<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 MDP15239

Description Mediator of RNA polymerase II transcription subunit 17
SequenceMAAMGDDLPLDFDKLPIKRLEAIDEAGNEHYPPYEEQRLAAIRRVDFSRVVERDAKKAKKAAAEDAAHKAWQWQGLHESLQLAHQELTVVLDLISTVEANDTVTVATFSKPKKRLDKVLVNMAVSAATKLQRLRHLGRYFKQSAKTMEQQFQKEARFYGSLIRLQQNWKVNRQCGNAPGSNSFMFDVVDTSHLDTAVMPRSSSLSLVPIDQDSSGTLSVHVPQKSCRFLSLQFCGDSTSGTESYACNTKGVSSTTSSAVEDDVPENDDVNKSVKQAHSILRNIHRSIFEEQVFDMVTCETFVQTKGVNVTGMWEDFLQIAIDQEILLCLSLVNSGQDSDSEMAGHEEHNNSEANLVLATTNGKQEPLKSDASGFLNPKSLEIYLLHMFHDNILRKVREKYRNIVRYQSPGQTAEPAGDECGLLGHFCMTVAHKIFSNKVQLELESVLSRVPYLHLQSLPTWHSRTSSWSLCLRIPPPILAADKPSDNGEPKYKSSRTQFNTKIVLKDVQISLFGEGSPSIAGSLTRKPSDGYLINNYNCDLEDLPTMVLQQVASQVINWLHEETQVLGMSVTRDFLGLYFDLDHGDTMLGLVAHVDPDDAYGCVSWYLTVDHPAEEDGMTPAANGPWAEEEKCRFLGYLSLEVLYSTLMDLINLCGTGHRPTR
Length663
PositionHead
OrganismHordeum vulgare subsp. vulgare (Domesticated barley)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Liliopsida> Poales> Poaceae> BOP clade> Pooideae> Triticodae> Triticeae> Hordeinae> Hordeum.
Aromaticity0.07
Grand average of hydropathy-0.362
Instability index45.57
Isoelectric point5.47
Molecular weight74075.82
Publications
PubMed=23075845

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
core mediator complex	GO:0070847	IBA:GO_Central
mediator complex	GO:0016592	IBA:GO_Central

GO - Biological Function
transcription coregulator activity	GO:0003712	IBA:GO_Central

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP15239
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     119.94|      38|      42|     469|     508|       1
---------------------------------------------------------------------------
  469-  508 (59.52/50.82)	SLCLRIPPPILAA..DKPSDnGE..PKYKSSRTQFNTkIVLKDV
  511-  552 (60.42/41.51)	SLFGEGSPSIAGSltRKPSD.GYliNNYNCDLEDLPT.MVLQQV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.59|      17|     122|     204|     220|       2
---------------------------------------------------------------------------
  204-  220 (29.97/17.33)	LSLVPIDQDSSGTLSVH
  329-  345 (30.61/17.84)	LSLVNSGQDSDSEMAGH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.51|      21|      46|     354|     375|       4
---------------------------------------------------------------------------
  354-  375 (31.69/21.79)	NLVLATTNGK.QEPlKSDASGFL
  402-  423 (34.82/19.69)	NIVRYQSPGQtAEP.AGDECGLL
---------------------------------------------------------------------------




































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 MDP15239 with Med17 domain of Kingdom Viridiplantae
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