<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 MDP17725

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMDAIIDKRFERVEKALATLITSISTYNPAPALANDLVAADAELSQGLEQLSTHQSNYSKILALRVTSSELDAQIRETLSLLTKTRSELIATPSTTYPPSTNPVSYSELLAYARRISKFTLPPNYREPEAQTEQADGGPNTPKESKSETQTNGTTTPVAATNGVDSQTHLPTAMEIDGATPAATQTQPSQTSTAKTNTAMWSQFLGPADAQFVPWPSEETIRRGALASIQILVDQGVDPSTFDPEKSAELEAERKRVEEEQERLREQERARLEEERRREMERRMSVSGAVPERREEQPKVFQLETFDDDEDDD
Length312
PositionMiddle
OrganismHyaloscypha variabilis F
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Leotiomycetes> Helotiales> Hyaloscyphaceae> Hyaloscypha> Hyaloscypha variabilis.
Aromaticity0.05
Grand average of hydropathy-0.779
Instability index57.21
Isoelectric point4.65
Molecular weight34657.76
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. 


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

>MDP17725
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     152.24|      26|      28|     180|     205|       1
---------------------------------------------------------------------------
   92-  110 (31.70/13.51)	PSTTY...PPS......TNPVSYS.ELLA
  138-  157 (24.44/ 8.92)	PNTPK..ESKSETQTNGTTTPV.......
  158-  179 (26.49/10.22)	.AATN..GVDSQ..T.HLPTAMEI.DGAT
  180-  205 (46.80/23.06)	PAATQ..TQPSQTSTAKTNTAMWS.QFLG
  206-  231 (22.83/ 7.90)	PADAQfvPWPSE.ETIR.RGALASiQIL.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.51|      17|      28|      16|      43|       2
---------------------------------------------------------------------------
   16-   32 (28.86/36.40)	LATLITSISTYNPAPAL
   47-   63 (28.65/11.56)	LEQLSTHQSNYSKILAL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.73|      29|      29|     244|     272|       3
---------------------------------------------------------------------------
  244-  272 (44.65/30.09)	EKSAELEAERKRVEEEQERLREQERA.RLE
  274-  303 (44.08/29.61)	ERRREMERRMSVSGAVPERREEQPKVfQLE
---------------------------------------------------------------------------




































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 MDP17725 with Med4 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) RGALASIQILVDQGVDPSTFDPEKSAELEAERKRVEEEQERLREQERARLEEERRREMERRMSVSGAVPERREEQPKVFQLETFDDDEDDD
2) TLPPNYREPEAQTEQADGGPNTPKESKSETQTNGTTTPVAATNGVDSQTHLPTAMEIDGATPAATQTQPSQTSTAKTNTAMWSQFLGPADAQFVPWPSEETI
222
119
312
220










Molecular Recognition Features






MoRF SequenceStartStop




1) AVPERREEQPKVFQLETFDDDEDDD
2) VSYSELLAYARRIS
288
103
312
116