<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 MDP28623

Description Mediator of RNA polymerase II transcription subunit 6
SequenceMDTPLDELQWKSPEWIQAFGLHTDNVMDYFSESPFFNKVSNNQVIRMQKQFSQVPSQQPQQQVNKQCGSDNDNNTGELESGDAKDGAGGQSQMQSQLDIFKSSLDDRSTDQEFEHVGPSRREILLKYPSQAMMERELSKMTGLEYVLAYVREPDLWIIKKQNRISAETTQTLQAYYIIGANVYQSPSAFNIIQSRLLSASYHISSMLENLHKVTMFEPSQGVQIRPTYENATGNTNTNSNTNPNGILRTNAPATSAIAGNTAPPTNSINSVASTNINTSSKTMAINTANTANTAMGTTRYDPNQRELLPKEMMDTLLAISIKSTPEYI
Length328
PositionHead
OrganismTetrapisispora phaffii (strain ATCC 24235 / CBS 4417 / NBRC 1672 / NRRL Y-8282 / UCD 70-5) (Yeast) (Fabospora phaffii)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Tetrapisispora.
Aromaticity0.07
Grand average of hydropathy-0.643
Instability index45.05
Isoelectric point5.13
Molecular weight36556.26
Publications
PubMed=22123960

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. 
ECO:0000256	PIRNR:PIRNR013286
GO - Cellular Component
core mediator complex	GO:0070847	IEA:EnsemblFungi
mediator complex	GO:0016592	IEA:InterPro
GO - Biological Function
transcription coactivator activity	GO:0003713	IEA:EnsemblFungi
GO - Biological Process
positive regulation of transcription by RNA polymerase II	GO:0045944	IEA:EnsemblFungi
RNA polymerase II preinitiation complex assembly	GO:0051123	IEA:EnsemblFungi

Interaction

Binary Interactions











Repeat regions





Repeats

>MDP28623
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      96.72|      23|      24|     244|     266|       1
---------------------------------------------------------------------------
  221-  240 (23.89/ 9.92)	.GVqIR...PTYE.NATGNTNTNSN
  244-  266 (40.46/21.13)	NGI.LRTNAPATS.AIAGNTAPPTN
  269-  292 (32.37/15.66)	NSV.ASTNINTSSkTMAINTANTAN
---------------------------------------------------------------------------




































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 MDP28623 with Med6 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) GVQIRPTYENATGNTNTNSNTNPNGILRTNAPATSAIAGNTAPPTNSINSVASTNI
2) MQKQFSQVPSQQPQQQVNKQCGSDNDNNTGELESGDAKDGAGGQSQ
3) SSKTMAINTANTANTAMGTTRYDPNQRELLPKEMMDT
221
47
279
276
92
315










Molecular Recognition Features






MoRF SequenceStartStop




1) QLDIF
96
100