<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 MDP27935

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMDKDLDGRFERLEKALGNMIDGLAKNNPSEKVAEELLAAENDLFDALKLLEKHQNNNARIQQLRQETARYDTQIKDIASSLWNMRKELKAVPVTANPPSGKKNQFTTAELLAYARRISRNTLPLPGVTNGVDMSTTAPPTQSADPEDSFRLQSQPSQTRTPNTSFNLSFSGAVGTPGGPTNTPTPNTANDTQPTTQPSPSQPPKTATEDRLPQHLKPAINPLHDAAFHPWPTEAQIRSGALAAIQRLVDAGIDPKGYDPEEEERKRKAEEQARREAEERARQEREAAERRAREERERMARERELARQREGEAAAAGGLERRDSVAVGRAKPKQFTFLGADDDDDDDEDD
Length349
PositionMiddle
OrganismMyceliophthora thermophila (strain ATCC 42464 / BCRC 31852 / DSM 1799) (Sporotrichum thermophile)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Sordariomycetidae> Sordariales> Chaetomiaceae> Thermothelomyces.
Aromaticity0.04
Grand average of hydropathy-1.071
Instability index48.17
Isoelectric point5.23
Molecular weight38760.22
Publications
PubMed=21964414

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

>MDP27935
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.34|      20|      23|     265|     287|       1
---------------------------------------------------------------------------
  260-  279 (32.70/10.54)	EEEERKRKAEEQARREAEER
  283-  302 (34.64/18.59)	EREAAERRAREERERMARER
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.15|      17|      22|     155|     176|       2
---------------------------------------------------------------------------
  168-  186 (26.86/15.53)	SFSGAVGTPggPTNTPTPN
  191-  209 (25.29/ 6.13)	TQPTTQPSPsqPPKTATED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.67|      12|      23|     218|     229|       3
---------------------------------------------------------------------------
  218-  229 (23.94/15.94)	AINPLHDAAFHP
  243-  254 (21.73/13.87)	AIQRLVDAGIDP
---------------------------------------------------------------------------




































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 MDP27935 with Med4 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) ARRISRNTLPLPGVTNGVDMSTTAPPTQSADPEDSFRLQSQPSQTRTPNTSFNLSFSGAVGTPGGPTNTPTPNTANDTQPTTQPSPSQPPKTATEDRLPQHLKPAINPLHDAAFHPWPTEAQIRSGALAAIQRLVDAGIDPKGYDPEEEERKRKAEEQARREAEERARQEREAAERRAREERERMARERELARQREGEAAAAGGLERRDSVAVGRAKPKQFTFLGADDDDDDDEDD
114
349










Molecular Recognition Features






MoRF SequenceStartStop




1) GLERRDSVAVGRAKPKQFTFLGADDDDDDDE
317
347