<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 MDP02343

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMTLAELTRNCFQNGISATKWLSLCKLFISKESSIQSSEEVEHNLSNSVLVLYRTYPGDPDLQKYLRYAVDSGMLSVSTFTSTFLSAARSSELHTAGTLHSLCRISIDAHYASGSTAILSPTEQLSKMMNTIQDGLALLRTAQSLPMAHSAQLTSSASELLMLLLAYISDNVSQIPTRQATVFLSEANELLQTFRLLPDVRQMLETFVLSLSLFIGDEAKAATEAQLLHTLHYAGPFNRGDGIGSSADADIVTFSLILHHLVTYRGHRFGSGSGNDPVALLVSVYRWTSWTPTMFYTQLFVAALTCMSQSLANTLMWKAFIVGRLPRLLSSFQEVFVVDNAKIDWHTAMQAALSAVFLRPDLIVACDLALSRPLNNNEMQEEMPQSFTRDLLLHLLANGLINRSFAEEKDPGISKDSIPRLRSDAQDNGVDFENFIESKLTPDVTVADFGFWMDRIIRDVLSHATLAQVVLKRFASLASNWDVEDFGHLCRILYTYDSALDVVALHIKIADLLFHALSFLEGYDCGIVGDPQTAISHLGDIVLFVQHSLARFHLNNYEFTSERRSISASYFRTIGLVLPHDRFSNEESVAYKVWYKALFDSSSEGIEDSMLRTTKPKTLLRISPTLFIEALRASSLQRIDHEVLSNGVSYFTGPILNWTLVGVVRALIQEIQRKRLYRAPYLETLQSLLLSPSCPRTVLCLCAAQILDLLSDKRRPTSDTNSLNADTIRRAIDDAIGKKTESEINHPAAVRFTNSELIGMAAPVNAAEATEPAKADLHIEEQPRQVVRNALAMARAGRGPVIDVERCLGITPPSKFLDMLWSELVEAASLGETERSRRIATFILIMPRCSSIPPMLPIFIHLIVPMLIGRIDQQQTSEQALPTELLVSIISSALTAALHLEWAVQRVTSEHRTFLGQTSAAMARRLADELRARQSSQVSSAVLQRLAASQTFVANFPVFIGS
Length961
PositionTail
OrganismAmanita muscaria Koide BX008
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Agaricomycotina> Agaricomycetes> Agaricomycetidae> Agaricales> Amanitaceae> Amanita.
Aromaticity0.08
Grand average of hydropathy0.077
Instability index46.82
Isoelectric point5.98
Molecular weight106602.99
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

>MDP02343
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     195.27|      65|     230|     571|     644|       1
---------------------------------------------------------------------------
  571-  644 (90.51/89.63)	RTIGlVLPHDRFSNeesvayKVWyKALFDSSSEGIEDSMLRTTK.....PKTlLRISPTL..FIEALRASSLQRIDHEVLS
  805-  876 (104.75/72.98)	RCLG.ITPPSKFLD......MLW.SELVEAASLGETERSRRIATfilimPRC.SSIPPMLpiFIHLIVPMLIGRIDQQQTS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     172.71|      55|     230|     106|     165|       2
---------------------------------------------------------------------------
  106-  165 (76.68/59.37)	IDAHYAsgSTAILSPTEQLSKMMntIQDGLALLRTAQSLPMAHSAQlTSSASELLMLLLA
  342-  396 (96.03/56.94)	IDWHTA..MQAALSAVFLRPDLI..VACDLALSRPLNNNEMQEEMP.QSFTRDLLLHLLA
---------------------------------------------------------------------------




































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 MDP02343 with Med5 domain of Kingdom Fungi
Unable to open file!