<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 MDP05453

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMVQPTARPPRRLSPAEAAQIPSTSLPIGAQISHLIHDFTDLSLDLFTILSSPSTSSAGTRPTAPIYDQLAAVDDKLARLLVLYDAHQAHQQRVDALVAQLGTLDAAWHASASTLRECTQSLAPVVESGALDRAAILAASRAGPALSPSSLLQYARLLAPFTSAPPSSLYPPEDKLDLRGVGATDPTGRSLPPGAIPPFPTDAVMRRGRLQFGREGLLHGLGETNEVGARREGAEGGAAEQASRPDAAARLEQEAKAHEATRAGAAPFEGGAAGAAGDTDDDEFDFDLDLNPDL
Length293
PositionMiddle
OrganismRhodotorula graminis (strain WP1)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Pucciniomycotina> Microbotryomycetes> Sporidiobolales> Sporidiobolaceae> Rhodotorula.
Aromaticity0.04
Grand average of hydropathy-0.231
Instability index50.30
Isoelectric point4.85
Molecular weight30584.70
Publications
PubMed=26441909

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

>MDP05453
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.26|      12|      31|     234|     245|       1
---------------------------------------------------------------------------
  234-  245 (22.85/11.38)	EGGAAEQASRPD
  268-  279 (22.41/11.03)	EGGAAGAAGDTD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.63|      22|      25|     158|     179|       2
---------------------------------------------------------------------------
  158-  179 (43.30/21.24)	A..PF.TSAPPSSLYP.PEDKLDLRG
  182-  207 (28.33/11.60)	AtdPTgRSLPPGAIPPfPTDAVMRRG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.37|      16|      29|      21|      49|       3
---------------------------------------------------------------------------
   21-   37 (25.97/26.91)	PSTSlPIGAQISHLIHD
   52-   67 (30.40/ 7.49)	PSTS.SAGTRPTAPIYD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.65|      15|     168|      77|      95|       5
---------------------------------------------------------------------------
   72-   88 (21.24/17.77)	VDDklARLLVLYDAHQA
   93-  109 (22.41/ 7.40)	VDAlvAQLGTLDAAWHA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.93|      17|      24|     111|     133|       6
---------------------------------------------------------------------------
  111-  133 (19.52/22.75)	AStlrECTQSLAPvveSGALDRA
  138-  154 (29.41/15.18)	AS...RAGPALSP...SSLLQYA
---------------------------------------------------------------------------




































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 MDP05453 with Med4 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) EGLLHGLGETNEVGARREGAEGGAAEQASRPDAAARLEQEAKAHEATRAGAAPFEGGAAGAAGDTDDDEFDFDLDLNP
2) SLYPPEDKLDLRGVGATDPTGRSLPPGAIPPFPTDAVMRR
214
167
291
206










Molecular Recognition Features






MoRF SequenceStartStop




1) ARLEQEAKAHEATRAGAAPF
2) DDEFDFDLDL
3) YARLL
248
280
153
267
289
157