<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 MDP33173

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMLQHQIVQSPARLGLTNPNSPSLQNPNPNPSPTKFPTSATHHHLRSATPPTAPITTGTTACTSSTLLSLLPPLPRAQALLLQMASLASKLFEVSPNRSLWISAFRGSLPTFLSSQAQSQPPPPIDSSPSTIKEIIACFTSLQTQLFEAVAELQEILDLQDAKQKIAREIKAKDSAILAFANKIKEAERVLDILVDDYSDYRRPKRVKSEGADGNDDDSGSCSTTVESQLNLSDILSYAHRISYTTFAPPEFGAGQGPLRGALPPAPQEEQMRASQLYTFADLDVGLPKVVETKEKTIEAIIEPPPLQPVDANPLKDLAGLLPPNITVPSGWKPGMPVELPKDFPLVPPPGWKPGDAVPLPPLDALPMPRIEEQQLRPVPPQGLHKPPEPIQVRHVELDILDQDDDSSDYSSEEGSSEDDG
Length420
PositionMiddle
OrganismCitrus clementina
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> malvids> Sapindales> Rutaceae> Aurantioideae> Citrus.
Aromaticity0.05
Grand average of hydropathy-0.406
Instability index76.65
Isoelectric point4.83
Molecular weight45496.93
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

>MDP33173
---------------------------------------------------------------------------
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 (39.16/21.63)	GWKPGMPVELPKDFP.L..VP
  350-  366 (29.25/14.07)	GWKPGDAVPLP...P.LdaLP
  374-  387 (27.95/13.08)	QLRPVPPQGLHK..P.....P
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      98.63|      32|      32|     103|     134|       2
---------------------------------------------------------------------------
  103-  134 (55.90/30.24)	AFRGSLPT.FLSSQAQSQPPPPIDSSPSTI.KEI
  136-  169 (42.73/21.42)	ACFTSLQTqLFEAVAELQEILDLQDAKQKIaREI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.66|      19|      40|      10|      32|       3
---------------------------------------------------------------------------
   10-   28 (35.49/12.43)	PARLGLTNPNSPSLQNPNP
   53-   71 (30.17/10.76)	PITTGTTACTSSTLLSLLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     136.02|      36|     211|     182|     219|       4
---------------------------------------------------------------------------
  182-  219 (58.80/41.89)	KIKEAERVLDIL..VD....DYSDYRRPKrvKSEGADGNDDDSG
  224-  260 (49.72/29.29)	TVESQLNLSDIL..SYahriSYTTFAPPE....FGA.GQGPLRG
  397-  420 (27.50/13.06)	........LDILdqDD....DSSDY......SSE..EGSSEDDG
---------------------------------------------------------------------------




































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 MDP33173 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