<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 MDP28074

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMDTFIDGRFERLEKALAGLIDSVTKYHPSMIQAEELVAADAELAKGLEQEISLTFCTTVQAHQNNYVRILELRQASASLDTQIRDTLTSLANARRDIVNTPTTKFPSGPNYPIAYSELLSYARRISKMTMPPAATINASVAPSGLQSPTAGESSQAVTPAATTPAAGATPATSTPLPTQSPAALNGVGGAHGAGAQQSQQVQGSSSGPSLLTSLPEPMTQWLNPLSGQVFFPWPQEDKIRSGSLAANQILVEAGINPRGYDPVAEEERKKKEEAERKEREEQEAREQEERDRILREERERVRQERERQREKEQEEWRRASVAAGTADAPGSALPKGPEKKQFQFTNLDDLDDDDDDD
Length357
PositionMiddle
OrganismCordyceps militaris (strain CM01) (Caterpillar fungus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Hypocreales> Cordycipitaceae> Cordyceps.
Aromaticity0.05
Grand average of hydropathy-0.738
Instability index54.63
Isoelectric point4.85
Molecular weight39052.70
Publications
PubMed=22112802

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

>MDP28074
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     106.91|      25|      25|     132|     156|       1
---------------------------------------------------------------------------
  110-  129 (24.72/10.29)	.....NYPIAYSELLSYARRISKMT
  132-  156 (41.39/21.67)	PAATINASVAPSGLQSPTAGESSQA
  159-  183 (40.79/21.26)	PAATTPAAGATPATSTPLPTQSPAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.98|      20|      25|     273|     292|       2
---------------------------------------------------------------------------
  273-  292 (34.76/18.87)	EAERKEREEQEAREQEERDR
  299-  318 (37.22/20.66)	ERVRQERERQREKEQEEWRR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.83|      26|      36|     189|     224|       3
---------------------------------------------------------------------------
  184-  211 (39.67/40.48)	LNGvgGAHGAGAQQSQQVQ.GSSSGPSLL
  222-  250 (38.17/16.25)	LNPlsGQVFFPWPQEDKIRsGSLAANQIL
---------------------------------------------------------------------------




































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 MDP28074 with Med4 domain of Kingdom Fungi
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