<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 MDP33340

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMLQHQIVQSPARLGLANPNSPSIPNPTPPKLPPTQTQQPQDRNSSTPSSALLSLLPPLTRAQALLHQMASLASKLFEVSPNRSLWVTAFRGSPTFLSSQSSTPLDSSPSTAKEIISLFTVLQTQIFEAVAELQEILDLQDAKQKMDREIRSQDSMLLAFANKLKEAECCLDILVDDYSDYRRSKRSKSGDDDSMTSSTVSSQLKLSDILSYAHKISYTTFAPPEFGAGQAPLRGAMPPAPQEEQMRASQLYNFADLDVGLPKEVETKEKIVEAIVEPPSQVDTNAVPNLSAFQGLLPPVPPGWKPGMPVQLPIDLPLPPPGWKPGDPVPLPPMDSLRFAEQQMQPHIPQPKQPEVIQVQPVNLDLGGSDTSDYSSDDVSSDDED
Length384
PositionMiddle
OrganismPhaseolus vulgaris (Kidney bean) (French bean)
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> Phaseolus.
Aromaticity0.05
Grand average of hydropathy-0.440
Instability index71.89
Isoelectric point4.66
Molecular weight41902.85
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:EnsemblPlants

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

>MDP33340
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      96.73|      18|      18|     300|     317|       1
---------------------------------------------------------------------------
  300-  317 (40.47/19.55)	PPGWKPGMPVQL.P.ID.LPL
  319-  338 (31.39/13.54)	PPGWKPGDPVPL.PpMDsLRF
  348-  365 (24.88/ 9.23)	PQPKQPEV.IQVqP.VN.LDL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      89.75|      33|      36|     105|     140|       2
---------------------------------------------------------------------------
   45-   80 (41.63/16.91)	STPSSA..LLSLLPPLtRAQaLLHQMASLaSKLFEVSP
  106-  140 (48.13/34.70)	SSPSTAkeIISLFTVL.QTQ.IFEAVAEL.QEILDLQD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     111.68|      35|      37|     222|     256|       3
---------------------------------------------------------------------------
  222-  256 (60.02/30.10)	PPEFGAGQAPLRGAMPPAPQEEQMRASQLYNFADL
  261-  295 (51.66/25.02)	PKEVETKEKIVEAIVEPPSQVDTNAVPNLSAFQGL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.56|      16|     190|     176|     192|       4
---------------------------------------------------------------------------
  175-  190 (27.59/20.35)	DDYSDYRRSKRSKSGD
  192-  207 (24.96/11.99)	DSMTSSTVSSQLKLSD
---------------------------------------------------------------------------




































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 MDP33340 with Med4 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) KEKIVEAIVEPPSQVDTNAVPNLSAFQGLLPPVPP
2) VQSPARLGLANPNSPSIPNPTPPKLPPTQTQQPQDRNSSTPSSALL
3) WKPGMPVQLPIDLPLPPPGWKPGDPVPLPPMDSLRFAEQQMQPHIPQPKQPEVIQVQPVNLDLGGSDTSDYSSDDVSSDDED
267
7
303
301
52
384










Molecular Recognition Features






MoRF SequenceStartStop




NANANA