<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 MDP16158

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMLQSQILQSPARLGLTNPNSPSLSSNPTTPNLSSQNPQHHYSHQQHQQQQSPLPTTLTTTTTSSTLLSLLPPLSRAQSLLLQMASLAAKLFEVSPNRSLWLASFRGSLPTFLSSQIQNLNPPPLDSSPSSPKEILSIFTSLQTQLFEAVAELQEILDLQDAKQKIAREIRAKDSVLLAFANKIKEAEHVLDVLVDDYSDYRRSKRLKSEVIVDPMDDTVTMEDSDSNSSNASVGTTLSLSDILSYAHRVSYTTFAPPEFGAGQGPLRGALPPAPQEEQMRASQLYAFADLDVGLPKVVEADERTIDSLVEPSAMQPKENVDFAPVQGLVPPPGWKIGMPVELQGLPSVLPPPPPGWKPGDPIPLPPTGAFAPKADELPPRPVAHMPAKAPEPIQVRFVQLDINPDQDDDSSDFSTRGSSEEDDED
Length425
PositionMiddle
OrganismAquilegia coerulea (Rocky mountain columbine)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Ranunculales> Ranunculaceae> Thalictroideae> Aquilegia.
Aromaticity0.05
Grand average of hydropathy-0.415
Instability index69.30
Isoelectric point4.65
Molecular weight46217.35
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

>MDP16158
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.07|      14|      19|     330|     346|       1
---------------------------------------------------------------------------
  330-  343 (31.19/ 8.41)	PPPGWKIGMPVELQ
  352-  365 (33.88/13.29)	PPPGWKPGDPIPLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      91.40|      20|     107|       2|      21|       2
---------------------------------------------------------------------------
    2-   21 (36.39/16.69)	LQSQILQ.S..PARLGLTNPNSP
   44-   64 (23.96/ 8.58)	QQHQQQQ.SplPTTLTTTTTSS.
  112-  131 (31.06/13.22)	LSSQIQNlN..PPPLD.SSPSSP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     149.75|      49|     107|     260|     319|       3
---------------------------------------------------------------------------
  260-  319 (68.53/51.00)	GAgQGPLRGALPP.........APQEEQMRasqlyaFADLDVGlPkvvEADERTIDSLVEPSAMQPKEN
  368-  425 (81.22/36.85)	GA.FAPKADELPPrpvahmpakAPEPIQVR......FVQLDIN.P...DQDDDSSDFSTRGSSEEDDED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.41|      28|      32|     149|     176|       4
---------------------------------------------------------------------------
  149-  176 (43.19/30.44)	VAELQEILD.LQDAKQKIAREIRAKDSVL
  183-  211 (41.22/28.75)	IKEAEHVLDvLVDDYSDYRRSKRLKSEVI
---------------------------------------------------------------------------




































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 MDP16158 with Med4 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) EADERTIDSLVEPSAMQPKENVDFAPVQGL
2) LQSPARLGLTNPNSPSLSSNPTTPNLSSQNPQHHYSHQQHQQQQSPLPTTLT
3) PVELQGLPSVLPPPPPGWKPGDPIPLPPTGAFAPKADELPPRPVAHMPAKAPEPIQVRFVQLDINPDQDDDSSDFSTRGSSEEDDED
299
7
339
328
58
425










Molecular Recognition Features






MoRF SequenceStartStop




1) EDDED
2) VAHMPAKAPEPIQVRFVQLDINPDQ
421
382
425
406