<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 MDP31089

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMSAADVTRAAFASGLSPLTWGRLVRSATGGAPYHGALYGPEICSTLLDLVAQYPSSPLLQSYLCLSLGLPPTTELSPHTPAPPALPTAPLVPLYVYLSSVLASVGRFPSPIPVQLAEPLCRLALLTHTTYNSPLLPPAASPLPLIPQFVILLSSLSHSSLSAPPTAAPELLLHTLSLLQAQHQIPLLTPSEKQAILHSIDASQTFQDVFTIAYKGLVRVRELIRIMDLGEGGMWGPMTGVGVGVEPVVVDREGEEPSLPLMSLVLASLVENRTTPFGASSHLSSRSQLLPPSPSSQLYPSLLQASISLIVLHPYPPSVKEGHPSESAYCQAVIWRSFILSRLPALLCPLPESTTVTATTTTNAGEPTTEAGPFEQALTALFTDWKSQLDQCNPPPPVPGVGAGSGAFGSDGVDEEARPPSFRIDLLRSLTSHSLLPPASAALICPSYTSADPPLSIEAAENMLTPQEYIEDRLSSASEDALAFLTRMEGDWAAHPLLASWFRDRLASASESGSLDQLAAACRLLCAHRLALDLLSLWIPVQELVDLASSFLDTFDLETVDDPQSALSLYGEIVLFCQYTSSKYHLPPPSPSPAWRTQLTPSLPRLNTDESALLSKWVKALFSPNEGIDDPMLRSTDPALLLRLTTTVFHQALVARSFDLLDSETLQNGIGYFLSSLLSWTLVGVINYLTAEVERQAPYSSLHWDVLQTLVMSESCPRVVLVVTGGAVLRLLGNGRLRALDPQGAGVGERATDGGPGGAGGPGEGLGGLREVVGRLLCLDQDRDPFTDRRHTHTLPSWSDNCQTAIREAFTSAHLNRATTLDVDAYLSVLRPPEFVHILWDACVSGASMGAMDGCRIVSSFLLSGLRSPASPPLLPYFLLVFVPTLLVDLDRQTPPQSTTLDTLVTIITSACHLSFQLERSFLKLADGALLSLELRSRLQPRVWLNALLDRLETAQGPASRLLAKRLHLVLND
Length972
PositionTail
OrganismDacryopinax primogenitus (strain DJM 731) (Brown rot fungus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Agaricomycotina> Dacrymycetes> Dacrymycetales> Dacrymycetaceae> Dacryopinax.
Aromaticity0.06
Grand average of hydropathy0.138
Instability index52.58
Isoelectric point5.12
Molecular weight104479.50
Publications
PubMed=22745431

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

>MDP31089
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     967.46|     199|     200|     381|     579|       1
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   89-  234 (160.73/54.39)	............PLVPlyvyLSSVLASVGRFPS..PIPVQLAEPLCRLA..LLTHTTYNSpLLP......P...............................AASPLpLIPQFVI...............................................LLSSLSHSSL..SAPPTAAPELL......LHTLSLLQAqHQI.PLLTPSEKQAILHSIDASQTFQDVFtiaykGLVRVRELIRIMDL.GEGG..MW..........
  235-  379 (96.56/29.94)	..............GP....MTGVGVGVEPVV....VDREGEEPSLP.....LMSLVLAS.LVEnrttpfGASshlssrS.....QLLPPSPSSQLYPSLLQASISL.IVLHPYPpsvkEGHP....SeS.AYC...QAViwrSFiLSRLPALLCPLPesttVTATTTTNAG.EPTTEAGPFEQA......LTA..........................................................................
  381-  579 (339.49/122.50)	FTDWKSQLDQCNPPPP....VPGVGAGSGAFGS.DGVDEEARPPSFRID..LLRSLTSHS.LLP......PAS......A.....ALICPSYTSADPPLSIEAAENM.LTPQEYI....EDRL....S.S.ASE...DAL...AF.LTRMEGDWAAHP....LLASWFRDRL.ASASESGSLDQL......AAACRLLCA.HRL.ALDLLSLWIPVQELVDLASSFLDTF.....DLETVDDPQSALSLYGEIV..LFC......QYT
  591-  786 (212.55/74.14)	SPAWRTQL.....TPS....LPRLNTDESALLS.KWV.KALFSPNEGIDdpMLRS.TDPA.LLL......RLT......TtvfhqALVARSFDLLD.......SE....TLQNGI....GYFL....S.SlLSWtlvGVI...NY.LTAEVERQAPYS....SL.HW..DVL.QTLVMSESCPRVvlvvtgGAVLRLLGN.GRLrALD........PQGAGVGERATDG......GPGGAGGPGEGLGGLREVVgrLLCldqdrdPFT
  819-  970 (158.12/53.40)	TLDVDAYLSVLRPPEF....VHILWDACVSGASmGAMDGCRIVSSFLLS..GLRSPASPP.LLP......YFL......L.....VFV........PTLLVD.LDRQ.TPPQSTT....LDTLvtiiT.S.ACH.....L...SFqLERSFLKLADGA....LLSLELRSRLqPRVWLNALLDRL..etaqGPASRLL.A.KRL.HLVL...........................................................
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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 MDP31089 with Med5 domain of Kingdom Fungi
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