<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 MDP24705

Description Mediator of RNA polymerase II transcription subunit 6
SequenceMASQDPPLDEIQWRDPQWLAQNTGLHENTVLHYFAQSPFFDRVSKNAILTIQAQMNPNLMYLLGTRAAFEGRLKSMSGLEFIVSQEPAEKTPGSGTGVWVIRKQTRRKRPQEDDEITIHASYFVVGENIYMAPTAADVLSTFNALTNAISKVSELPNFSPSLGHTYMPPVPPRTKAITSAFSQTSKENTPMPDSLATETKNSSNNFSNNVLANHLLEETLNITLKYGDEYMDENPITGTPGDFHFSTTGRKEKEKLMVPPTSKAAGFGLSGKPSLPTPLKTDLGMQKKGSKGEKSPRTPGSVTMIERKCLQNVAVGEAPVQLPCLVILVRCCGEKLGCGGWLGLQSMECGVIGKA
Length355
PositionHead
OrganismSclerotinia sclerotiorum (strain ATCC 18683 / 1980 / Ss-1) (White mold) (Whetzelinia sclerotiorum)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Leotiomycetes> Helotiales> Sclerotiniaceae> Sclerotinia.
Aromaticity0.07
Grand average of hydropathy-0.383
Instability index48.99
Isoelectric point7.61
Molecular weight38776.83
Publications
PubMed=21876677

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 coactivator activity	GO:0003713	IBA:GO_Central

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









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP24705
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      96.29|      22|      22|     161|     182|       1
---------------------------------------------------------------------------
  161-  182 (41.36/23.05)	SLGHTYMP.P........................VPPRTKAITSAFS
  185-  207 (30.95/15.56)	SKENTPMPdS........................LATETKNSSNNFS
  225-  270 (23.98/10.53)	KYGDEYMD.EnpitgtpgdfhfsttgrkekeklmVPPTSKAAGFGLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.59|      24|     204|      73|      96|       2
---------------------------------------------------------------------------
   73-   96 (42.35/26.82)	LKSMSGLEFIVSQ.EPAEKTPGSGT
  279-  303 (38.23/23.52)	LKTDLGMQKKGSKgEKSPRTPGSVT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.51|      21|      22|     307|     327|       3
---------------------------------------------------------------------------
  307-  327 (37.13/24.00)	RKCLQNVAVGE..APVQLPCLVI
  330-  352 (36.38/23.38)	RCCGEKLGCGGwlGLQSMECGVI
---------------------------------------------------------------------------




































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 MDP24705 with Med6 domain of Kingdom Fungi
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