<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 MDP13724

Description Mediator of RNA polymerase II transcription subunit 6
SequenceMSSNLTEQELTTVCFRDPQWLALNPLLIENVIEYFSYSQFYDKTCNNETIKMQSRFNQFDLAEMNKGLHDMTGIEYEVTLSMPPQLFVIAKQNRKSPTSASPIQYYYVINGTIYQAPNAYMLFANRIITSLHLINISFKEAFKSVRFDPDKGYWWSTDEKTDKEMINEIEEIENTNISYINQQESRIYQMRIDDRIAESVSKPIEIEEKVEEEKIKKTKPTALEDKLIVKEKKHSTSSVSSYGHSSKRRKKLNSTSSENMNSLSSKSGSYSSLNSSSISKSIKHETNGNISHHK
Length294
PositionHead
OrganismPiromyces finnis
KingdomFungi
LineageEukaryota> Fungi> Fungi incertae sedis> Chytridiomycota> Chytridiomycota incertae sedis> Neocallimastigomycetes> Neocallimastigales> Neocallimastigaceae> Piromyces.
Aromaticity0.09
Grand average of hydropathy-0.711
Instability index54.11
Isoelectric point6.68
Molecular weight33969.84
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:RU364143

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

>MDP13724
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.39|      16|      16|     232|     247|       1
---------------------------------------------------------------------------
  232-  247 (29.53/18.73)	KK.HSTSSVSSYGHSSK
  250-  266 (23.86/13.67)	KKlNSTSSENMNSLSSK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.48|      25|      27|      50|      76|       2
---------------------------------------------------------------------------
   50-   76 (39.89/29.33)	IKMQSRFnqFDLAEMN.KGLHDMTGIEY
   80-  105 (39.59/22.92)	LSMPPQL..FVIAKQNrKSPTSASPIQY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      33.16|      11|      16|     202|     212|       3
---------------------------------------------------------------------------
  202-  212 (18.99/11.80)	KPIEIEEK..VEE
  219-  231 (14.17/ 7.29)	KPTALEDKliVKE
---------------------------------------------------------------------------




































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 MDP13724 with Med6 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) HSTSSVSSYGHSSKRRKKLNSTSSENMNSLSSKSGSYSSLNSSSISKSIKHETNGNISHHK
234
294










Molecular Recognition Features






MoRF SequenceStartStop




1) IQYYYV
2) KRRKKL
103
247
108
252