<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 MDP19315

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMLQHQIVHSPARLGLTNPNSPSLPNPNPNPNPNPNPTPPKIPPPSQQPQQQQPPLSNLSPATATASTLLSLLPPLPRAQSLLIQMASLASRLFEVSPSRSLWLTAFRGTLPTFLSSQTQPSSSSSTSLDSQPSSTNEILALFISLQTQLFEAVAQLQEILDLQDARSKVAREIKSKDTALLAFAHKLKEAERVLDILVDDYSDYRRPRRSKSDDNSPEDDDDDDDDDDDDDDSHATTTVASRLNLSDILSYAHRISYTTFAPPEFGAGQAPLRGALPPAPQEEQMRASQLYNFASLDVGLPKLVESEEKAVEPMIEPPAPPPAEPNPLSNLAAIQGLLHPNITVPSGWKPGMPVELPSELPLPPPGWKPGDPVPLPPLASLPIPRVGEQQLRSKQPEPIQVRHVQLDIIDQDDDSSDYSSEDGSSEDDV
Length429
PositionMiddle
OrganismParasponia andersonii (Sponia andersonii)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> fabids> Rosales> Cannabaceae> Parasponia.
Aromaticity0.04
Grand average of hydropathy-0.566
Instability index74.18
Isoelectric point4.47
Molecular weight46635.40
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:InterPro

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

>MDP19315
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     112.70|      21|      29|      24|      44|       1
---------------------------------------------------------------------------
   24-   44 (49.01/15.43)	PNPNPNPNP.NPNPTPP..KIPPP
   54-   74 (30.22/ 6.96)	PLSNLSPAT.ATASTLL..SLLPP
  361-  384 (33.47/ 8.42)	PLPPPGWKPgDPVPLPPlaSLPIP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     110.77|      34|      37|     277|     313|       2
---------------------------------------------------------------------------
  277-  313 (51.81/29.59)	PPAPQEEQmrASQLYNFASLDvGL..PKL.VESEEKAVEP
  317-  353 (58.97/25.41)	PPAPPPAE..PNPLSNLAAIQ.GLlhPNItVPSGWKPGMP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.98|      14|     197|     212|     225|       3
---------------------------------------------------------------------------
  212-  225 (27.31/12.28)	SDDNSPEDDDDDDD
  415-  428 (25.67/11.17)	SSDYSSEDGSSEDD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      89.95|      30|      32|     144|     175|       4
---------------------------------------------------------------------------
  146-  175 (48.25/34.29)	QTQLFEAVAQLQE...ILD.LQDARSKVAREIKS
  177-  210 (41.70/22.75)	DTALLAFAHKLKEaerVLDiLVDDYSDYRRPRRS
---------------------------------------------------------------------------




































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 MDP19315 with Med4 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) KLVESEEKAVEPMIEPPAPPPAEPNPLSNLAAIQG
2) MLQHQIVHSPARLGLTNPNSPSLPNPNPNPNPNPNPTPPKIPPPSQQPQQQQPPLSNLSPATA
3) RRPRRSKSDDNSPEDDDDDDDDDDDDDDSHATTTV
4) VPSGWKPGMPVELPSELPLPPPGWKPGDPVPLPPLASLPIPRVGEQQLRSKQPEPIQVRHVQLDIIDQDDDSSDYSSEDGSSEDDV
302
1
205
344
336
63
239
429










Molecular Recognition Features






MoRF SequenceStartStop




1) QLRSKQPEPIQVRHVQLDIIDQD
2) YRRPRR
390
204
412
209