGEGDLMGSGLLGDVPGMELE
Length1004
PositionTail
OrganismTuber borchii (White truffle)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Pezizomycetes> Pezizales> Tuberaceae> Tuber.
Aromaticity0.06
Grand average of hydropathy-0.071
Instability index40.36
Isoelectric point4.89
Molecular weight108862.51
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. 


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

>MDP20223
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     342.66|     106|     286|      87|     208|       1
---------------------------------------------------------------------------
   87-  204 (147.59/129.69)	........................................ALLRT........................SSARSAVSTSAS.LGHGATSGE...............................NGMSTNREALEEDIFTVLATVVREYRPKSN....DFVWA.AIQALSDwmevVmavsgagmldepGDDVSGMAGTMNVG....................KGRLEALAELTIAIGGNED
  205-  350 (78.64/47.39)	VRRIlgeggrkerksvfqtslslfmqytqvqnpalaarmdALFRH........................QPSQQSPQQNRN.LRN..TKGAetidgmmmgigdgtdndgpivwargglfvwlNGLLAGRPQVDDE..AVIGYLYSRYRNDINtlllDFVTA............V.................................................LDVLSN...AILRNEA
  351-  492 (116.42/74.43)	ASTL....................................FLLRSfltnkvpillsrlspspmtasyalSQA..LLRTDAStLANPPPSLF...............................DPYSHNTSTNPDMIFNTLVDLRQE...........FLFAcALHGVVG.................EEDIQGIIGELPLGalpvagkydvgdlmnqcamdPDRVERLLEEIEGVEGNSG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     117.93|      36|     174|     614|     652|       2
---------------------------------------------------------------------------
  614-  652 (62.54/42.08)	ENFESSDKHAQLGGWIREI...FEG.egiSDGLMSSCRPQDFY
  787-  829 (55.40/30.09)	DELENWTHHAGGGGLMQSLglaFQSlvnwSQGDINIVRPSATY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     255.31|      87|     146|     511|     607|       3
---------------------------------------------------------------------------
  511-  607 (129.57/135.48)	TMPLRSIcsfLARKTSSLDVMLLFVKPVYLLEP.....LCELL.....DTWRYEEDQGeyQPVyeEfgyIL..LLVLTLIHRYDIQV.TDLTSSSTPNTDSFIPQLLSKG
  657-  756 (125.74/96.37)	TLFMQSV...MACERGVLDIDTLKEGFAFLLEPfllpsLVGGLgwlgnHLWESHEDIS..IPV..Q...ILhsLLVPSSISPDASEVhKTVISISARQLERVLRELVRRG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     105.83|      32|      91|     864|     897|       4
---------------------------------------------------------------------------
  864-  897 (53.77/29.63)	QGYAEDIAMSmiLSMGSPTEEGGAGGGG.GKMGLL
  958-  990 (52.06/23.56)	DGDTQDVDLD..LAMGDDGMAGLLGDGGlGEGDLM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.17|      18|      34|      28|      45|       6
---------------------------------------------------------------------------
   28-   45 (32.38/21.13)	VDTFG.EYVSQLLLKS..PLP
   62-   82 (23.79/13.61)	VDPLHlEYIQRLVEKDtvSLP
---------------------------------------------------------------------------




































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 MDP20223 with Med5 domain of Kingdom Fungi
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