<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 MDP25085

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMTILYKVEGKEFSKDSVFPHKNVLCSVSARNIVAFSALQSAIFSASHGGDAGDGSLPGAGLGVGASNSHVYVCDIVTPWEYYKVCSSKSLISVLQWSPNGEQLLLGYVGGRVEIWQPRNQSINLWVLQYYATVPSEDIIEAQFFHNGKGVIFNALKKDHTYYAEKFERVEQQRPTLSGFGGVASEGCVLLTSSGLLAAFSLPAIQKTSAAGGAADGPAHEVVELTPALHSIGISRSFIEHCSMTPSPSGALSIAFSCGWQQQLVQCFKVSLSLEGELGLEQHLAIKSESQTSIFLGPLDGRRISHLKWTRIANEDVIFIAYACPDGAGSQLEQWTLTRRHQSVHTLLQGGGGANNKPNEFVQSESWEQVGKVQLNASLADISVTRLSVSTPDFCQVYAILHDNSVQVLEPNSMKQLSHTQFDKLSGASGGIKFVSGDLTPSSQMLLIFDSHAQLYAMQAPLLKQGGSGFLLLEYCIVTGCDASDVLLLNLGNLEALVEKLTDNFTRQPSFVRHFYYANFLALKSNICRVQQQEFDNLIILHAISTTFKSLLRPSDLGFQDKGPADNLAIKLAESIPDVDTVMLNLDAKDFTVEPVMLQSLQQLIQWVTDLALNMLHRLPEEVMKTKLSGKRPSYDISRDIVAISSLRELLVMIRIWGLLNTQCLPVYTKTMDNIDVLVILFRLLTRLAQNPAEPDEMLLDECSLLSKQLLIPQPTKFNPTTLLSAQGFAAVKSGQLQFTSLEEPTCLQDMETEEVVFASSVKDGVSNLQLGARPSHIRRCARCGFVFVNNASKVAKTSALKAWFSKWLHCHCGGFWKQVH
Length820
PositionTail
OrganismDrosophila sechellia (Fruit fly)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Diptera> Brachycera> Muscomorpha> Ephydroidea> Drosophilidae> Drosophila> Sophophora.
Aromaticity0.08
Grand average of hydropathy0.019
Instability index43.37
Isoelectric point6.07
Molecular weight90054.12
Publications
PubMed=17994087

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:EnsemblMetazoa

GO - Biological Function
transcription coregulator activity	GO:0003712	IEA:EnsemblMetazoa

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IEA:EnsemblMetazoa
response to heat	GO:0009408	IEA:EnsemblMetazoa
response to lipopolysaccharide	GO:0032496	IEA:EnsemblMetazoa









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP25085
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.25|      23|      27|     708|     734|       1
---------------------------------------------------------------------------
  687-  709 (36.72/20.63)	LAQNPAE..PDEMLLDE..CSLLSKQL
  710-  736 (29.53/28.49)	LIPQPTKfnPTTLLSAQgfAAVKSGQL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     487.19|     157|     213|      91|     298|       2
---------------------------------------------------------------------------
   91-  257 (251.46/249.75)	ISVLQWS..PNGEQLLLGY.....VGGRVEIW..QPRNQSINLwVLQ..YYATVPSEDIIEAQFFHNGKGVIFNALKKDHTyyaekFERVEQQRPTLSGFGGVASEGCVLLTSSGLLAAFSLPAIQKTSaagGAADGPAHEVVELTPALHSIGISRSFIEHCSM.TP....SPSGALSIAFsC
  303-  475 (235.74/142.65)	ISHLKWTriANEDVIFIAYacpdgAGSQLEQWtlTRRHQSVHT.LLQggGGANNKPNEFVQSESWEQVGKVQLNASLADIS.....VTRLSVSTPDFCQVYAILHDNSVQVLEPNSMKQLSHTQFDKLS...GASGGIKFVSGDLTPSSQMLLIFDSHAQLYAMqAPllkqGGSGFLLLEY.C
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.52|      14|      27|     770|     784|       3
---------------------------------------------------------------------------
  770-  784 (24.59/21.84)	LGARPSHIRRCaRCG
  800-  813 (31.93/23.25)	LKAWFSKWLHC.HCG
---------------------------------------------------------------------------




































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 MDP25085 with Med16 domain of Kingdom Metazoa
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