<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 MDP28361

Description Mediator of RNA polymerase II transcription subunit 6
SequenceMAFDPSVNAGPPLDEIQWHTPPQFEAGIHSNSILYYFAQSPFYDKTSNNEVVFQQGLNNQAMSQYLATRELFESRLREMSGLEFIVAQEPAETGPGMGTGVWVINKQTRRKRPPTNPARPEDGPPDEIIVHSVYFVVGENIYMAPTLADVLSSRIGAIATAITKTIPLVDEVSDWAPAVGRRYITPAQPSAGAGAASGTTNYTASRTATPLPDGLPSTATTNKPGAKAGGGTTTNDPLLDSLLMEEALLTHERYGTEYMDENPITGKPGDFHLTSTGRKTQTKSALTLKEAAAALPALNTKGLGAAGSNPLAKGAAAAAAANANAVTGKETKSPKTPGGGGPPKPKRRKSKNVITTPGAA
Length360
PositionHead
OrganismNeurospora tetrasperma (strain FGSC 2509 / P0656)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Sordariomycetidae> Sordariales> Sordariaceae> Neurospora.
Aromaticity0.06
Grand average of hydropathy-0.414
Instability index42.45
Isoelectric point7.84
Molecular weight37808.02
Publications
PubMed=21750257

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. 
ECO:0000256	RuleBase:RU364143
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

>MDP28361
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     313.96|     108|     116|      87|     201|       1
---------------------------------------------------------------------------
   87-  147 (61.21/32.32)	..........................................................AQEPAETGP.GMGTGV..wVINKQTRRKRPP..TNPARP.EDG..PPDEIIVHSVYfvvGENiYM..APTL
  148-  265 (152.22/66.90)	ADVLSSRIGaiATAITKTIPLVDEVSDWAPAVGRRYITPA..QPSAGAGAASGTTNytASRTATPLPdGLPSTA...TTNKPGAKAGGG..TTTNDPlLDSllMEEALLTHERY...GTE.YMdeNPIT
  269-  354 (100.53/38.67)	GDFHLTSTG..RKTQTKSALTLKEAAAALPALNTKGLGAAgsNPLAKGAAAAAAAN..................anaVTGKETKSPKTPggGGPPKP.KRR..KSKNVI....................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.26|      21|      27|      24|      44|       2
---------------------------------------------------------------------------
   24-   44 (37.66/28.62)	FEAGIHSNSILYYFAQSPFYD
   53-   73 (35.60/26.69)	FQQGLNNQAMSQYLATRELFE
---------------------------------------------------------------------------




































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 MDP28361 with Med6 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) GMGTGVWVINKQTRRKRPPTNPARPEDGPP
2) PAQPSAGAGAASGTTNYTASRTATPLPDGLPSTATTNKPGAKAGGGTTTNDPLLDSLLMEE
3) THERYGTEYMDENPITGKPGDFHLTSTGRKTQTKSALTLKEAAAALPALNTKGLGAAGSNPLAKGAAAAAAANANAVTGKETKSPKTPGGGGPPKPKRRKSKNVITTPGAA
96
186
250
125
246
360










Molecular Recognition Features






MoRF SequenceStartStop




1) AAAAAAANANAVTGKETKSPKTPGGGGPPKPKRRKSKNVITTP
2) ILYYFA
315
33
357
38