<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 MDP29423

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMLQHQIVQSPAMLGLANPNSPSIPNPTPPKLPPTQTHHPQDRNSSTPSSALLSLLPPHLRAQALLAQMASLASKLFEVSPNRSLWVTAFRGSLPTFLSSHSSTPLDTSPSDGKEIISLFTVLQTQIFEAIAELQEILDLQDAKQKIDCEIHSQDSTLLAFANKLKEAESCLDILVDDYSDYHRSKRSKSGDDDSMTSSTISSQLKLSDMLSYAHRISYTTFAPPEFGAGQAPLRGALPPAPQEEQMRASQLYNFADLDVGLPKEVETKEKIVEAIVEPPPQVDTNTVPNLSAFQGMLPPMPPGWKPGMPVQLPIDLPLPPPGWKPGDPVPLPPMDSLQIPRFAEQQMQPHIPQPKQPEVIQVQPVNLDLGGSDTSDYSSDDASSDDED
Length388
PositionMiddle
OrganismGlycine max (Soybean) (Glycine hispida)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> fabids> Fabales> Fabaceae> Papilionoideae> 50 kb inversion clade> NPAAA clade> indigoferoid/millettioid clade> Phaseoleae> Glycine> Glycine subgen. Soja.
Aromaticity0.05
Grand average of hydropathy-0.425
Instability index63.09
Isoelectric point4.66
Molecular weight42303.25
Publications
PubMed=20075913

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

>MDP29423
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.22|      16|      18|     301|     318|       1
---------------------------------------------------------------------------
  297-  313 (35.52/17.15)	LPPmPPGWKPGMPVQLP
  316-  332 (34.71/11.45)	LPLpPPGWKPGDPVPLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.83|      22|     203|     171|     193|       2
---------------------------------------------------------------------------
  171-  193 (36.26/21.54)	LDILVDDYSDYHrSKRSKSGDDD
  367-  388 (39.57/19.69)	LDLGGSDTSDYS.SDDASSDDED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     119.29|      39|     203|      15|      91|       3
---------------------------------------------------------------------------
   31-   71 (58.65/64.31)	LPPTQTHHPQDRNSSTPSSA..LLSLLPPhLRAQALLAqMASL
   93-  133 (60.63/12.07)	LPTFLSSHSSTPLDTSPSDGkeIISLFTV.LQTQIFEA.IAEL
---------------------------------------------------------------------------




































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 MDP29423 with Med4 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) KEKIVEAIVEPPPQVDTNTVPNLSAFQGMLPPMPPGWKPGMPVQLPIDLPLPPPGWKPGDPVPLPPMDSLQIPRFAEQQMQPHIPQPKQPEVIQVQPVNLDLGGSDTSDYSSDDASSDDED
2) QSPAMLGLANPNSPSIPNPTPPKLPPTQTHHPQDRNSSTPSSALL
268
8
388
52










Molecular Recognition Features






MoRF SequenceStartStop




NANANA