<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 MDP28405

Description Mediator of RNA polymerase II transcription subunit 8
SequenceMKKAAQSCLSREEKQLEASLDALLSQVADLKNSLGSFIYKLENEYDRLTWPSVLDSFALLSGQLNTLNKVLKHEKTPLFRNQVIIPLVLSPDRDEDLMRQTEGRVPVFSHEVVPDHLRTKPDPEVEEQEKQLTTDAARIGADAAQKQIQSLNKMCSNLLEKISKEERESESGGLRPNKQTFNPADTNALVAAVAFGKGLSNWRPSGSSGPGQPGQPGAGTILAGTSGLQQVQMAGTPSQQQPMLSGVQMAQAGQPGKMPSGIKTNIKSASMHPYQR
Length276
PositionHead
OrganismHeterocephalus glaber (Naked mole rat)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Glires> Rodentia> Hystricomorpha> Bathyergidae> Heterocephalus.
Aromaticity0.04
Grand average of hydropathy-0.567
Instability index49.42
Isoelectric point7.75
Molecular weight30012.66
Publications
PubMed=21993625

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:RU364144
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

>MDP28405
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      96.88|      27|      28|     198|     224|       1
---------------------------------------------------------------------------
  167-  191 (21.55/ 8.11)	.....RESESGGlrPNkQT..........FNPADTNALVA
  198-  224 (52.86/30.22)	GLSNWRPSGSSG..PG.QP..........GQPGAGTILAG
  227-  256 (22.48/ 8.77)	GLQQVQMAGTPS..QQ.QPmlsgvqmaqaGQPG.......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.18|      25|      28|      75|     100|       2
---------------------------------------------------------------------------
   75-  100 (40.28/23.84)	KTPLFRNQViIP..LVLSPDRD.EDLMRQ
  104-  131 (35.90/17.32)	RVPVFSHEV.VPdhLRTKPDPEvEEQEKQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.55|      24|     119|      21|      44|       3
---------------------------------------------------------------------------
   21-   44 (37.43/28.38)	DALLSQVADLKNSLGSFIYKLENE
   51-   74 (38.12/29.02)	PSVLDSFALLSGQLNTLNKVLKHE
---------------------------------------------------------------------------




































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 MDP28405 with Med8 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) FSHEVVPDHLRTKPDPEVEEQEKQLTTDAARIGADA
2) LSNWRPSGSSGPGQPGQPGAGTILAGTSGLQQVQMAGTPSQQQPMLSGVQMAQAGQPGKMPSGIKTNIKSASMHPYQR
3) NLLEKISKEERESESGGLRPNKQTFNPADTN
108
199
157
143
276
187










Molecular Recognition Features






MoRF SequenceStartStop




1) GIKTNIKSASMHPYQR
261
276