<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 MDP00018

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMDKIIDARFERVEKALAVLIESVSKYHPHAKQALDLREADHDLTKGLDEGKLTSDTSSLGDQANPTIAVQIHQNNNLRLQQLRATTASLDTQIRETLSSLATTRKDITTTQITVHPDGPNYPVKYDELLNYARRISKTTLPPAALTNGGLTTGGGSPGPDLNASMTTNPNTPGANGLQSQPVSAAPTPSQSQTPGPSGAANGSPVGGSQDLLQGTQQTTATSLPDGLRNHLNPHFNATFVPWPSEGMIRSGAMAMYQNLADSGTDPRGYDPQQIAEAKRKEEEERKVREEQEKAEIERKNREYAEKMEKIRREQQEAYRRDSVAAGAGGGASSAGKSKQFQFTSLMDDDDDDE
Length353
PositionMiddle
OrganismColletotrichum fioriniae PJ7
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Glomerellales> Glomerellaceae> Colletotrichum> Colletotrichum acutatum species complex.
Aromaticity0.04
Grand average of hydropathy-0.859
Instability index50.41
Isoelectric point5.33
Molecular weight38235.62
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

>MDP00018
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     169.94|      41|      45|     116|     157|       1
---------------------------------------------------------------------------
   99-  141 (59.62/35.91)	SLATTRKDITTTQITVhPD.......GPNYPvKYDELLNYARRISKTTLP
  142-  188 (57.36/30.52)	PAALTNGGLTTGGGSPgPDlnasmttNPNTP.GANGL..QSQPVSAAPTP
  189-  224 (52.95/27.61)	SQSQTPGPSGAANGSP.........vGGS.....QDLLQGTQQTTATSLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.52|      17|      20|     275|     294|       2
---------------------------------------------------------------------------
  278-  294 (28.64/28.36)	KRKEEE..ER..KVREEQEKA
  297-  317 (19.88/ 8.35)	ERKNREyaEKmeKIRREQQEA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.64|      17|      28|      51|      67|       4
---------------------------------------------------------------------------
   51-   67 (28.48/15.39)	KLTSDTSSLGDQANPTI
   81-   97 (27.16/14.39)	QLRATTASLDTQIRETL
---------------------------------------------------------------------------




































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 MDP00018 with Med4 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) RKDITTTQITVHPDGPNYPVKYDELLNYARRISKTTLPPAALTNGGLTTGGGSPGPDLNASMTTNPNTPGANGLQSQPVSAAPTPSQSQTPGPSGAANGSPVGGSQDLLQGTQQTTATSLPDGLRNHLNPHFNATFVPWPSEGMIRSGAMAMYQNLADSGTDPRGYDPQQIAEAKRKEEEERKVREEQEKAEIERKNREYAEKMEKIRREQQEAYRRDSVAAGAGGGASSAGKSKQFQFTSLMDDDDDDE
2) TKGLDEGKLTSDTSSLGDQANPTIAVQIHQNN
104
44
353
75










Molecular Recognition Features






MoRF SequenceStartStop




1) EQQEAYRRDSVAAGA
2) SAGKSKQFQFTSLMDDDDDDE
313
333
327
353