<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 MDP27647

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMAVDKYDEMMGEMIVLFKGYKPGLITIDNITKLCQTLGLESFIDDIDSTTSRLSTASKIIVIDIDFDKKKGIVKDVKLVLASNFDNFNYFNDEEKSNPGSSNILLNSLTKYPDLKVFHHDLQYLYLLDTYSQIDSDPTTLNNSGLASTTSDSNISGSTQANIVPNNGKLDLFKYFTELSQYIQQYFIDNQLNLKVETNLDNKFGIYIKSKDRSDLPLIKVYFEKSMDPSQRLYEYLYSSGTKNWINESSENYICGVRLAMEIIPVEGQSIWFPDEFIPDELIITSQENDENQVKPVGILDILYDNNYNSKVQVLNDFTTKLVNVTKFDISNDNLDLCCDLLNWVLWSEVILKGIFHAVASPSVDFDSVDLKNGRIEGDLEIKKENSGRHASVAMASSVRRRRSSQNHKRPSMTEAAMFKDEGLQQFNIHEIMAAPVITEEQDEEEDDNRGMDDVNMSIGETNSNNIMDDKMDIDMDEEEAEREEVKNDTNEKIPELIISEDHVTFGELGSCSLYDSKEKWTNFIDKFQQSVQ
Length532
PositionMiddle
OrganismNaumovozyma castellii (strain ATCC 76901 / CBS 4309 / NBRC 1992 / NRRL Y-12630) (Yeast) (Saccharomyces castellii)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Naumovozyma.
Aromaticity0.09
Grand average of hydropathy-0.490
Instability index39.64
Isoelectric point4.44
Molecular weight60714.16
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. 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. 
ECO:0000256	RuleBase:RU364059
GO - Cellular Component
core mediator complex	GO:0070847	IEA:EnsemblFungi
mediator complex	GO:0016592	IEA:InterPro
GO - Biological Function
transcription coregulator activity	GO:0003712	IEA:InterPro
GO - Biological Process
negative regulation of transcription by RNA polymerase II	GO:0000122	IEA:EnsemblFungi
positive regulation of transcription by RNA polymerase II	GO:0045944	IEA:EnsemblFungi

Interaction

Binary Interactions











Repeat regions





Repeats

>MDP27647
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.42|      15|      15|      27|      41|       1
---------------------------------------------------------------------------
   27-   41 (25.44/18.71)	IDNITKLCQTLGLES
   43-   57 (23.98/17.20)	IDDIDSTTSRLSTAS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     294.40|     104|     240|      60|     197|       2
---------------------------------------------------------------------------
   60-  197 (149.15/138.77)	IVIDIDFDKKKGIVKDV..KLVLASNFDnfnYFNDeeksNPGSSNILLN.SLTKYPDLK.VFH.....hdlqylylldtysqidsdpttlNNSG.LASTTSDSNI..SGSTQANIVPNNGKLDLFKyftelSQYIQQYFIDNQLNLKVET
  301-  438 (145.25/80.10)	ILYDNNYNSKVQVLNDFttKLVNVTKFD...ISND....NLDLCCDLLNwVLWSEVILKgIFHavaspsvdfdsvdlkngriegdleikkENSGrHASVAMASSVrrRRSSQNHKRPSMTEAAMFK.....DEGLQQFNIHEIMAAPVIT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.48|      17|      32|     443|     460|       3
---------------------------------------------------------------------------
  444-  460 (31.83/20.99)	EEDDNRG..MDDVNMSIGE
  477-  495 (22.65/ 8.16)	EEEAEREevKNDTNEKIPE
---------------------------------------------------------------------------




































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 MDP27647 with Med1 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AAPVITEEQDEEEDDNRGMDDVNMSIGETNSNNIMDDKMDIDMDEEEAEREEVKNDTNEKIPELIIS
433
499










Molecular Recognition Features






MoRF SequenceStartStop




NANANA