<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 MDP12753

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMLQSHPPQILQSPARLGLTNPNSPSLPNPSTPKLSSQNPQHHALHLHQQQQQQQQQPQQAPSSVATTSSTLLSLLPPHPRAQSLLLQMASLATRLFEVSPTRSFWLSSFRGSLPTFLPSQTPLDSSPSTTKEILSLFTSLQTQLFEAVAELQEILDLQDAKQKISRDIRAKDAAILAFANKLKEAEHVLDILVDDYSDYHRPKRSKPTTSEGNPENPPSYSSSTTITNPLNLSNILSYAHRISYTTFAPPEFGAGQAPLRGALPPAPQEEQMRASQLYNFADLDVGLPKTVETKEKTVVTLIEAPSLKPVETNPPIDLAAIQGLIPPQLTIPSGWRPGMPVELPADLPVPPPGWKPGDPVTLPPLDALVGPNKGEDQPPRPAVSQMPPKAPEPIQVRYVQLDINPDQDDYSSDYSSDVGSSEEDDED
Length427
PositionMiddle
OrganismNelumbo nucifera (Sacred lotus)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Proteales> Nelumbonaceae> Nelumbo.
Aromaticity0.05
Grand average of hydropathy-0.529
Instability index71.68
Isoelectric point4.99
Molecular weight46603.79
Publications
PubMed=23663246

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

>MDP12753
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.94|      14|      17|     331|     346|       1
---------------------------------------------------------------------------
  331-  344 (31.52/18.11)	I.PSGWRPGMPVELP
  349-  363 (27.42/ 9.25)	VpPPGWKPGDPVTLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.17|      14|      15|       7|      21|       2
---------------------------------------------------------------------------
    7-   21 (22.15/12.11)	PQiLQSPA..RLGLTNP
   24-   39 (21.03/ 7.35)	PS.LPNPStpKLSSQNP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     101.94|      33|      48|      63|      97|       3
---------------------------------------------------------------------------
   63-   97 (49.28/28.00)	SVAT..TSSTLLSLLPphPRAQSLLLQMASLATRLFE
  112-  146 (52.67/24.12)	SLPTflPSQTPLDSSP..STTKEILSLFTSLQTQLFE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     119.96|      34|     122|     250|     284|       4
---------------------------------------------------------------------------
  250-  284 (60.92/32.36)	PEFGAGQAPlRGA...LPP.APQEEQMRASQLYNFADLD
  371-  408 (59.04/27.73)	PNKGEDQPP.RPAvsqMPPkAPEPIQVRYVQLDINPDQD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.47|      18|     212|     195|     216|       6
---------------------------------------------------------------------------
  195-  216 (30.15/27.41)	DY.SDYhrpkRSKPTTSEGNPEN
  409-  427 (28.32/14.84)	DYsSDY....SSDVGSSEEDDED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      37.22|      11|      17|     219|     229|       7
---------------------------------------------------------------------------
  219-  229 (20.25/14.02)	SYSS..STTITNP
  237-  249 (16.97/10.52)	SYAHriSYTTFAP
---------------------------------------------------------------------------




































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 MDP12753 with Med4 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) IPSGWRPGMPVELPADLPVPPPGWKPGDPVTLPPLDALVGPNKGEDQPPRPAVSQMPPKAPEPIQVRYVQLDINPDQDDYSSDYSSDVGSSEEDDED
2) MLQSHPPQILQSPARLGLTNPNSPSLPNPSTPKLSSQNPQHHALHLHQQQQQQQQQPQQAPSSVATTSSTLLS
331
1
427
73










Molecular Recognition Features






MoRF SequenceStartStop




1) VSQMPPKAPEPIQVRYVQLDINPDQDDYSSDYSSDVG
383
419