<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 MDP28367

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMDKYLDSRFERVEKALATFIDSIAKYNPSEKLAEDLVAADRELAAGLKELERHQNNHARILQLRQETASLDQQTKDIIGGLWNMRKEVKSTPATQYPATGPKYQFTTHELLNYAKRISRTTLPPAHLLYNSEPSESQQAGGQGGQPMEVDSAAQTPMPGLGGGTATAAGTPAASAAPTPAASGPSGPGPVTTSTAPFSQPPPPPSANQTALPEDFKPHINLLTGYQFHPWPTEDKVRMGGMAAYQSLVSRAVDPKGYDPEEEERRKKEEEEARKEAEERAIREREEEERRMREERERMARERERARREEAERSGSISGPAAGAPAAAASSAGGGGRSQFTFLDGMDDDDDDDED
Length354
PositionMiddle
OrganismNeurospora tetrasperma (strain FGSC 2509 / P0656)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Sordariomycetidae> Sordariales> Sordariaceae> Neurospora.
Aromaticity0.05
Grand average of hydropathy-0.962
Instability index62.23
Isoelectric point5.03
Molecular weight38688.09
Publications
PubMed=21750257

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

>MDP28367
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.59|      16|      16|     269|     284|       1
---------------------------------------------------------------------------
  269-  284 (27.15/11.49)	EEEAR.KEAEERAIRER
  286-  302 (24.44/ 9.71)	EEERRmREERERMARER
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.64|      16|      16|     169|     184|       2
---------------------------------------------------------------------------
  169-  184 (30.00/13.31)	GTPAASAAP......TPAASGP
  188-  209 (21.64/ 7.76)	GPVTTSTAPfsqpppPPSANQT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.88|      14|      16|     212|     226|       3
---------------------------------------------------------------------------
  212-  226 (22.96/20.32)	P.EDfKPHINLLTGYQ
  231-  245 (21.93/13.33)	PtED.KVRMGGMAAYQ
---------------------------------------------------------------------------




































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 MDP28367 with Med4 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) LPPAHLLYNSEPSESQQAGGQGGQPMEVDSAAQTPMPGLGGGTATAAGTPAASAAPTPAASGPSGPGPVTTSTAPFSQPPPPPSANQTALPEDFKPHINLLTGYQFHPWPTEDKVRMGGMAAYQSLVSRAVDPKGYDPEEEERRKKEEEEARKEAEERAIREREEEERRMREERERMARERERARREEAERSGSISGPAAGAPAAAASSAGGGGRSQFTFLDGMDDDDDDDED
122
354










Molecular Recognition Features






MoRF SequenceStartStop




1) ERSGSISGPAAGAPAAAA
2) GRSQFTFLDGMDDDDDDDE
311
335
328
353