<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 MDP29569

Description Mediator of RNA polymerase II transcription subunit 17
SequenceMSSSEAGPSTIPSSSKEVELAIEPVHIYTDPNPLPPSSTSITTAFDRERQLADILPDGTNIFISRKPASQQLSEDVRRLWAERGDFSRFRTSDLTRKCPASEEEESDDEEDQPKLQGEEEEEGILRNPCKGTVGGTIGESEFVKLRGKVLQNLDVAHLNSIHAHQLLGMLIKQYRSTNTASSSNNAAVAGRMRSPAPSLGTQSNRSGSTTTAAPNPTKAPLGIFGYLTHPSNREEEFILDPLSIALSRTSLNPSTATRREVSTEGEVEEEEDFDEDPNSAAYGLKQAKRELESTAGFKLNKLREFKIVLESKRKAIANAAELLSSAGDELRESQGANRERWRALIGLHGRGWGLTPGRPLLDVERFGVSNTEEEEGSQGTKKGAGGKKKGAAGLQGFGTPVVTSDGKVKEEGARDAWIGFGSPEAPIELRRRSLAYWADTPASSAGSGGREEGGGGGGGGGGGLVEKVKQKLVFPDRMHRRLRVRFVLWPSTTTGGEGMEGKVQWSSDPPCATAAEGEKKEGGIVMGQVLDSELQMASREASDELIFGDVVAQARLLPPSFGVRLTPTSVRIVLTKRLDLIVELVPTNPDTGDKEEEEKEEEEEKKKKEEEKKKKEEEKKKEEEKKKEEEKKKVNYSPHASLLLAFLRLGPLRKSMAFMSATKEGRKCDAPSRASALKANALAVPKKSTSAGNAKADTGSGGGKGIAAGGKATSAALSKLDCLGPILVGLHYWSFVYRLGVVLRGVQERVQRERAIKLRIKLVPITPRTCLSPAARGTVEELTRSLARMVDGVPCTPPTSKASGGEGEGSLHSIYRPSQSGREEMLKGSAKVYVEQGKGGQRLVCTLSFAQPSLLSVQFAGGKRTSGGVRLTNRPLSVDLDTLDQLLSRYIS
Length892
PositionHead
OrganismUstilago hordei (strain Uh4875-4) (Barley covered smut fungus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Ustilaginomycotina> Ustilaginomycetes> Ustilaginales> Ustilaginaceae> Ustilago.
Aromaticity0.05
Grand average of hydropathy-0.601
Instability index53.86
Isoelectric point8.47
Molecular weight96260.32
Publications
PubMed=22623492

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

>MDP29569
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.94|      18|      18|     596|     613|       1
---------------------------------------------------------------------------
  596-  613 (31.58/15.77)	EEEKEEEEEKKKKEEEKK
  616-  633 (30.36/14.91)	EEEKKKEEEKKKEEEKKK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     312.44|      83|     180|     509|     591|       2
---------------------------------------------------------------------------
  441-  486 (45.34/20.71)	.PASSAGSGGREEGGG.........GGGG............GGGGlvekvkQKLVFPDRM..HRRLRVR...................................F........................................
  509-  591 (138.57/80.10)	PPCATAAEGEKKEGGI.........VMGQVLD..SELQMASREAS......DELIFGDVVAQARLLPPS...................................F........GVRLT..PTSVRIVLTKRLDLIVELVPTNPDT
  685-  769 (61.81/31.20)	PKKSTSAGNAKADTGS.........GGG.........................................kgiaaggkatsaalskldclgpilvglhywsfvyrL........GVVLR..GVQERVQRERAIKLRIKLVPITPRT
  797-  878 (66.73/34.33)	PPTSKASGGE.GEGSLhsiyrpsqsGREEMLKgsAKVYVEQGKGG......QRLVCTLSFAQPSLLSVQ...................................FaggkrtsgGVRLTnrPLSV.....................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      84.97|      33|     250|     119|     196|       3
---------------------------------------------------------------------------
  119-  121 (-9.79/11.76)	...................................EEE
  167-  196 (45.51/31.82)	LGMLIKQYRSTNTASSSNNAA...VAGRMRSPA.....
  199-  236 (49.24/ 6.40)	LGTQSNRSGSTTTAAPNPTKAplgIFGYLTHPSnrEEE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     154.27|      50|     180|      31|      85|       4
---------------------------------------------------------------------------
   31-   85 (75.14/61.23)	PNPL.PPSST..SITTAFDRERQLadILpDGTNIFISRkpASQQLSEDVRRLWAERGD
  214-  266 (79.13/47.19)	PNPTkAPLGIfgYLTHPSNREEEF..IL.DPLSIALSR..TSLNPSTATRREVSTEGE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.29|      17|     321|     384|     401|       5
---------------------------------------------------------------------------
  384-  401 (28.57/21.55)	AGGKKKGAA..GLQGFGtPV
  708-  726 (25.72/13.92)	AGGKATSAAlsKLDCLG.PI
---------------------------------------------------------------------------




































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 MDP29569 with Med17 domain of Kingdom Fungi
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