<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 MDP00651

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMLQHQIVQSPARLGLTNPNSPSLQNPNPNPSPTKFPTSATHHHLRSATPPTAPITTGTTACTSSTLLSLLPPLPRAQALLLQMASLASKLFEVSPNRSLWISAFRGSLPTFLSSQAQSQPPPPIDSSPSTIKEIIACFTSLQTQLFEAVAELQEILDLQDAKQKIAREIKAKDSAILAFANKIKEAERVLDILVDDYSDYRRPKRVKSEGGDGNDDDSGSCSTTVESRLNLSDILSYAHRISYTTFAPPEFGAGQGPLRGALPPAPQEEQMRASQLYTFADLDVGLPKVVETKEKTIEAIIEPPPLQPVDANPLKDLAGLLPPNITVPSGWKPGMPVELPKDFPLVPPPGWKPGDAVPLPPLDALPMPRIEEQQLRPVPPQGLHKPPEPIQVRHVELDILDQDDDSSDYSSEEGSSEDDG
Length420
PositionMiddle
OrganismCitrus sinensis (Sweet orange) (Citrus aurantium var. sinensis)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> malvids> Sapindales> Rutaceae> Aurantioideae> Citrus.
Aromaticity0.05
Grand average of hydropathy-0.414
Instability index77.34
Isoelectric point4.88
Molecular weight45510.96
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
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

>MDP00651
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     116.78|      18|      18|     330|     347|       1
---------------------------------------------------------------------------
  306-  322 (20.43/ 7.34)	.LQPVDANPL.KDLAgL..LP
  330-  347 (39.16/21.60)	GWKPGMPVELPKDFP.L..VP
  350-  366 (29.25/14.05)	GWKPGDAVPLP...P.LdaLP
  374-  387 (27.95/13.06)	QLRPVPPQGLHK..P.....P
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      77.79|      19|      20|      28|      46|       2
---------------------------------------------------------------------------
    9-   30 (25.50/10.27)	SPARLGlTNP.NSPSLQNpnPNP
   31-   51 (30.56/13.77)	SPTKFP.TSA.THHHLRSatPPT
   52-   72 (21.73/ 7.67)	APITTG.TTAcTSSTLLSllP.P
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      99.01|      30|      39|     209|     238|       3
---------------------------------------------------------------------------
  209-  238 (50.75/28.66)	EGGDGNDDDSGSC.STTVESRLNLSDILSYA
  250-  280 (48.25/26.92)	EFGAGQGPLRGALpPAPQEEQMRASQLYTFA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.96|      17|      32|      94|     110|       4
---------------------------------------------------------------------------
   94-  110 (31.98/24.26)	SPNRSLWISAFRGSLPT
  127-  143 (29.99/22.28)	SPSTIKEIIACFTSLQT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.47|      17|     206|     182|     200|       5
---------------------------------------------------------------------------
  182-  200 (26.30/25.90)	KIKEAErvLDIL..VDDYSDY
  391-  409 (27.18/18.98)	QVRHVE..LDILdqDDDSSDY
---------------------------------------------------------------------------




































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 MDP00651 with Med4 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) PVELPKDFPLVPPPGWKPGDAVPLPPLDALPMPRIEEQQLRPVPPQGLHKPPEPIQVRHVELDILDQDDDSSDYSSEEGSSEDDG
2) VQSPARLGLTNPNSPSLQNPNPNPSPTKFPTSATHHHLRSATPPTAPITTGT
336
7
420
58










Molecular Recognition Features






MoRF SequenceStartStop




1) QGLHKPPEPIQVRHVELDILDQDDDSSDYSSEEGSSEDDG
381
420