<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 MDP31278

Description Mediator of RNA polymerase II transcription subunit 11
SequenceMCSASAAPQRTDPEDSCKVRWVWEKAACPELVRDKRWAEGSKIEHEPHKSQPPRSHRFPPPTKPKRFGSSSAHARPSETPERVTATQSCPLSCSKLSELDFRLLSNAPRIQPTSQSQSQSQSQPQSHSSPRLLFSLIVVSPTLQPTTTITRFTPSIDDRSSTLDVRPSSTPAIAPWHRHRIYTPFPRCLPNMSSSAAVASAHDPALDLLPSELQDTIMEQKFAQIREQRREAHHVLREAKQRTRNQQTDQQILMLMQTDERLASLLSQAADSMRALLPVKPPSPDTVRLAPSDATSASASSSSASEPTKGAKAFEVKAQQWFSILNEVQYSLRSAPAGSSSGLFDLDWHEPSAAAAATSPTSPTGSSGARAKNDIMSLFSAPPPAAARAPAANTTNASAFDMAPPAAAAASNPWSAPSAPAPSNNPLFDTSDVWSSTTAPTAPQSQPPKSDAFADIWGDFK
Length461
PositionHead
OrganismPseudozyma antarctica (strain T-34) (Yeast) (Candida antarctica)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Ustilaginomycotina> Ustilaginomycetes> Ustilaginales> Ustilaginaceae> Moesziomyces.
Aromaticity0.06
Grand average of hydropathy-0.590
Instability index74.58
Isoelectric point8.72
Molecular weight49762.92
Publications
PubMed=23558529

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

>MDP31278
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.39|      22|      27|     259|     280|       2
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  259-  280 (36.65/18.98)	DE.RLAS..LLSQAADSMRALLPVK
  285-  309 (27.73/12.44)	DTvRLAPsdATSASASSSSASEPTK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      85.21|      24|      27|      29|      54|       3
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   29-   54 (40.81/22.38)	PELVRDKRWaeGSKIEHEPHKSQPPR
   59-   82 (44.40/19.81)	PPPTKPKRF..GSSSAHARPSETPER
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     101.57|      27|      55|     374|     400|       4
---------------------------------------------------------------------------
  334-  379 (30.28/ 8.62)	SAPagsssglfdldwhePSAAAAAtsPTSPTGSSGAR............................aknDIMSLF
  380-  437 (33.03/10.06)	SAP..............PPAAARA..PAANTTNASAFdmappaaaaasnpwsapsapapsnnplfdtsDVWSST
  438-  460 (38.27/12.80)	TAP..............T.....A..PQSQPPKSDAF..............................aDIWGDF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.89|      22|      28|     152|     177|       5
---------------------------------------------------------------------------
  152-  173 (38.92/23.93)	FTP...SIDDRSSTLDVRPSSTPAI
  182-  206 (29.97/ 7.96)	YTPfprCLPNMSSSAAVASAHDPAL
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.46|      25|      26|      87|     112|       6
---------------------------------------------------------------------------
   87-  112 (42.71/26.24)	QSCPLSCSKlSELDFRLLSNAPRIQP
  121-  145 (45.75/24.29)	QSQPQSHSS.PRLLFSLIVVSPTLQP
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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 MDP31278 with Med11 domain of Kingdom Fungi
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