<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 MDP00388

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMEVAYVCEWEKRPKSNHYPSIPLVCAWSCRNLVAFTTDLKNEEDEKEVSHMVHIIDTEHPWDVYSINSGHGEVISCLEWDQSGSRLLSADGDGQIKCWAMADHLVNSWESSLGSAEDGDPIIALSWLHNGVKLALHVEMSGSTNFGEKFSRVKFSPSLTLFGGKPMEGWLAVTVSGLVTVSLLKPNGQLLTASESLCRLRGRVALADIAFTGGGNIVVAATDGSSSSPVQFYKVCVSVVNEKCRIDTELLPSLFMRCTTDPVRRDKYPAVTHLKFLTRENSEQVLLCASSQMGSIVECWSLRKEGLPVNNIFQHRSPVVGEKQPTILKWRILSATNDLDRVSAVALPKLPISISNTDLKVASDTKFCPGLGLALAFHDGSIQILHRLSLHTMGVFYGSSSGSSQRPGDEPAIKRQRPGGPTVHFKALQFSWTSLALAGVDNHGKLHMIRVSPSMGQMLDMNTLLRHLLFLLEYCMVTGYDWWDVLLHVQPGMVHNLVEKLHEEYMRQNQALQQVLSTRIVAVKASLCKLSSATAARACDFHAKLLLIAISSTLKSLLRPHVLNTPDKSPGDRLAEICSKNTDTDIDKVMINLKTEEFVLDGPPLQSLQQLIQWVGDFVLYLMANLPNQGSVVRPGFGFLRDGWSLGMLREMMVMIRIWGLLKPGCLPIYTATSDNQDSMSLLFRLLTKLWLCSRDEGHPQEPDEPLIDECCLLPSQLLVPSMDWLPVNDGIICKLQGKHPLRLQFGKPYSLPGLNSTPQVEVFSRSPGVQRMDHLRCLYMGVCPTEDSKACTRCGCVTMLRSPNKTNAMKQWEQRWIKNCLCGGLWRRIPSTLS
Length834
PositionTail
OrganismOncorhynchus mykiss (Rainbow trout) (Salmo gairdneri)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Protacanthopterygii> Salmoniformes> Salmonidae> Salmoninae> Oncorhynchus.
Aromaticity0.07
Grand average of hydropathy-0.077
Instability index47.26
Isoelectric point7.50
Molecular weight92742.38
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
catalytic activity	GO:0003824	IEA:InterPro

GO - Biological Process








Interaction





Binary Interactions











Repeat regions





Repeats

>MDP00388
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     320.28|     117|     349|     291|     427|       1
---------------------------------------------------------------------------
   93-  160 (92.41/48.81)	GQI.KCWAM.ADHL.VNS.WESSLGSAEDGDPIIaLSW........LHNGVKLALHVEMSGSTNFGEKF.SRVKFSPSLTL...........................................................
  293-  427 (162.42/155.00)	GSIvECWSLrKEGLpVNNiFQHRSPVVGEKQPTI.LKWrilsatndLDRVSAVALPKLPISISNTDLKVaSDTKFCPGLGLaLAFHDG...SIQILHRLSLHtMGVFYgSSSGSSQRPGDEpaIKRQRPGGPTV.HFKAL
  720-  778 (65.45/31.51)	............................................................................PSMDW.LPVNDGiicKLQGKHPLRLQ.FGKPY.SLPGLNSTPQVE..VFSRSPGVQRMdHLRCL
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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 MDP00388 with Med16 domain of Kingdom Metazoa
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