<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 MDP32448

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMDKFIDARFDRVEKALAVLIDSIANYNPSPALAEDLLTADRELSGGLLKLQDHQNNHLRILSLRAEVAALDNQIKSTIQTLANSRRDMLQTPATIFPDDNTDNLAIRDQTKHYPFTYDQLMSYARRISRNTVPGQGQTDGSEYFAQFGLTSDNVAAAAAAANGTNGVDQSMPGTAAPTPAPTTPGIAATPGPASAATPGVNGTPAPNSIAPTGAAAADTTQSVTAPTVPDLPQDLQRYVSPMVGTIFSPWPMPDLMQQGALRTLNTLSEAQYRGPPAQYTSTPPVPVRFVSLEEQEEEERQKTAREAEEREAREERQRRMEEAAAAGARHSGGGGGGYSHGGASAQPAAPRQFASALDMDDDDD
Length364
PositionMiddle
OrganismOphiostoma piceae (strain UAMH 11346) (Sap stain fungus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Sordariomycetidae> Ophiostomatales> Ophiostomataceae> Ophiostoma.
Aromaticity0.05
Grand average of hydropathy-0.565
Instability index50.72
Isoelectric point4.71
Molecular weight38785.28
Publications
PubMed=23725015

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

>MDP32448
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.63|      18|      22|     178|     197|       1
---------------------------------------------------------------------------
  178-  197 (28.39/16.36)	TPAPTtpGIAATPGPASAAT
  203-  220 (31.24/12.47)	TPAPN..SIAPTGAAAADTT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.92|      23|      30|      50|      72|       2
---------------------------------------------------------------------------
   50-   72 (37.38/27.11)	LQDHQNNHLRILSLRAEVAALDN
   78-  100 (39.55/29.11)	IQTLANSRRDMLQTPATIFPDDN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.45|      16|      31|     237|     253|       3
---------------------------------------------------------------------------
  237-  253 (26.81/16.61)	RYVSPMVGTIFSPwPMP
  271-  286 (31.65/14.79)	QYRGPPAQYTSTP.PVP
---------------------------------------------------------------------------




































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 MDP32448 with Med4 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AAAANGTNGVDQSMPGTAAPTPAPTTPGIAATPGPASAATPGVNGTPAPNSIAPTGAAAADTTQSVTAPTVPDLPQDLQRYVSPMVG
2) IFSPWPMPDLMQQGALRTLNTLSEAQYRGPPAQYTSTPPVPVRFVSLEEQEEEERQKTAREAEEREAREERQRRMEEAAAAGARHSGGGGGGYSHGGASAQPAAPRQFASALDMDDDDD
158
246
244
364










Molecular Recognition Features






MoRF SequenceStartStop




1) GGGYSHGGASAQPAAPRQFASALDMDDDDD
2) QRRMEEAAAAGARHS
335
317
364
331