<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 MDP30025

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMNNLLDNRFEKVEKALATLINSIATYNPSTSNASDLVAADAELNDGLEQLSTHQANYAKIIALRETSNALDAEIRDTLTLLSTTRRDLIATPATSFPPNANPISYSELLSYARRISRFTLPPTYRDPQASAAETGDAATNTSGEPNQQIQTNGINTPVVATNGELHNTAATDLDKASPAAAAQMQPQPSQHEGVRTNLSIWEQYLNPSAEMPFFPWPSEESIRKGALASLQVLVDQGIDPATFDPEKSAELEAERKRIMEEEDAAREQERIKEEEARRREMERRMSAGGPAPERREEKTEAFQFSLMDDSD
Length311
PositionMiddle
OrganismMarssonina brunnea f. sp. multigermtubi (strain MB_m1) (Marssonina leaf spot fungus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Leotiomycetes> Helotiales> Dermateaceae> Marssonina.
Aromaticity0.05
Grand average of hydropathy-0.707
Instability index50.50
Isoelectric point4.64
Molecular weight34349.44
Publications
PubMed=22876864

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

>MDP30025
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     113.18|      27|      27|      60|      86|       1
---------------------------------------------------------------------------
   30-   55 (23.07/ 8.19)	......TSNasdlvAADAELNDGLEQLSTHQA
   60-   86 (44.48/21.11)	IIALRETSN.....ALDAEIRDTLTLLSTTRR
   88-  114 (45.62/21.80)	LIATPATSF.....PPNANPISYSELLSYARR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.20|      20|      21|     255|     275|       2
---------------------------------------------------------------------------
  255-  275 (29.40/16.30)	RKRIMEEEDAA..REQERiKEEE
  277-  298 (30.80/13.59)	RRREMERRMSAggPAPER.REEK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.05|      21|      27|     166|     192|       3
---------------------------------------------------------------------------
  166-  190 (32.18/23.57)	HntaaTDL....DKASPAAAAQMQPQPSQ
  195-  219 (35.87/13.08)	R....TNLsiweQYLNPSAEMPFFPWPSE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.05|      15|      19|     128|     144|       4
---------------------------------------------------------------------------
  128-  144 (20.80/22.74)	QASAAETGDAATNtsGE
  150-  164 (27.26/20.96)	QTNGINTPVVATN..GE
---------------------------------------------------------------------------




































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 MDP30025 with Med4 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) LVDQGIDPATFDPEKSAELEAERKRIMEEEDAAREQERIKEEEARRREMERRMSAGGPAPERREEKTEAFQFSLMDDSD
2) PTYRDPQASAAETGDAATNTSGEPNQQIQTNGINTPVVATNGELHNTAATDLDKASPAAAAQMQPQPSQHEGVRTNLSIWE
233
122
311
202










Molecular Recognition Features






MoRF SequenceStartStop




1) EEEARRREMERRMSAGGPAPERREEKTEAFQFSLMDDSD
2) ISYSELLSY
3) IWEQYL
273
103
200
311
111
205