<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 MDP16311

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMSFSTFAGPSSHPSLPGSQSTYPSQSSQSGFSQSYAPFVTPDIPPQPPASMSEILLDPLARLQTLSHTVFQSLGPPQSRPPPPPSVVELLAVDAQLATAVHIARAHQVKQRRIEQLKDEVLDLDRRWREIVRALDEGRRELDSIVREGEERIKAIDEAKAASIPYPELLAYAQSLSAFTSAPPNMPDLAPGQPPPPLFFPPFPNEEKMRRGHMNDEAPLGILGETHSVKPPPPVSPTVEHPAHPGANPYRPDFRPPQQQPFFDLDLDLNPDL
Length272
PositionMiddle
OrganismGanoderma sinense ZZ0214-1
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Agaricomycotina> Agaricomycetes> Polyporales> Polyporaceae> Ganoderma.
Aromaticity0.07
Grand average of hydropathy-0.537
Instability index83.57
Isoelectric point5.25
Molecular weight29917.37
Publications
PubMed=26046933

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

>MDP16311
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     170.28|      33|      33|      16|      48|       1
---------------------------------------------------------------------------
   16-   48 (61.06/24.03)	PGSQSTY...P....SQS....SQSGFSQSYAPF....VTPDIPPQ..PP
   50-   83 (36.88/11.67)	..SMSEIlldP....LARlqtlSHTVF.QSLGP.......PQSRPP..PP
  200-  233 (30.94/ 8.64)	....PPF...PneekMRR....GHM...NDEAPLgilgETHSVKPP..PP
  234-  260 (41.41/13.99)	VSPTVEH...P....AHP....GANPYR............PDFRPPqqQP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.35|      23|      26|     102|     126|       3
---------------------------------------------------------------------------
   88-  116 (30.07/30.51)	ELLAVDAQlatavhIARAHQVKQRRIEQL
  119-  144 (31.28/22.34)	EVLDLDRR...wreIVRALDEGRRELDSI
---------------------------------------------------------------------------




































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 MDP16311 with Med4 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) TSAPPNMPDLAPGQPPPPLFFPPFPNEEKMRRGHMNDEAPLGILGETHSVKPPPPVSPTVEHPAHPGANPYRPDFRPPQQQPFFDLDLDLN
179
269










Molecular Recognition Features






MoRF SequenceStartStop




1) PFFDLDLDLNPD
2) YRPDFRP
260
249
271
255