<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 MDP06808

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMDKYIDNRFERLEKALSNLIDSVTKYHPSIAQAQELKAADDDLTSGLEEVQIHQNNHLRILQLRQSSAALDSQIRETLTSLAATRKDIVTTHTTDYPALPNYAIRYEELLSYARRISKTTLPPAATISAAADVAAATGASPTPDAQTPAPDSQPQSAVTPSAGTPSRLQSPVTNGPSQPQTQQTMTSTNTTLPEGMSQYLNPLSGQLFFPWPLEEKIRSGALASNQILAEQGIDPKGYDPVTEEERKRSEEEERKAKEEQENREREVREKQMREEREKLRLERERQREREQEAWRRASVIGQARSDGTSLARPKAGAGEKKQFQFTNLDDLDDDDDDEEN
Length340
PositionMiddle
OrganismDrechmeria coniospora
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Hypocreales> Ophiocordycipitaceae> Drechmeria.
Aromaticity0.04
Grand average of hydropathy-0.995
Instability index58.70
Isoelectric point4.95
Molecular weight38129.47
Publications
PubMed=26975455

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:RU364141
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

>MDP06808
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.63|      21|      29|     245|     273|       1
---------------------------------------------------------------------------
  245-  265 (34.87/26.36)	ERKRSE.EEERKAKEEQENRER
  275-  296 (32.76/10.74)	EREKLRlERERQREREQEAWRR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      73.04|      19|      22|     141|     159|       2
---------------------------------------------------------------------------
  122-  141 (18.13/ 6.29)	.PP.AATisAAAD..VAAATGASP
  142-  160 (36.75/19.65)	TPD.AQT..PAPD..SQPQSAVTP
  164-  184 (18.16/ 6.30)	TPSrLQS..PVTNgpSQPQTQQT.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.40|      16|      29|      74|      94|       3
---------------------------------------------------------------------------
   74-   94 (18.03/25.06)	IR.ETLTSLAatRKdivTTHTT
  104-  120 (23.36/13.71)	IRyEELLSYA..RR...ISKTT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.03|      13|      29|      27|      39|       4
---------------------------------------------------------------------------
   27-   39 (21.78/15.33)	HPSIAQAQELKAA
   57-   69 (21.24/14.76)	HLRILQLRQSSAA
---------------------------------------------------------------------------




































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 MDP06808 with Med4 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) EQEAWRRASVIGQARSDGTSLARPKAGAGEKKQFQFTNLDDLDDDDDDEEN
2) ISAAADVAAATGASPTPDAQTPAPDSQPQSAVTPSAGTPSRLQSPVTNGPSQPQTQQTMTSTNTTLPEGMSQYLNPLSG
3) SGALASNQILAEQGIDPKGYDPVTEEERKRSEEEERKAKEEQENREREVREKQMREEREKLRLERERQRE
290
127
219
340
205
288










Molecular Recognition Features






MoRF SequenceStartStop




1) AWRRASVIGQARSDGTSLARPKAGAGEKKQFQFTNLDDLDDDDDDEE
293
339