<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 MDP28744

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMDTYIDTRFERLEKALANLIDSVTKYHPSTVQAEELKTADDELCKGLEEVQTHQNNHLKIQQLRQLSTSLDTQIRETLTSLATTRKDIVTTQVTVYPSEPNYPIVYEELLSYARRISKTSMPPSAILNALASTTQESQTPLPDSQTQAGMTPSAQTPNPTQSPAPVNGVLPSGLPDQSQTSQLTSLPENMSQFLNPLSGQLFFPWPLEDKIRSGALASNQILLEQGIDPKGYDPVAEEERKRKEEEERKEKEEKEKLERAERERERREELERLRKEDLLRREKEQAAFRRASTAAGISGDAAVNAPPSARPEKKQFQFTNLDDLDDDDDED
Length331
PositionMiddle
OrganismHypocrea atroviridis (strain ATCC 20476 / IMI 206040) (Trichoderma atroviride)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Hypocreales> Hypocreaceae> Trichoderma.
Aromaticity0.05
Grand average of hydropathy-0.929
Instability index53.70
Isoelectric point4.81
Molecular weight37407.02
Publications
PubMed=21501500

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. 
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

>MDP28744
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     104.94|      29|      30|     118|     147|       1
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  118-  143 (42.69/22.96)	.....K.TSM...PP..SAILNALASTTQESQTP..........LPD
  145-  176 (23.65/10.90)	QTQ.......agmTP..S......AQTPNPTQSPapvngvlpsgLPD
  177-  209 (38.61/17.23)	QSQtsQlTSL...PEnmSQFLNPL.SGQLFFPWP..........LED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.42|      15|      29|     237|     253|       2
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  239-  253 (26.47/14.17)	ERKRKEEEERKEKEE
  271-  285 (25.96/ 8.43)	ERLRKEDLLRREKEQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.26|      28|      28|      27|      54|       3
---------------------------------------------------------------------------
   27-   54 (47.43/27.77)	HPSTVQAEELKTA.DDELCKGLEEVQTHQ
   57-   85 (38.83/21.58)	HLKIQQLRQLSTSlDTQIRETLTSLATTR
---------------------------------------------------------------------------




































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 MDP28744 with Med4 domain of Kingdom Fungi
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