<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 MDP31908

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMDKYIDGRFERVEKALANLIDSVTKYHPSIQQGEELNAADQELSRGLKEVQTHQNNYLRIQQLRESSNALDTQIRDTLSNLATTRKDIVTTQTTTFPSGPSYPIAYEELLNYARRISKTTMPPTGTIKAVPPTPDVPEVQTPGGQTPAAQTPGPESQAASVMTPSAPPSSQVQSPAVMNGTPVVSQEPATQQSSMSANTVLPSEWTQFLNPLTDQIFLPWPNDLQLGAGSLAANQLLQEQGIDPKGYDPAEEEERKRREEEERKQKEEEDRIAQEEREKKQREERERQRIERERQREKEQEAWRRASLVGGPAAPGEQRSPTGPPQQKAQFQFTNLDDLDDDDDDD
Length346
PositionMiddle
OrganismFusarium oxysporum f. sp. cubense (strain race 1) (Panama disease fungus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Hypocreales> Nectriaceae> Fusarium> Fusarium oxysporum species complex.
Aromaticity0.05
Grand average of hydropathy-1.081
Instability index63.85
Isoelectric point4.72
Molecular weight38843.18
Publications
PubMed=24743270

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

>MDP31908
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.18|      14|      15|     258|     271|       1
---------------------------------------------------------------------------
  258-  271 (24.42/11.35)	REEEERKQKEEEDR
  274-  287 (24.77/11.60)	QEEREKKQREERER
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.38|      23|      28|      76|     103|       2
---------------------------------------------------------------------------
   76-  103 (32.97/30.09)	DTLSNLAttRKdivTTQTTTFPSG.....PSYP
  107-  134 (38.41/20.73)	EELLNYA..RR...ISKTTMPPTGtikavPPTP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.29|      13|      15|     152|     164|       3
---------------------------------------------------------------------------
  152-  164 (24.61/10.03)	PGPESQAASVM..TP
  168-  182 (18.68/ 6.21)	PSSQVQSPAVMngTP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.79|      14|      28|      30|      43|       4
---------------------------------------------------------------------------
   30-   43 (24.06/12.17)	IQQ.GEELNAADQEL
   60-   74 (19.73/ 8.94)	IQQlRESSNALDTQI
---------------------------------------------------------------------------




































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 MDP31908 with Med4 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) ARRISKTTMPPTGTIKAVPPTPDVPEVQTPGGQTPAAQTPGPESQAASVMTPSAPPSSQVQSPAVMNGTPVVSQEPATQQSSMSANTVLPSEWTQF
2) NALDTQIRDTLSNLATTRKDIVTTQTTTFPSGPSY
3) NPLTDQIFLPWPNDLQLGAGSLAANQLLQEQGIDPKGYDPAEEEERKRREEEERKQKEEEDRIAQEEREKKQREERERQRIERERQREKEQEAWRRASLVGGPAAPGEQRSPTGPPQQKAQFQFTNLDDLDDDDDDD
113
68
210
208
102
346










Molecular Recognition Features






MoRF SequenceStartStop




1) AYEELL
2) EQEAWRRASLVGGPAA
3) PQQKAQFQFTNLDDLDDD
105
299
325
110
314
342