<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 MDP04589

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMDKYIDGRFERLEKALSSLIDSVTKYHPSTIQAEELKAADTELSKGLEEVQTHQNNYLRIQQLRQSSAALDTQIRDTLTSLATTRKDIVTTHTTTFPSEPNYPIVYEELLSYARRISKTTMPPAATINAGGSPSPETQTPAPDSQPQSAMTPSVRTPSQTQSPVANGTSQLMSEQATQQTAMSMNTSLPEGMSQYLNPLSGQFFFPWPLEDKIRSGSLASYQILAEQGIDPKGYDPATEEERKRQKEEERKAKEAREKAEREEREKQMREERERLRVERERQREKEKEEWRRASIAGGQPEAPGLARANTGVGEKKQFQFTNLDDLDDDDDD
Length332
PositionMiddle
OrganismTolypocladium ophioglossoides CBS 100239
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Hypocreales> Ophiocordycipitaceae> Tolypocladium.
Aromaticity0.05
Grand average of hydropathy-1.064
Instability index59.16
Isoelectric point5.06
Molecular weight37559.04
Publications
PubMed=26215153

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

>MDP04589
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.68|      20|      29|     240|     263|       1
---------------------------------------------------------------------------
  240-  259 (33.24/12.33)	EERKRQKEEE..RKAKEAREKA
  279-  300 (29.44/ 9.77)	RERQREKEKEewRRASIAGGQP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.05|      18|      22|     122|     143|       2
---------------------------------------------------------------------------
  122-  140 (29.07/22.71)	PPAATINAGGSPSpETQTP
  146-  163 (33.98/13.37)	PQSAMTPSVRTPS.QTQSP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.78|      13|      22|     166|     178|       3
---------------------------------------------------------------------------
  166-  178 (22.12/12.12)	NGTSQLMSEQATQ
  190-  202 (23.66/13.38)	EGMSQYLNPLSGQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.29|      24|      29|      16|      43|       4
---------------------------------------------------------------------------
   16-   43 (32.60/30.62)	LssliDSVTKYHPSTIQAEELK....AADTEL
   47-   74 (33.70/21.49)	L....EEVQTHQNNYLRIQQLRqssaALDTQI
---------------------------------------------------------------------------




































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 MDP04589 with Med4 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) GSLASYQILAEQGIDPKGYDPATEEERKRQKEEERKAKEAREKAEREEREKQMREERERLRVERERQREKEKEEWRRASIAGGQPEAPGLARANTGVGEKKQFQFTNLDDLDDDDDD
2) KAADTELSKGLEEVQTHQNNYLRIQQLRQS
3) TMPPAATINAGGSPSPETQTPAPDSQPQSAMTPSVRTPSQTQSPVANGTSQLMSEQATQQTAMSMNTSLPEGMSQYLN
216
37
120
332
66
197










Molecular Recognition Features






MoRF SequenceStartStop




1) EEWRRASIAG
2) GLARANTGVGEKKQFQFTNLDDLDD
288
304
297
328