<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 MDP28247

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMAASDPGRWGECGPRPPGRLGARGGQEPGTVLGAVGMMDLAYVCEWEKWAKSTYCPSLPLACAWSCRNLIAFTTDLRNDDQDLTHMIHILDTEHPWEVHSVSSGHSEAITCLEWDQSGSRLLSADADGQIKCWSMADHLANSWESSVGSQVEGDPIVALSWLHNGVKLALHVEKSGASSFGEKFSRVKFSPSLTLFGGKPMEGWIAVTVSGLVTVSLLKPSGQVLTSTESLCRLRGRVALADIAFTGGGNIVVAAADGSSASPVKFYKVCVSVVSEKCRIDTEILPSLFMRCTTDPNRKDRFPAITHLKFLARDMSEQVLLCASSQTSSLVECWSLRKEGLPVNNIFQQISPVVGDKQPMILKWRILSATNDLDRVSAVALPKLPISLTNTDLKVASDTQFYPGLGLALAFQDGSVHMVHRLSLQTMAVFYSSAPRSLDEPALKRPRTTCPAVHFKAMQLSWTSLALVGIDNHGKLSMLRISPSLGHPLEPKLALQHLLFLLEYCMVTGYDWWDILLHVQPGMVQSLVERLHEEYTRQKPALQQVLSTRILAMKASLCKLSPCTVARVCDYHTKLFLMAITSTLKSLLRPHFLNTPDKSPGDRLAEICAKITDVDIDKVMINLKTEEFVLDMNTLQALQQLLQWVGDFVLYLLVSLPNQGSPLRPGHSFLRDGTSLGMLRELMVVIRIWGLLKPSCLPVYTATSDTQDSMSLLFRLLTKLWICCRDEGAASEPDEGLVDECCLLPSQLLVPNLDWLPASDGLVSRLQPKQPLRLRFGRAPTLPSSTSTLQLDGLTRAPGQPKIDHLRRLHLGAYPTEECKACTRCGCVTMLKSPNKTTAVTQWEQRWIKNCLCGGLWRRVPLSCS
Length865
PositionTail
OrganismMus musculus (Mouse)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Glires> Rodentia> Myomorpha> Muroidea> Muridae> Murinae> Mus> Mus.
Aromaticity0.07
Grand average of hydropathy-0.006
Instability index48.76
Isoelectric point8.11
Molecular weight95415.73
Publications
PubMed=19468303

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:Ensembl

GO - Biological Function
catalytic activity	GO:0003824	IEA:InterPro
thyroid hormone receptor binding	GO:0046966	IEA:Ensembl
transcription coactivator activity	GO:0003713	IEA:Ensembl

GO - Biological Process
positive regulation of transcription initiation from RNA polymerase II promoter	GO:0060261	IEA:Ensembl









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP28247
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     293.11|      73|     188|     303|     377|       1
---------------------------------------------------------------------------
  109-  161 (78.80/46.65)	ITCLEW...DQSGSRLL..SADADGQI.KCWSM.A.......DHL.ANS.WESSVgSQVEGD.PIVALSW...................
  305-  377 (128.41/78.72)	ITHLKFLARDMSEQVLLCASSQTSSLV.ECWSLRK.......EGLPVNN.IFQQI.SPVVGDKQPMILKW....RILSATN..DLDRVS
  717-  795 (85.90/50.83)	LTKLWICCRDEG.....AASEPDEGLVdECCLLPSqllvpnlDWLPASDgLVSRL.QP....KQPLRLRFgrapTLPSSTStlQLDGLT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     132.52|      33|     368|     183|     220|       2
---------------------------------------------------------------------------
  183-  215 (57.86/31.78)	KFSRVKFSPSLTLFGGKPMEGWIAVTVSGLVTV
  224-  253 (47.00/30.89)	VLTS...TESLCRLRGRVALADIAFTGGGNIVV
  475-  494 (27.65/ 8.67)	KLSMLRISPSL....GHPLEPKLA.........
---------------------------------------------------------------------------




































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 MDP28247 with Med16 domain of Kingdom Metazoa
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