<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 MDP02068

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMLQHQIVQSPARLGLTNPNSPSIQNPTPPKLPPSQQSHHQNQSNLSSSTPSSTLLPLLPPLPRAQALLLQMASLASKLFEVSPNRSLWLTAFRGSLPTFLTSQTQSSPSTLLDSTPSSSKEILSLFNVLQTQLFEAVAELQEILDLQDSKQKIAYEIRAKDAALRAFANKLKEAEQVLDVLFDDYADYQRPRRDKTEGDAENESLCSTTVASQLRLSDILSYAHRISYTTFAPPEFGAGQAPLRGALPPAPQDEQMRASQLYNFANLDVGLPKAVESTEKTIEPMIEPPAPVRPDANPLAAIQGLLPPNITVPSGWKPGMPVELPGDLPMPPPGWKPGDPVRLPPMDSLPVTRVDEPQLRPNALPGLHKPPEPIQVRHVQLDILDQDDDSSDYTSDEGSSEDDD
Length404
PositionMiddle
OrganismCucumis sativus (Cucumber)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> fabids> Cucurbitales> Cucurbitaceae> Benincaseae> Cucumis.
Aromaticity0.05
Grand average of hydropathy-0.474
Instability index73.14
Isoelectric point4.75
Molecular weight44157.23
Publications
PubMed=19881527
PubMed=19495411
PubMed=20565788
PubMed=22047402

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:EnsemblPlants
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

>MDP02068
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     171.65|      36|      37|     306|     342|       1
---------------------------------------------------------------------------
  271-  303 (49.76/19.19)	LPK..AVESTE..KTIE.PMIEP...PAPvRPDANPLAAIQ
  306-  342 (71.18/33.68)	LPPNITVPSGW..KPGM.PVELPGdLPMP.PPGWKPGDPVR
  343-  377 (50.71/19.69)	LPPMDSLPVTRvdEPQLrPNALPG.LHKP.P...EPIQ.VR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     161.04|      35|      63|      18|      52|       2
---------------------------------------------------------------------------
   18-   52 (64.99/27.06)	PNSPSIQNPTPPKLPPSQQSHHQNQ.SNLSSSTPSS
   83-  118 (54.74/21.76)	PNRSLWLTAFRGSLPTFLTSQTQSSpSTLLDSTPSS
  234-  261 (41.31/14.80)	PEFGAGQAPLRGALPPAPQDEQMRA.SQL.......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.91|      21|     202|     178|     203|       3
---------------------------------------------------------------------------
  178-  203 (32.71/27.87)	LDVL..FDDYADYqrprrDKTEGDAENE
  381-  403 (33.20/17.03)	LDILdqDDDSSDY.....TSDEGSSEDD
---------------------------------------------------------------------------




































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 MDP02068 with Med4 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) ITVPSGWKPGMPVELPGDLPMPPPGWKPGDPVRLPPMDSLPVTRVDEPQLRPNALPGLHKPPEPIQVRHVQLDILDQDDDSSDYTSDEGSSEDDD
2) KAVESTEKTIEPMIEPPAPVRPDANPLAAIQGL
3) VQSPARLGLTNPNSPSIQNPTPPKLPPSQQSHHQNQSNLSSSTPSSTLLP
310
273
7
404
305
56










Molecular Recognition Features






MoRF SequenceStartStop




1) LHKPPEPIQVRHVQLDILDQ
367
386