<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 MDP05421

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMDGRVVAGGALQEALSYWADFVARCIARRLETDRFEAYVTLVHSKHPLPPVAVADFFLRPQPSNRDSLDPRIPPYLQVLTRLGYVDTPSILKALFRYSSSHTQAQAQPQNPTQTEVSDGQNDKDKPAKSPITRWESSYWAEEVIFYSLTKSVVQGRAIPDSRTALDIVKIISKWMALFTSASTAFAADVMEHVQTSKAREDMESARAALVALLLRLCENAILVKTVSKPFAKDVRKELSTNLASFVPTLQLVPNLIEKLELFRTETLANLDPVDKKKQAANTAMDDLLESAVGLDNFVVSDIPISTTRAGLYIYLNASLSARPLVDDNALFSYMNNRYQGDVQSSAIDLILASFDILANAVFRNEGQKDAHLLRSYLINKVPLLLYQLCPPEFSGTSAEFCITQALSHVDTSIFPTASLMFDESRNNNPYTESVREEFCAACVLHGLVQRKHVERILGEMSMSYEPSLEKYSKDKLVQNCLSDTEKIQGLVRELDKMDGNVGAVCQSLIEVLRQLCNSKETMSLKLLCGQLAQKPLSLDVILLFEKLPTILEPLCTLLDNWSDEEDQGEYQPVYEEFGSILLLVLAFAYRYNLTAADMGIQSRDSCVAKILARGHISRQQEELTEQENVHLNGWIHGLFDTEGGGLSDELMSSCPPQDFYLLVAPLFQNIVVAYTHGYLNDESLKGGIEYLVDTFLLPSLVPAIRFLGDYLWVDQKEQKSIIKILQLILLPSSISGEASTMLSSVKNLIAKPLEHALRMYQRRDPKNQDIEPLLRVLKDSIPLSRRTGGADHSELASWTTTPSSGLASAIKHTIQGLTQWSLHPEMNMPTSYTHRQVLVGLQVLGPKRLLYVILEEVRQLSENGSASFVYDVATAIICAPDAIKDSLGNIGILDANGNMPPPMQRPRTLRELLKSAAEECKKIQKKDPALAEVIVRLHRQVEAQMVIPETQVMLQAADMSLNLNSETAALGDAMAAAAGVPGDNMSVDNMGLDMSMAGVPSDLGLGGSVVSAGGLDTSADADMFGEMDVFEWDGMDLN
Length1038
PositionTail
OrganismNeonectria ditissima
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Hypocreales> Nectriaceae> Neonectria.
Aromaticity0.07
Grand average of hydropathy-0.089
Instability index41.92
Isoelectric point5.00
Molecular weight114718.98
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

>MDP05421
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     106.52|      35|      38|     480|     516|       2
---------------------------------------------------------------------------
  482-  516 (58.27/48.56)	S.DTEKIQGLVRELDK..MDGNVGAVCQSLIEVLRQLC
  518-  555 (48.25/30.84)	SkETMSLKLLCGQLAQkpLSLDVILLFEKLPTILEPLC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     181.56|      50|     152|     211|     267|       3
---------------------------------------------------------------------------
  211-  265 (74.33/61.27)	ALLLR.............LCENAILVKTVSKPFAKDVR.KELSTNLASFVPTLQLVPNLIeklelFRTE
  318-  365 (61.73/35.26)	SLSAR............pLVDDNALFSYMNNRYQGDVQsSAIDLILASF....DILANAV.....FRNE
  370-  419 (45.50/24.53)	AHLLRsylinkvplllyqLCPPEF..SGTSAEFC..IT.QALSHVDTSIFPTASL..............
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.18|      12|      18|     972|     983|       5
---------------------------------------------------------------------------
  972-  983 (22.88/14.92)	DAMA...AAAGVPGD
  988- 1002 (19.30/11.37)	DNMGldmSMAGVPSD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     206.46|      66|     700|      50|     141|       7
---------------------------------------------------------------------------
   50-  134 (97.65/79.61)	PVAVA.DFFLRPQPSNRDsldprIPPYLQVLtrlgyvdTPSIlkALFRYS..SSHTQAQAQPQNPtqtevSDGQNDKDKPAKSPITRW
  752-  820 (108.81/47.78)	PLEHAlRMYQRRDPKNQD.....IEPLLRVL.......KDSI..PLSRRTggADHSELASWTTTP.....SSGLASAIKHTIQGLTQW
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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 MDP05421 with Med5 domain of Kingdom Fungi
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