<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 MDP00433

Description Mediator of RNA polymerase II transcription subunit 8
SequenceMQQREEKLLDASVESLISRVAHLKNALHSFIYKLENEYERLTWPSVLDNFALLSGQLNTINKLLRNEKTPSFRQQIIIPLLLSPDRDEELAKLTEQRVPVFSHEIVPDHLRTKPDPEVEEQEKQLSAEAARIGPEVAQKQIQTLNKLCSNLLEKLNNPRDDRDADSAAIRQNKPSFNPADTNALVAAVGFGKGLSKCRPPGPVAPGHTGQGPMMSGGPTLQQVTIGGGSGQQQGMGPGAPQQQGQPGKMPCNIKTNIKAASSMHPYNR
Length268
PositionHead
OrganismOncorhynchus mykiss (Rainbow trout) (Salmo gairdneri)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Protacanthopterygii> Salmoniformes> Salmonidae> Salmoninae> Oncorhynchus.
Aromaticity0.04
Grand average of hydropathy-0.626
Instability index44.44
Isoelectric point8.39
Molecular weight29401.06
Publications
PubMed=24755649

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. 
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

>MDP00433
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.53|      26|      28|      62|      89|       1
---------------------------------------------------------------------------
   62-   89 (37.42/32.62)	KlLRNEKTPSFRQQIiIP..LLLSPDRD.EE
   92-  120 (36.11/22.14)	K.LTEQRVPVFSHEI.VPdhLRTKPDPEvEE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      89.95|      24|      34|     188|     213|       2
---------------------------------------------------------------------------
  188-  213 (45.48/25.60)	VGFGKGLSKCRPPGpvAPGHTGQ.GPM
  225-  249 (44.46/19.80)	IGGGSGQQQGMGPG..APQQQGQpGKM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.73|      13|      16|     156|     168|       3
---------------------------------------------------------------------------
  156-  168 (23.84/15.18)	NNPR...DDRDADSAA
  172-  187 (16.89/ 8.93)	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 MDP00433 with Med8 domain of Kingdom Metazoa
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