<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 MDP29561

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMPSATSAGASTSKSESTTSALVLSTLSAYSDLTKQLFSAIENPSSLQKARTISEPHSDKTWRVTNITSILTALSEVDQLFSSRIELARQHALNQARIERLEAQAKKRDRETRQAILELSKIHSELSEISRMSQEEVAWMERAEKRPIGHSTLLAYAQRLAKYTSAPPGYKLPQVAAARSEGVGKREEEEGEGGEEKAISLGADYNQYAKRAAAYYDPAIPSMPQEMPFPSDAMMRQGILNSSEMLEGAPMAEQPAAGEVEMVEDQSEAMLGADFATSYSHLREEQREEVDDEDAFDLDLN
Length300
PositionMiddle
OrganismUstilago hordei (strain Uh4875-4) (Barley covered smut fungus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Ustilaginomycotina> Ustilaginomycetes> Ustilaginales> Ustilaginaceae> Ustilago.
Aromaticity0.05
Grand average of hydropathy-0.612
Instability index63.89
Isoelectric point4.80
Molecular weight33094.40
Publications
PubMed=22623492

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

>MDP29561
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.48|      14|      42|      24|      38|       1
---------------------------------------------------------------------------
   24-   38 (20.46/17.43)	STLSAYSDLtKQLFS
   68-   81 (24.02/15.19)	SILTALSEV.DQLFS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     146.07|      46|     120|     108|     157|       2
---------------------------------------------------------------------------
  108-  157 (72.60/47.31)	DRETRQAILElskiHSELSEISRMSQE....EVAWMERAEKRPIGHSTLLAYAQ
  231-  280 (73.48/40.30)	DAMMRQGILN....SSEMLEGAPMAEQpaagEVEMVEDQSEAMLGADFATSYSH
---------------------------------------------------------------------------




































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 MDP29561 with Med4 domain of Kingdom Fungi
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