<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 MDP17819

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMDKYIDGRFERLEKALANLIDSVTKYHPSIQQGEELNLADQELSRGLEEVQTHQNNYLRIQQLRESSNALDTQIRDTLSNLATTRKDIVTTQTTTFPSGPSYPIAYEELLNYARRISKTTMPPAGTIKAVPPTPDVPEVQTPGGQTPAAQTPGPESQAASVMTPSAPPSSQVQSPAIMNGTPAVSQEPATQQSSMSANTVLPSEWTQFLNPLTDQVFLPWPNDLQLGAGSLAANQLLQEQGIDPKGYDPAEEEERKRREEEERKQKEEEDRIAQEEREKKQREERERQRIERERQREKEQEAWRRASLVGAPAAPGEQRSPTGPPQQKAQFQFTNLDDLDDDDDDD
Length346
PositionMiddle
OrganismGibberella nygamai (Bean root rot disease fungus) (Fusarium nygamai)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Hypocreales> Nectriaceae> Fusarium> Fusarium fujikuroi species complex.
Aromaticity0.05
Grand average of hydropathy-1.068
Instability index65.57
Isoelectric point4.67
Molecular weight38856.17
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:RU366036

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
>MDP17819
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.18|      14|      15|     258|     271|       1
---------------------------------------------------------------------------
  258-  271 (24.42/11.07)	REEEERKQKEEEDR
  274-  287 (24.77/11.32)	QEEREKKQREERER
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      76.71|      15|      16|     133|     147|       2
---------------------------------------------------------------------------
  133-  147 (30.36/15.39)	TPDVPEVQTPG...GQTP
  151-  164 (24.72/11.28)	TPG.PESQAAS...VMTP
  166-  182 (21.63/ 9.03)	APPSSQVQSPAimnG.TP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      83.31|      27|      28|      30|      56|       3
---------------------------------------------------------------------------
   30-   56 (44.57/25.93)	IQQ.GEELNLADQELSRGLEEVQTHQNN
   60-   87 (38.75/21.76)	IQQlRESSNALDTQIRDTLSNLATTRKD
---------------------------------------------------------------------------




































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 MDP17819 with Med4 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) IQQGEELNLADQELSRGLEEVQTHQNNYLRIQQLRES
2) NALDTQIRDTLSNLATTRKDIVTTQTTTFPSGPSY
3) NPLTDQVFLPWPNDLQLGAGSLAANQLLQEQGIDPKGYDPAEEEERKRREEEERKQKEEEDRIAQEEREKKQREERERQRIERERQREKEQEAWRRASLVGAPAAPGEQRSPTGPPQQKAQFQFTNLDDLDDDDDDD
4) TMPPAGTIKAVPPTPDVPEVQTPGGQTPAAQTPGPESQAASVMTPSAPPSSQVQSPAIMNGTPAVSQEPATQQSSMSANTVLPSEWTQF
30
68
210
120
66
102
346
208










Molecular Recognition Features






MoRF SequenceStartStop




1) EAWRRASLVGAPAA
2) PIAYEELLNY
3) QQKAQFQFTNLDDLDD
301
103
326
314
112
341