<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 MDP26880

Description Mediator of RNA polymerase II transcription subunit 17
SequenceMADSAGTADTPALFGLRDAVFRPWPLPGQEPANIGDFVRRIKAQGGEFRKLTEESLRKEIEERRTRREAGNGSDGDDADEASGRGADENEEAANDTLAHRTKGIEAMIAKRDEVLRTLESALQNGLIVVDFVSLLLSKDRPTQALQSLSPMLREKIGIGTLSAGRIANAAQAAKALQTRHGGGRGGGGGPGLAGGQILDETTRSNAQRVLDHKIECVGWQLLAMDRAAELLAAGRKRLHAELRREQMYWSEVVAVRDRGWALSRTPGQRRLLRVKFGFSEAAADLRAAGFAPLRRVKRGHVALDITALGPPSAIVVTLRRRNAAGNVDIIGRSSPPIRLPPSAPLENRILEARNTVYAKELWRELNREARLLVAHGIALRGPLIVFPAGAHTEGIIALEPLQLVASDAGAVAIATAEMDRVAEVTASSLHLFLAHGHRHHYRLRSVPAPPSDSTGTPPPAYYLLRPILANLKYEKALEHIARFLSDLCSILHRVGHTTAQFTLFERPLASSIPPPTAGSASRQLAASEGVCMAFLNPREFTFELTLAPDIRLSIRSRTTNMPLRTQYLIQLHPPPTGGSSPLQDSFPPADNYATLRDVLDYVSSAVGHVLAADARKAAIAHEDASQTGVIWSRTVDGTALQHQNDPLWEMRFSLTSTDTITELDEILDADVDEGDGREADGDGHVLGNPNLNTKSETADEDGPREDGGDDTALVDDDSPLRKFCPPELRLYASWPHGTLESAVYRRWAWTAESPQQQKQEDASPSTLHDIVQGCINGELKPAADTDQ
Length787
PositionHead
OrganismGrosmannia clavigera (strain kw1407 / UAMH 11150) (Blue stain fungus) (Graphiocladiella clavigera)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Sordariomycetidae> Ophiostomatales> Ophiostomataceae> Grosmannia.
Aromaticity0.05
Grand average of hydropathy-0.374
Instability index50.29
Isoelectric point5.92
Molecular weight85483.18
Publications
PubMed=21262841

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
transcription coregulator activity	GO:0003712	IEA:InterPro

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IEA:InterPro









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP26880
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     103.87|      22|      22|     273|     294|       1
---------------------------------------------------------------------------
  218-  234 (21.16/ 9.72)	....GWQLLAMD.RAAELL....A....AG
  244-  272 (25.65/13.45)	REQMYWSEVVA.VRDRGWAlsrtPgqrrLL
  273-  294 (38.60/24.22)	RVKFGFSEAAADLRAAGFA....P....LR
  295-  309 (18.47/ 7.47)	RVKRG..HVALDITALG.............
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.85|      15|      28|     672|     686|       2
---------------------------------------------------------------------------
  672-  686 (28.35/16.09)	DEGDGREADGDGHVL
  699-  713 (28.50/16.21)	DEDGPREDGGDDTAL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      94.01|      27|      28|     140|     166|       3
---------------------------------------------------------------------------
  140-  166 (45.69/23.26)	RPTQALQSLSPMLREKIGIGTLSAGRI
  171-  197 (48.32/25.01)	QAAKALQTRHGGGRGGGGGPGLAGGQI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     183.91|      55|      58|     465|     519|       4
---------------------------------------------------------------------------
  465-  519 (94.41/45.58)	RPILANLKYEKALEHIARFLSDLC...SILHRVGHTTAQFTLFERPLASSIPPPTAGS
  522-  579 (89.50/42.90)	RQLAASEGVCMAFLNPREFTFELTlapDIRLSIRSRTTNMPLRTQYLIQLHPPPTGGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.84|      13|      29|     310|     322|       5
---------------------------------------------------------------------------
  310-  322 (23.96/13.56)	PPSAIVVT..LRRRN
  340-  354 (19.88/10.06)	PPSAPLENriLEARN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.22|      27|     197|     401|     427|       6
---------------------------------------------------------------------------
  401-  427 (42.50/28.39)	LQLVASDAGAVAIATAEMDRVAEVTAS
  599-  625 (43.71/29.42)	LDYVSSAVGHVLAADARKAAIAHEDAS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.58|      13|     446|       3|      16|      12
---------------------------------------------------------------------------
    3-   16 (19.76/14.75)	DSAGTAdTPALFGL
  452-  464 (26.82/15.31)	DSTGTP.PPAYYLL
---------------------------------------------------------------------------




































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 MDP26880 with Med17 domain of Kingdom Fungi
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