<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 MDP01569

Description Mediator of RNA polymerase II transcription subunit 8
SequenceMQEDVTPALHILPLTSGPRVAPDRPSPPAPGAPRPSHSPPAPGGAREEAPRLTSDLVVSAPGRKRKLVGSPSSKRSDWWTKHPQRAQVTGEPEEEFIVAAKATAMQREEKQLEASLDALLSQVADLKNSLGSFIYKLENEYDRLTWPSVLDSFALLSGQLNTLNKVLKHEKTPLFRNQVIIPLVLSPDRDEDLMRQTEGRVPVFSHEVVPDHLRTKPDPEVEEQEKQLTTDAARIGADAAQKQIQSLNKMCSNLLEKISKEERESESGGLRPNKQTFNPADTNALVAAVAFGKGLSNWRPSGSSGPGQPSQPGAGTILAGTSGLQQVQMAGTPSQQQPMLSGVQMAQAGQPGKMPSGIKTNIKSASMHPYQR
Length372
PositionHead
OrganismFukomys damarensis (Damaraland mole rat) (Cryptomys damarensis)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Glires> Rodentia> Hystricomorpha> Bathyergidae> Fukomys.
Aromaticity0.04
Grand average of hydropathy-0.624
Instability index56.05
Isoelectric point8.52
Molecular weight40259.03
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: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

>MDP01569
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      94.87|      27|      27|     294|     320|       1
---------------------------------------------------------------------------
  294-  320 (50.31/24.57)	GLSNWRPSGSSGPGQPSQPGAGTILAG
  323-  349 (44.56/20.96)	GLQQVQMAGTPSQQQPMLSGVQMAQAG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.74|      24|      29|       7|      34|       2
---------------------------------------------------------------------------
    7-   31 (44.06/24.09)	PAlHILPLTSGPR.VAPDRPSP...PAPG
   35-   62 (37.69/11.27)	PS.HSPPAPGGAReEAPRLTSDlvvSAPG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.18|      25|      28|     171|     196|       3
---------------------------------------------------------------------------
  171-  196 (40.28/30.01)	KTPLFRNQViIP..LVLSPDRD.EDLMRQ
  200-  227 (35.90/21.71)	RVPVFSHEV.VPdhLRTKPDPEvEEQEKQ
---------------------------------------------------------------------------




































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 MDP01569 with Med8 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) FSHEVVPDHLRTKPDPEVEEQEKQLTTDAARIGADA
2) LSNWRPSGSSGPGQPSQPGAGTILAGTSGLQQVQMAGTPSQQQPMLSGVQMAQAGQPGKMPSGIKTNIKSASMHPYQR
3) MQEDVTPALHILPLTSGPRVAPDRPSPPAPGAPRPSHSPPAPGGAREEAPRLTSDLVVSAPGRKRKLVGSPSSKRSDWWTKHPQRA
4) NLLEKISKEERESESGGLRPNKQTFNPADTN
204
295
1
253
239
372
86
283










Molecular Recognition Features






MoRF SequenceStartStop




1) APGRKRKLVG
2) IKTNIKSASMHPYQR
3) KRSDWW
60
358
74
69
372
79