<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 MDP06162

Description Mediator of RNA polymerase II transcription subunit 4 (Fragment)
SequenceLKMNYSTNEDECESVRRQLLDVVDDLELICRQVSEILTVSKESRLHHDFKLSDLIELFKVKEDHLEELLKVAKMQTERQRLIDALESEIAVRDEYIERLRTCLIESESTLTNAIFQANLKLKSIAQSELRKVSPEEVIRYAHRISAAYSVSAPMNWQVGDIERPFPLDIEMRSGWLARVTGSADYVSPAVAATPFGTGAPTMSHLSGVDSLHSSESVAHMMAPPKLGWPSPRPAASQLISPKNRLPIPPSPNIPSSLPGRGTASIRQPIRESSPIITTGSPLVKRDTAAATATATPTSSSVVVVDDVVEAMSSDSSSSSSSDSVG
Length325
PositionMiddle
OrganismTrichinella patagoniensis
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Enoplea> Dorylaimia> Trichinellida> Trichinellidae> Trichinella.
Aromaticity0.04
Grand average of hydropathy-0.247
Instability index67.10
Isoelectric point5.38
Molecular weight35473.77
Publications









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

>MDP06162
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.55|      18|      18|     283|     300|       2
---------------------------------------------------------------------------
  283-  300 (28.68/13.34)	VKRDTAAATATATPTSSS
  303-  320 (25.87/11.41)	VVDDVVEAMSSDSSSSSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.62|      28|      28|      50|      77|       3
---------------------------------------------------------------------------
   18-   45 (39.48/28.95)	QLLDVVDDLELICRQVSEILTVSKESRL
   50-   77 (41.14/30.44)	KLSDLIELFKVKEDHLEELLKVAKMQTE
---------------------------------------------------------------------------




































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 MDP06162 with Med4 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) QLISPKNRLPIPPSPNIPSSLPGRGTASIRQPIRESSPIITTGSPLVKRDTAAATATATPTSSSVVVVDDVVEAMSSDSSSSSSSDSVG
237
325










Molecular Recognition Features






MoRF SequenceStartStop




NANANA