<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 MDP27502

Description Mediator of RNA polymerase II transcription subunit 6
SequenceMAFDPAANAGPPLDEIQWHTPPQFEGGLHSNSILYYFAQSPFYDKTSNNEVVFQQGLNNQAMSQYLATRELFESRLREMSGLEFIVAQEPAETGPGMGTGVWVINKQTRRKRPPTNPVRPEDGPPDEIIVHSTYFVVGENIYMAPTLADVISSRIGAIASAITKTLPLVDEVSDWAPAVGRRYITPAQPSTGAGSTTNYAASRTATPLPEGLPSTTTTNKPGATRTGGTTNDPLLDSLLMEEALLTHERYGTEYMDENPITGKPGDFHLTSTGRKAPQNNNKNGGGGGGALTLKEAAAALPALNTKGLGAAGSNPLAKGAAAAAAANAVVGKETKSPKTPGAGGPPKPKRRKSKNVVTTPSAA
Length363
PositionHead
OrganismSordaria macrospora (strain ATCC MYA-333 / DSM 997 / K(L3346) / K-hell)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Sordariomycetidae> Sordariales> Sordariaceae> Sordaria.
Aromaticity0.06
Grand average of hydropathy-0.464
Instability index47.29
Isoelectric point7.85
Molecular weight38132.27
Publications
PubMed=20386741

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

>MDP27502
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     152.92|      51|      54|     209|     262|       1
---------------------------------------------------------------------------
  205-  259 (81.71/43.58)	ATPlPEGLPSTTTTNK.P.GATRTGGTTNDPLldsLLME..EALLTHERYGTEYMDENP
  260-  315 (71.21/32.16)	ITGkPGDFHLTSTGRKaPqNNNKNGGGGGGAL...TLKEaaAALPALNTKGLGAAGSNP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.78|      19|      19|     149|     167|       2
---------------------------------------------------------------------------
  149-  167 (30.51/19.40)	DVISSRIGAIA.SAITKTLP
  170-  189 (31.27/20.05)	DEVSDWAPAVGrRYITPAQP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      36.02|       9|     110|      10|      19|       3
---------------------------------------------------------------------------
   10-   19 (17.08/13.04)	GPPlDEIQWH
  123-  131 (18.94/ 9.66)	GPP.DEIIVH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.28|      19|     225|     103|     121|       4
---------------------------------------------------------------------------
  103-  121 (34.93/15.04)	VINKQTRRKRPP..TNPVRPE
  329-  349 (30.35/12.26)	VVGKETKSPKTPgaGGPPKPK
---------------------------------------------------------------------------




































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 MDP27502 with Med6 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) GMGTGVWVINKQTRRKRPPTNPVRPEDGPP
2) THERYGTEYMDENPITGKPGDFHLTSTGRKAPQNNNKNGGGGGGALTLKEAAAALPALNTKGLGAAGSNPLAKGAAAAAAANAVVGKETKSPKTPGAGGPPKPKRRKSKNVVTTPSAA
3) VGRRYITPAQPSTGAGSTTNYAASRTATPLPEGLPSTTTTNKPGATRTGGTTNDPLLDSLLMEE
96
246
179
125
363
242










Molecular Recognition Features






MoRF SequenceStartStop




1) AAAAAAANAVVGKETKSPKTPGAGGPPKPKRRKSKNVVT
2) EAAAALPA
3) ILYYFA
320
295
33
358
302
38