<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 MDP26160

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMIHIFNHPHPAMSSSSGTSLRAQTYHGLFRKCLLKRTPVDTFGEYVSQLLLKSPLPSSSICPILLSPSVSSRVDPLHLEYIQCLVEKDIVSLPDVLVALLCTSSARPAVSTSSSSGHGATGGGNGMNTNREALEEDIFTVLATVVREHKPRSNDFVWATIQALSDWMEAVMAASGAGMLDEPGDDVSGMTGSMDVGKGRLEALAELTIAIGGNEDVRRILGEGGRKERKLMFQTSLSLFMQYIQVQNPTLAARMDALFRHQQSQQSPQQNRNQRSTKGAETIDGMMMGMGDGADNEPVVWARGGLFVWLNGLLAGRPQVDDEAVIGYLYSRYRNDINTLLVDFVTAVLDVLSNAILRSEAASTLFLLRSFLTNKVPILLSRLSPSPMTASYALSQALLRTDASTLANPPPSSFDPYSRDTSPNADMLFNTLVDLRQEFLFACALHGVVGEEDIQGIIGELPLGALPVAGRYDAGDLMNQCAMDPDRVERLLEEIEGVEGNSGAVVRAVVEIMRNMCEQKETMPLRSICSFLARKTSSLDVMLLFVKPVYLLEPLCELLDTWRYEEDQGEYQPVYEEFGYILLLVTDLTSSSAPNTDSFIPQLLSKGSTSQRIENFESSDKHAQLGGWIREIFEGEGISDGLMSSCRPQDFYRLVPTLFMQSVMACERGVLDIDTLKEGFAFLLEAFLLPSLVGGLGWLGNHLWESHEDISIPVQILHSLLVPSSISSDASEVHKTVISISARHLERVLRELARRGTAGSHQSAVEGLVANLQPYTSFKRNGAATRDELENWTHHAGGGGLVQSLGLAFQSLVNWSTSQGDINIVRPSATYTHRLILATWRVSGARNTVGAIISEVVKCRIQGTAQGYAEDVAMSMILSMGPPTEEGGTGGGGGKMGLLEALRAEEAEESGNEGDKAEALRSVLRKVETQLTPFSPVHQHAAVGGGVDATGGQQPGMGVGGDTQGVDLDLAMGDDGMAGLLGDGGLGEGELMGSGLLGDVSGMELV
Length1005
PositionTail
OrganismTuber melanosporum (strain Mel28) (Perigord black truffle)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Pezizomycetes> Pezizales> Tuberaceae> Tuber.
Aromaticity0.06
Grand average of hydropathy-0.064
Instability index44.72
Isoelectric point4.86
Molecular weight108370.76
Publications
PubMed=20348908

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

>MDP26160
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     258.94|      85|      91|     804|     894|       1
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  800-  890 (129.02/81.56)	LVQSLGLaFQSL....VNWSTSQGDINIVRPSATYTHRLILATWRVSGARNTVGAIISEVVKcriQGTAQGYAED...VAMSmiLSMGPPTEEG..GTGG
  891-  984 (129.92/66.99)	GGGKMGL.LEALraeeAEESGNEGDKAEALRSVLRKVETQLTPFSPVHQHAAVGGGVDATGG...QQPGMGVGGDtqgVDLD..LAMGDDGMAGllGDGG
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     711.77|     255|     313|      62|     371|       2
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   44-  358 (362.68/296.94)	EYVSQL.LLKSPLpsssicPILLSPSVSSrvdPLHLEYI..QCLVEKDIVSLpdvlvallctssARPAVSTSSSSGHGATGGGNGM.....NTNREALeediFT.VLATVVREHKprsndfvwatiqalsdwMEAVMAASGAGMLDEPGD.DVSGMTGSMDVGKGRLEALAELTIAIGGNED.VRRILGEGGR...KERKLMFQTSLS..............LFMQYIQVQNPtLAARMDAL.FRHQQSQQSP...........QQNRNQRStkgAETIDGM...MMGMGDGADN.EPvvWAR.......GGlfvWLNGLLAGRpQVDDeaviGyLYSRYR.ND....INTLLVDFVTA....VLDVlsnAILRS
  359-  677 (349.09/195.69)	EAASTLfLLRSFL..tnkvPILLSRLSPS...PMTASYAlsQALLRTDASTL............ANPPPSSFDPYSRDTSPNADMLfntlvDLRQEFL....FAcALHGVVGEED.................IQGIIGELPLGALPVAGRyDAGDLMNQCAMDPDRVERLLEEIEGVEGNSGaVVRAVVEIMRnmcEQKETMPLRSICsflarktssldvmlLFVKPVYLLEP.LCELLDTWrYEEDQGEYQPvyeefgyilllVTDLTSSS...APNTDSFipqLLSKGSTSQRiEN..FESsdkhaqlGG...WIREIFEGE.GISD....G.LMSSCRpQDfyrlVPTLFMQSVMAcergVLDI...DTLKE
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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 MDP26160 with Med5 domain of Kingdom Fungi
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