<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 MDP23274

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMPQMGGSIREEVEVALHEHRFLVTKLLESLNTASLPPSTITAMRLRTVNETFNKVLEKDRDLLTAVKKLARHQVAQKELLRIEKEVENKKQKVVQYAAQLRRSQEDIANVLRKHRVVLQNAKQKSKVVLNPLDIVAYAHRIAGTTSAPKEWQPGFPMFGFMPPAPQEHMMRAGVLSRGIVAEIVTQGPEKYTSTAARVKQEGDGGEALEKLDIPIGLGASDAQIRKQMPPGWKPGDPVDLPLDALLHYMGRSFFAEHGITLPESWKTGDPLPPDAMEILRKKFKLPEKRAPLYDDEVVDDVESLRKKRKLEENEKAEEGTAESESSSDSSDSDEEAPNTISLSLSSSSEDESDEDSD
Length357
PositionMiddle
OrganismPhytophthora kernoviae
KingdomOomycetes
LineageEukaryota> Sar> Stramenopiles> Oomycota> Peronosporales> Peronosporaceae> Phytophthora.
Aromaticity0.04
Grand average of hydropathy-0.632
Instability index55.46
Isoelectric point5.49
Molecular weight39804.65
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

>MDP23274
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      66.74|      21|      24|     274|     296|       1
---------------------------------------------------------------------------
  243-  268 (18.31/ 6.18)	.....DAlLHYMGRSFfaehgiTLPESWKTG
  269-  292 (32.90/13.52)	DPlppDA.MEILRKKF......KLPEKRAPL
  295-  312 (15.53/ 8.01)	DE.vvDD.VESLRKKR......KLEE.....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.67|      13|      24|     323|     335|       2
---------------------------------------------------------------------------
  323-  335 (22.67/11.75)	SESSSDSSDSDEE
  345-  357 (22.99/12.00)	SSSSEDESDEDSD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.91|      19|      24|      78|      99|       4
---------------------------------------------------------------------------
   81-   99 (31.45/28.43)	RIEKEVEN..KKQKVV.QYAAQ
  102-  123 (23.47/10.94)	RSQEDIANvlRKHRVVlQNAKQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.54|      20|      24|     196|     215|       5
---------------------------------------------------------------------------
  196-  215 (33.53/17.84)	ARV.KQEGDGGEALEKLDIPI
  222-  242 (35.01/18.92)	AQIrKQMPPGWKPGDPVDLPL
---------------------------------------------------------------------------




































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 MDP23274 with Med4 domain of Kingdom Oomycetes


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) DVESLRKKRKLEENEKAEEGTAESESSSDSSDSDEEAPNTISLSLSSSSEDESDEDSD
300
357










Molecular Recognition Features






MoRF SequenceStartStop




1) AMEILRKKFKLPEK
2) LRKKRKLEE
3) SDEEAPNTISLSLSSSSEDESDED
275
304
332
288
312
355