<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 MDP27276

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMMDLAYVCEWEKRPKSNHCPSIPLVCAWSCRNLIAFTTDLKNEEEKDLTHMIHILDTEHPWDVYSINSEHNEMITCLEWDQSGSRLLSADADGHVKCWSMSDHLANSWENTVGSMVEGDPIVSLSWLHNGVKLALHVEKSGASSFGDKFSRVKFSPSLTLFGGKPMEGWIAVTISGLVTVSLLKPNGQVLTSTESLCRLRCRVALADIAFTGGGNIVVATSDGSSTSPVQFYKVCVSVVNEKCRIDTEILPSLFMRCTTDPARKDKYPAITHLKFLARDMSEQVLLCASNQMSSIVECWSLRKEGLPVNNIFQQISPVVGEKQPMILKWRILSATNDLDRVSAVALPKLPISLTNTDLKVANDTKFCPGLGLALAFHDGSVHIVHRLSLQTMAMFYGSSSQRPVDEQAIKRQRAAGPSIHFKAMQLSWTSLALVGIDNHGKLSMLRISPSMGHALDMNMSLRHLLFLLEYCMVTGYDWWDILLHVQPSMVQNLVEKLHEEYMRQNAALQQVLSTRIVAMKASLCKLSSCTVARVCDYHAKLFLIAISSTLKSLLRPHFLNTPDKSPGDRLTEICSKITDVDIDKVMINLKTEEFVLEMTTLQSLQQLIQWVGDFVLYLLASLPNQGSPVRPGHSFLRDGASLGMLRELMVVIRIWGLLKPSCLPIYTATSDTQDSMSLLFRLLTKLWLCCRDENHPSEPDETLIDECCLLPSQLLIPNLDWLPISDGIISKLQSKQLVRLQFGKAPGLLGYAGTPPFDVLARAPGQPKIDHLRRLHLGAYPTEECKSCTRCGCVTVLRSPHKATAVKQWEQRWTKNCLCGGLWRRMPASYS
Length831
PositionTail
OrganismMonodelphis domestica (Gray short-tailed opossum)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Metatheria> Didelphimorphia> Didelphidae> Monodelphis.
Aromaticity0.07
Grand average of hydropathy-0.021
Instability index49.00
Isoelectric point7.87
Molecular weight92817.93
Publications
PubMed=17495919

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	IBA:GO_Central

GO - Biological Function
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
positive regulation of transcription, DNA-templated	GO:0045893	IBA:GO_Central









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP27276
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     282.77|      91|      97|     237|     332|       1
---------------------------------------------------------------------------
  237-  332 (148.85/107.95)	SVVNEKCRIDTEILPSLFMRCT.TD..PARKDKY.PAItHLKFLARDMSEQVLLCASNQMSSIVECWSLRKeglPVNN..IFQQ..ISPVVGEKqPMILKWRIL
  333-  431 (133.92/82.61)	SATNDLDRVSAVALPKLPISLTnTDlkVANDTKFcPGL.GLALAFHDGSVHIVHRLSLQTMAMFYGSSSQR...PVDEqaIKRQraAGPSIHFK.AMQLSWTSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     154.60|      51|      55|      77|     130|       2
---------------------------------------------------------------------------
   71-  128 (78.28/50.89)	NEmitcLEWDQSGSRLLsADADGHVK.CWSMSDHLANSWENTVGSMVEGdpIVSLSWLH
  129-  184 (76.32/40.22)	NGvklaLHVEKSGASSF.GDKFSRVKfSPSLTLFGGKPMEGWIAVTISG..LVTVSLLK
---------------------------------------------------------------------------




































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 MDP27276 with Med16 domain of Kingdom Metazoa
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