<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 MDP22249

Description Mediator of RNA polymerase II transcription subunit 17
SequenceMSGGPAVRISIESSCEKQVQEVALDGTETYVPPLSMSQNLAKLAQRIDFSQGSDSEEDGAEGESRDREWSKQEPEEEEGAVKFQPSLWPWDSVRNNLRSALTEMCVLHDVLSVVKEKKYMALDPVSHDPSAVKTPQVFQLISKKKSLGTAAQILLKGAERLSKSVAENQENRRQRDFNSELLRLRSQWKLRKVGDKILGDLSYRSAGSLFPHHGTFEVIKNTDIHLDKKIPEDYCPLDVQIPSDLEGSAYIKVSIQKQAPDIGDLGTVNLFRRLQKNKSGTQPWHVKLEAAQNVLLCKEIFAQLSREAVQIKSQIPHIVVKNQIISQPFPGLQLSISLCHSTGDKKNSRSSPEKPKPDDHLYVLEHNLHQMMREFHKQQLSSVVMPHPATAPFGHKRMRLAGPLAYDKAEISSLQHNEGLLEKIIRQAKHIFLRSRTARTIDSLASRIEDPQIQAHWSNINDVYESSVKVLITSQGYEQICKSIQLQLNIGVKQIRVVHRDGRVITLSHQEQELQDFLLSQMSQHQVHAVQQLAKVMGWHVLSFSNHVGLGPVESIGNASAITVASPNGEFAISVRNGPESGCKVLVQFPRSQSKELPKSDVIQDSKWSHLRGPHKEVHWSKMEGRNFVYKMELLMAALTPCP
Length643
PositionHead
OrganismOryzias latipes (Japanese rice fish) (Japanese killifish)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Ovalentaria> Atherinomorphae> Beloniformes> Adrianichthyidae> Oryziinae> Oryzias.
Aromaticity0.06
Grand average of hydropathy-0.483
Instability index55.59
Isoelectric point8.67
Molecular weight72295.63
Publications
PubMed=17554307

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

>MDP22249
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.48|      13|      17|      48|      60|       1
---------------------------------------------------------------------------
   48-   60 (23.12/12.55)	DFSQGSDSEEDGA
   68-   80 (24.36/13.59)	EWSKQEPEEEEGA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     264.89|     108|     252|     251|     388|       2
---------------------------------------------------------------------------
  187-  245 (64.13/27.27)	QWKLRKVGDkiLGDLS.YR....SAGSLFPHHGTFEVIKntDIHLDKKIPEDYCPLDVQIPSDL..........................................................................................
  256-  386 (154.99/160.63)	QKQAPDIGD..LGTVNlFRrlqkNKSGTQPWHVKLEAAQ..NVLLCKEIFAQLSREAVQIKSQIphivVKNQIISQPFPG......LQLSIS.....LCHSTGdkknsR....SSPEKPKPDdhlYVL....EHNLHqmmrEFhkQQLSSVVMP
  468-  539 (45.77/19.68)	....................................................................VKVLITSQGYEQicksiqLQLNIGvkqirVVHRDG.....RvitlSHQEQELQD...FLLsqmsQHQVH....AV..QQLAKVMGW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.37|      24|     161|     442|     465|       3
---------------------------------------------------------------------------
  442-  465 (44.77/30.27)	DSLASRIEDPQIQAHWSNI...NDVYE
  605-  631 (43.60/29.29)	DSKWSHLRGPHKEVHWSKMegrNFVYK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.52|      14|      16|     108|     122|       4
---------------------------------------------------------------------------
  108-  122 (19.71/20.21)	HDVlSVVKEKKYMAL
  127-  140 (25.81/20.41)	HDP.SAVKTPQVFQL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.26|      11|      24|     544|     555|       5
---------------------------------------------------------------------------
  544-  555 (17.47/15.01)	FSNHVGLGPvES
  571-  581 (20.79/12.57)	FAISVRNGP.ES
---------------------------------------------------------------------------




































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 MDP22249 with Med17 domain of Kingdom Metazoa
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