<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 MDP26509

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMASSRSTKEVLLSLIDDIELIAKEMIENTIAQKPAKLSNIEHAQLTELLVAKDNELKSTLKRAAEQAKINLKMEALKAEVERQDQDIQQLQRQLKEAEQILATAIYQAKQKLQSIARANKRPVASEELIKYAHRISATNAICAPLSWQQGDPRRPYPTDIEMRLGCLGRLNDVPLNGQMLGSHPSIPSDLHRAGHPAGEPPVSQSNQFAWHPSGEIHMSVGGQGSVAVNTHKQETEDVEVMSTDSSSSSSSDSQ
Length254
PositionMiddle
OrganismHarpegnathos saltator (Jerdon's jumping ant)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Hymenoptera> Apocrita> Aculeata> Formicoidea> Formicidae> Ponerinae> Ponerini> Harpegnathos.
Aromaticity0.02
Grand average of hydropathy-0.566
Instability index67.48
Isoelectric point5.93
Molecular weight27928.18
Publications
PubMed=20798317

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

>MDP26509
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     103.86|      24|      27|     183|     207|       1
---------------------------------------------------------------------------
  157-  178 (24.95/13.16)	....PTDIEmRLGCLGRLNDVPLNGQ
  183-  207 (40.26/30.57)	HPSiPSDLH.RAGHPAGEPPVSQSNQ
  211-  233 (38.64/24.44)	HPS..GEIH.MSVGGQGSVAVNTHKQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.16|      25|      29|      20|      45|       2
---------------------------------------------------------------------------
   20-   45 (36.81/28.45)	LIAKE.MIENTI..AQKPAKLsNIEHAQL
   49-   76 (29.35/17.49)	LVAKDnELKSTLkrAAEQAKI.NLKMEAL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      89.67|      27|      32|      94|     122|       3
---------------------------------------------------------------------------
   94-  122 (39.10/31.53)	LKEAEQILATAIYQAKQKLQSiaRANKRP
  129-  155 (50.57/34.40)	IKYAHRISATNAICAPLSWQQ..GDPRRP
---------------------------------------------------------------------------




































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 MDP26509 with Med4 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) NGQMLGSHPSIPSDLHRAGHPAGEPPVSQSNQFAWHPSGEIHMSVGGQGSVAVNTHKQETEDVEVMSTDSSSSSSSDSQ
176
254










Molecular Recognition Features






MoRF SequenceStartStop




NANANA