<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 MDP11958

Description Mediator of RNA polymerase II transcription subunit 8
SequenceMPTVALIIYFRYIFISLAGRFATLIKMQQREEKLLDASVESLISRVAHLKNALHSFIYKLENEYERLTWPSVLDNFALLSGQLNTINKLLRNEKTPSFRQQIIIPLLLSPDRDEELAKLTEQRVPVFSHEIVPDHLRTKPDPEVEEQEKQLSAEAARIGPEVAQKQIQTLNKLCSNLLEKLNNPRDDRDADSAAIRQNKPSFNPADTNALVAAVGFGKGLSKCRPPGPVAPGHTGQGPMMSGGPTLQQVTIGGGSGQQQGMGPGAPQQQGQPGKMPCNIKTNIKAASSMHPYNR
Length294
PositionHead
OrganismSalmo salar (Atlantic salmon)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Protacanthopterygii> Salmoniformes> Salmonidae> Salmoninae> Salmo.
Aromaticity0.05
Grand average of hydropathy-0.454
Instability index43.45
Isoelectric point9.06
Molecular weight32401.74
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
integral component of membrane	GO:0016021	IEA:UniProtKB-KW
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

>MDP11958
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.53|      26|      28|      88|     115|       1
---------------------------------------------------------------------------
   88-  115 (37.42/29.55)	KlLRNEKTPSFRQQIiIP..LLLSPDRD.EE
  118-  146 (36.11/19.99)	K.LTEQRVPVFSHEI.VPdhLRTKPDPEvEE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      89.95|      24|      34|     214|     239|       2
---------------------------------------------------------------------------
  214-  239 (45.48/30.10)	VGFGKGLSKCRPPGpvAPGHTGQ.GPM
  251-  275 (44.46/23.36)	IGGGSGQQQGMGPG..APQQQGQpGKM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.40|      25|      30|      26|      53|       3
---------------------------------------------------------------------------
   26-   53 (34.05/29.18)	KMQQREEKLldaSVESLISRVAHLKNAL
   59-   83 (42.35/27.64)	KLENEYERL...TWPSVLDNFALLSGQL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.73|      13|      16|     182|     194|       4
---------------------------------------------------------------------------
  182-  194 (23.84/18.63)	NNPR...DDRDADSAA
  198-  213 (16.89/11.15)	NKPSfnpADTNALVAA
---------------------------------------------------------------------------




































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 MDP11958 with Med8 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) CSNLLEKLNNPRDDRDADSAAIRQNKPSFNPADTNALV
2) EIVPDHLRTKPDPEVEEQEKQLSAEAARIGPEV
3) LSKCRPPGPVAPGHTGQGPMMSGGPTLQQVTIGGGSGQQQGMGPGAPQQQGQPGKMPCNIKTNIKAASSMHPYNR
174
130
220
211
162
294










Molecular Recognition Features






MoRF SequenceStartStop




1) MPCNIKTNIKAASSMHPYNR
275
294