<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 MDP07484

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMDKFIDGRFERLEKALTSLIDSVTKYHPSMNLAEEVVAADAELTKGLEQVQTHQNNHLRILELREASASLDTQIRDTLTSLANARRDIVNTHTTKFPSAPNYPIAYEELLSYARRISKTTMPPAGTINASVAPSGLQSPTVGESQSQAVTPAPTTPAAGATPGAATTPATTTPLPTQSPAAVNGVGGGAQHPHAPQQGGSSSGPSLLTSLPEPMAQYLNPLSGQVFFPWPLEDKIRSGSLAANQVLVEKGIDPRGFDPVAEEERKRREEAERKEREEREAREQQERDRLMREERERARLERERQREKEQEEWRRASVVAGTADAPGAAAPKAPEKKQFQFTNLDDLDDDDDDD
Length353
PositionMiddle
OrganismCordyceps fumosorosea ARSEF 2679
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Hypocreales> Cordycipitaceae> Cordyceps.
Aromaticity0.04
Grand average of hydropathy-0.813
Instability index51.18
Isoelectric point5.09
Molecular weight38717.34
Publications
PubMed=27071652

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

>MDP07484
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.43|      14|      15|     275|     288|       1
---------------------------------------------------------------------------
  257-  270 (20.26/10.19)	DP..VAEEERKRREEA
  271-  286 (20.17/10.11)	ERkeREEREAREQQER
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      71.71|      15|      15|     150|     164|       2
---------------------------------------------------------------------------
  150-  164 (27.64/12.18)	TPAPTTPAAGATPGA
  167-  181 (25.29/10.55)	TPATTTPLPTQSPAA
  186-  199 (18.78/ 6.06)	GGGAQHPHAPQQGG.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.79|      25|      28|      84|     111|       3
---------------------------------------------------------------------------
   84-  111 (40.90/32.59)	ARRdivNTHTTKFPSAP.NYPIAYEELLS
  113-  138 (39.90/23.79)	ARR...ISKTTMPPAGTiNASVAPSGLQS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      31.84|      10|      17|     202|     214|       5
---------------------------------------------------------------------------
  202-  214 (10.16/14.59)	SGpSLLtsLPEPM
  222-  231 (21.68/11.35)	SG.QVF..FPWPL
---------------------------------------------------------------------------




































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 MDP07484 with Med4 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) SGSLAANQVLVEKGIDPRGFDPVAEEERKRREEAERKEREEREAREQQERDRLMREERERARLERERQREKEQEEWRRASVVAGTADAPGAAAPKAPEKKQFQFTNLDDLDDDDDDD
2) SKTTMPPAGTINASVAPSGLQSPTVGESQSQAVTPAPTTPAAGATPGAATTPATTTPLPTQSPAAVNGVGGGAQHPHAPQQGGSSSGPSLLTSLPEPMAQYLNPLSG
237
117
353
223










Molecular Recognition Features






MoRF SequenceStartStop




1) AAAPKAPEKKQFQFTNLDDLDDDDDDD
2) PIAYEELL
3) WRRASVVAGT
327
103
312
353
110
321