<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 MDP26079

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMGGSIREEMEVALHEHRFLVTKLLESLNTASLPPSTITATRLRTVNETFNKVLEKDRDLLTAVKKLARHQVAQKELLRIEAEIENKKQKVVQYAAQLRCSQEDIADVLRKHRVTLQNAKQKSKVVLDPRDIVAYAHRIAGTTSAPKEWQPGFPMFGFMPPAPQEHMMRAGVLSRGIVAEIVTQGPEKYTSTAARVSKEGDGDAMEKLNIPIGLGASDAQIRKQMPPGWKPGDPVDLPLDALLHYMGRNFFTEHGITLPESWKTGDPLPPDAMEILRKKFKLPEKRAALYDDEVVDDVESLRKKRKLEEGDKADEGTAESDSSSDSSDSDEEAPNTISLSLSSSEDESDDDSD
Length352
PositionMiddle
OrganismPhytophthora infestans (strain T30-4) (Potato late blight fungus)
KingdomOomycetes
LineageEukaryota> Sar> Stramenopiles> Oomycota> Peronosporales> Peronosporaceae> Phytophthora.
Aromaticity0.05
Grand average of hydropathy-0.637
Instability index48.43
Isoelectric point5.32
Molecular weight39136.75
Publications
PubMed=19741609

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

>MDP26079
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.48|      20|      23|     270|     292|       1
---------------------------------------------------------------------------
  270-  292 (30.56/25.92)	DAMEILRKKFKLPEKRAAlydDE
  295-  314 (34.92/20.72)	DDVESLRKKRKLEEGDKA...DE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.42|      25|      70|      51|      75|       2
---------------------------------------------------------------------------
   51-   75 (38.76/23.30)	KVLEKDRDLLTAVKKLARHQVAQKE
  123-  147 (39.66/23.97)	KVVLDPRDIVAYAHRIAGTTSAPKE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.87|      13|      19|     319|     331|       3
---------------------------------------------------------------------------
  319-  331 (23.58/13.11)	SDSSS.DSSDSDEE
  339-  352 (19.29/ 9.57)	SLSSSeDESDDDSD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.87|      12|      30|     224|     237|       5
---------------------------------------------------------------------------
  224-  237 (24.99/17.79)	MPPGWKPGDPvdLP
  257-  268 (26.88/13.22)	LPESWKTGDP..LP
---------------------------------------------------------------------------




































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 MDP26079 with Med4 domain of Kingdom Oomycetes


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) VESLRKKRKLEEGDKADEGTAESDSSSDSSDSDEEAPNTISLSLSSSEDESDDDSD
297
352










Molecular Recognition Features






MoRF SequenceStartStop




1) DSDEEAPNTISLSLSSSEDESDDD
2) LRKKRKLEE
3) MEILRKKFKLP
327
300
272
350
308
282