<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 MDP27501

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMDKYLDTRFERVEKALATFIDSIAKYNPSEKLAEDLVAADRELAAGLKELERHQNNHARILQLRQETASLDQQTKDIIGGLWNMRKEVKTTPATNYPATGPKYKFTTHELLNYAKRITASAAPTPAASGPVTTTTTAPFSQPPPAPSANQTALPDDFKPHINLLTGYQFHPWPTEDKVRMGSMAAYQSLISRAVDPRGYDPEEEERRKKEEEEARKEAEERAIREREEEERKMREERERMARERERIRREEAERSGSISGPAGGAGGAPAAAPSAGGGGRSQFTFLDGMDDDDDDDED
Length298
PositionMiddle
OrganismSordaria macrospora (strain ATCC MYA-333 / DSM 997 / K(L3346) / K-hell)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Sordariomycetidae> Sordariales> Sordariaceae> Sordaria.
Aromaticity0.06
Grand average of hydropathy-1.025
Instability index57.75
Isoelectric point5.15
Molecular weight33347.43
Publications
PubMed=20386741

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

>MDP27501
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      94.64|      29|      31|     192|     221|       1
---------------------------------------------------------------------------
  192-  221 (45.35/23.04)	RAVDPRGYdPEEEERRKKEEEEARKEAEER
  226-  254 (49.29/21.64)	REEEERKM.REERERMARERERIRREEAER
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.69|      21|      26|      83|     107|       2
---------------------------------------------------------------------------
   83-  107 (33.59/29.19)	NMRKEVKT....TPAtnypATGPKYKFTT
  112-  136 (32.10/17.42)	NYAKRITAsaapTPA....ASGPVTTTTT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.04|      15|      17|     154|     168|       3
---------------------------------------------------------------------------
  154-  168 (28.24/20.67)	PDDFKPHINLLTGYQ
  173-  187 (26.80/19.26)	PTEDKVRMGSMAAYQ
---------------------------------------------------------------------------




































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 MDP27501 with Med4 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) NLLTGYQFHPWPTEDKVRMGSMAAYQSLISRAVDPRGYDPEEEERRKKEEEEARKEAEERAIREREEEERKMREERERMARERERIRREEAERSGSISGPAGGAGGAPAAAPSAGGGGRSQFTFLDGMDDDDDDDED
2) RITASAAPTPAASGPVTTTTTAPFSQPPPAPSANQTALPDDFKPH
162
116
298
160










Molecular Recognition Features






MoRF SequenceStartStop




1) GAPAAAPSA
2) GGGRSQFTFLDGMDDDDDDDED
3) RERIRREEAERSGSISGPA
267
277
244
275
298
262