<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 MDP29248

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMRPPQLETCDKFDIYVVRILEFVIIASPGPPLLPLTLQIANSRKHPSRFRSTLQAVNRQEEMNQETNHHHHHLLGIPPPNDHQPLTNQFEVFLNQFNRITQTVFTQIASSSSSSLSSSSSTINSNQTNPEITVLQEIIQLEIYLYKLLEINSQHDRNSKKIQNLYLTLNSLNSNQFKKKLDQIFSIKNKLDLICSDGQNEKNRFAELNQLALTPGHIMSYARLIAPYTSAPPAPSTADQDQPINPSSGLDLQDPSLRFLMPFPTEDVIRRGRMGQEMSAPVNGANDPLNGGTEIGALLGEIRTADGARPTQNQINPHLAAYPTMPSRRPPPPPLPDAEDDLFDLDLNPDL
Length350
PositionMiddle
OrganismPuccinia graminis f. sp. tritici (strain CRL 75-36-700-3 / race SCCL) (Black stem rust fungus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Pucciniomycotina> Pucciniomycetes> Pucciniales> Pucciniaceae> Puccinia.
Aromaticity0.06
Grand average of hydropathy-0.526
Instability index54.93
Isoelectric point5.68
Molecular weight39171.72
Publications
PubMed=21536894

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
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

>MDP29248
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.44|      15|     251|      77|      94|       1
---------------------------------------------------------------------------
   77-   94 (25.98/17.34)	PPPndhQPLTNQ....FEVFLN
  329-  347 (26.46/10.26)	PPP...PPLPDAeddlFDLDLN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     124.96|      42|      48|     122|     167|       2
---------------------------------------------------------------------------
  122-  167 (60.08/49.64)	INSNQTNPEitvLQEIIQLEIYLyKLLEINSQHDRNS.KKIQNLYLT
  171-  213 (64.87/40.72)	LNSNQFKKK...LDQIFSIKNKL.DLICSDGQNEKNRfAELNQLALT
---------------------------------------------------------------------------




































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 MDP29248 with Med4 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) RFRSTLQAVNRQEEMNQETNHHHHHLLGIPPPN
2) VIRRGRMGQEMSAPVNGANDPLNGGTEIGALLGEIRTADGARPTQNQINPHLAAYPTMPSRRPPPPPLPDAEDDLFDLDLNPD
48
267
80
349










Molecular Recognition Features






MoRF SequenceStartStop




1) DDLFDLDLNPDL
339
350