<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 MDP31728

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMNSTPANSTPLPPLQPFTPGSSAATPAPIALTRSKPRRRLSSNVVGVSDRRRLLQMLQNVEEVSPGPDSASEAGESPSIRSQDEAHLEHLSSARICMDEDKELLIHQALPAFENTLLRFVQALSKYDFRQDLAETLMETESQFCEAVDELVEHQQAAQTIAALERVSEGLDDKIRDMIRKLAECRRELRNYQPNNENQSTLSSADLLTYATRIANFTTAPPYFRERPEHSKLPWPIEDEMRKGLLALMEVGKDKTELGELADPEKFAHTAANGVAPNGAAPVANGVAQNHNNGYAMERRLSTGYGSDNDGDTNMNGRSGLAGLDIFDDDDDDDDDD
Length336
PositionMiddle
OrganismYarrowia lipolytica (strain CLIB 122 / E 150) (Yeast) (Candida lipolytica)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Dipodascaceae> Yarrowia.
Aromaticity0.05
Grand average of hydropathy-0.687
Instability index50.52
Isoelectric point4.66
Molecular weight37034.48
Publications
PubMed=11861549
PubMed=15229592

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 (By similarity). 
ECO:0000250
GO - Cellular Component
core mediator complex	GO:0070847	IBA:GO_Central
mediator complex	GO:0016592	IEA:InterPro
GO - Biological Function
transcription coregulator activity	GO:0003712	IBA:GO_Central
GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central

Interaction

Binary Interactions











Repeat regions





Repeats

>MDP31728
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.69|      17|      44|      11|      27|       1
---------------------------------------------------------------------------
   11-   27 (31.09/18.49)	LPPLQPFTPGSSAATPA
   57-   73 (28.60/16.45)	LQNVEEVSPGPDSASEA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     130.49|      42|      46|      94|     138|       2
---------------------------------------------------------------------------
   94-  138 (61.72/63.29)	RICMDEDkELLIHQALPAFENTLLRFVQALSkyDFRQDLAETLME
  142-  183 (68.77/55.96)	QFCEAVD.ELVEHQQAAQTIAALERVSEGLD..DKIRDMIRKLAE
---------------------------------------------------------------------------




































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 MDP31728 with Med4 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) ELGELADPEKFAHTAANGVAPNGAAPVANGVAQNHNNGYAMERRLSTGYGSDNDGDTNMNGRSGLAGLDIFDDDDDDDDDD
2) MNSTPANSTPLPPLQPFTPGSSAATPAPIALTRSKP
3) QMLQNVEEVSPGPDSASEAGESPSIRSQDEA
256
1
55
336
36
85










Molecular Recognition Features






MoRF SequenceStartStop




1) NMNGRSGLAGLDIFDDDDDDDDD
313
335