<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 MDP06595

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMAPSHSAAAAAAAAAAAAAAVDEPLTQDEVAQIPSASLPIGLQISHLLGEFTQLTIQLFAIISTTSPSALLAAAGGTAKSSATEPIYEALAAVDRKLAALLDMYDSHRRRQRRIETLIRELGTLDSQWRDSALTLQQCLADLSPVIESGALDRKAITTARQADLKPETVLSYARLLAPFTSAPPASLFPPEVKLKGVGATDPTGRTLPAGAIPPFPTEATMRGGRLQFGSEGLLHGYLGETEQVGAGRRDSTTGALIPPELEMHGATTATAQRPDDIAARLEHEAKLHGAGPGEGATGDGEGVSDFSAPRVIAQVVILGSQILGKAFVQAWRQAARNARAGGEAAGGAAAGTSAGRAGNVDVITRNHGMTIDEAANILNVKRAGIQAAEETELQKMLKNFDHLFQANTPLTPEGKPHSSHYLQSKIVRAKERIEAELAAAAKAGKAPAAGAAAEGGATAPKAPEGKP
Length467
PositionMiddle
OrganismRhodotorula sp. JG-1b
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Pucciniomycotina> Microbotryomycetes> Sporidiobolales> Sporidiobolaceae> Rhodotorula> unclassified Rhodotorula.
Aromaticity0.04
Grand average of hydropathy-0.147
Instability index42.83
Isoelectric point6.16
Molecular weight48167.82
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
TIM23 mitochondrial import inner membrane translocase complex	GO:0005744	IEA:InterPro

GO - Biological Function
transcription coregulator activity	GO:0003712	IEA:InterPro

GO - Biological Process
protein import into mitochondrial matrix	GO:0030150	IEA:InterPro
regulation of transcription by RNA polymerase II	GO:0006357	IEA:InterPro









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP06595
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.67|      11|      50|     406|     416|       1
---------------------------------------------------------------------------
  406-  416 (22.63/10.24)	ANTPLTPEGKP
  457-  467 (22.04/ 9.81)	ATAPKAPEGKP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.18|      16|      21|     132|     151|       2
---------------------------------------------------------------------------
  120-  144 (16.45/16.24)	ELGTLdsqwrdsALTLQQclADLSP
  147-  166 (22.73/ 7.61)	ESGAL...drkaITTARQ..ADLKP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|      86.04|      19|      22|     248|     266|       4
---------------------------------------------------------------------------
  187-  211 (21.57/ 7.76)	LFPP...EVKLKGvG.....ATDPTgrtlpAGA
  212-  232 (19.42/ 6.28)	.IPPfptEATMRG.G.....RLQFG.....SEG
  256-  279 (25.86/10.72)	LIPP...ELEMHG.AttataQRPDD.....IAA
  280-  298 (19.19/ 6.12)	RLEH...EAKLHG.A....gPGEGA.....TG.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      96.37|      31|     102|     318|     350|       5
---------------------------------------------------------------------------
  318-  350 (50.09/26.51)	LGSQIL.GKAFVQAWRQAArnARAGGEAAGGAAA
  422-  453 (46.27/19.45)	LQSKIVrAKERIEAELAAA..AKAGKAPAAGAAA
---------------------------------------------------------------------------




































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 MDP06595 with Med4 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) GETEQVGAGRRDSTTGALIPPELEMHGATTATAQRPDDIAARLEHEAKLHGAGPGEGATGDGEGVS
2) PEVKLKGVGATDPTGRTLPAGAIPPFPTEATMRGGRL
239
190
304
226










Molecular Recognition Features






MoRF SequenceStartStop




1) QSKIVRAKERIEAELAAAAKAGKAPAAGAAAEGGATAPKAPEG
423
465