<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 MDP32649

Description RNA polymerase II holoenzyme cyclin-like subunit
SequenceMSADFWCSSQRNKWQLSRQSLLEARRKVLLLERKMIQNGLIKDYPNIHYDFNMRIYLHNLLIKLGRRLNIRQVALATAEIYLNRFLTRVSLKEINVYLLVTTCLYVACKIEECPQHIRLIISEARNLWPEYIPHDVTKLAEFEFYLIEEMDSYLFLHHPYKSLIQIRDFLNENSAVFGFTLTDDELQNAWSLVNDSYITDLHLLLPPHIIAVASIYITIVLKKNLSAIRVNSSAVNSNGGPNSMMFNRNPDQNSMHIDDLMILANPSTPGSDLVNNLERTNFHDMKLDEETIKINKFMNFLDHSHINLDEVVEAMQDMINIYVQWNRYNEQGVKKALQVMLLNRQL
Length346
PositionKinase
OrganismScheffersomyces stipitis (strain ATCC 58785 / CBS 6054 / NBRC 10063 / NRRL Y-11545) (Yeast) (Pichia stipitis)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Debaryomycetaceae> Scheffersomyces.
Aromaticity0.09
Grand average of hydropathy-0.167
Instability index48.89
Isoelectric point6.31
Molecular weight40544.38
Publications
PubMed=17334359

Function

Annotated function Component of the SRB8-11 complex. The SRB8-11 complex is a regulatory module of the Mediator complex which is itself involved in regulation of basal and activated RNA polymerase II-dependent transcription. The SRB8-11 complex may be involved in the transcriptional repression of a subset of genes regulated by Mediator. It may inhibit the association of the Mediator complex with RNA polymerase II to form the holoenzyme complex. The SRB8-11 complex phosphorylates the C-terminal domain (CTD) of the largest subunit of RNA polymerase II (By similarity). 
ECO:0000250
GO - Cellular Component
mediator complex	GO:0016592	IEA:EnsemblFungi
GO - Biological Function
cyclin-dependent protein serine/threonine kinase regulator activity	GO:0016538	IEA:EnsemblFungi
RNA polymerase II core promoter sequence-specific DNA binding	GO:0000979	IEA:EnsemblFungi
GO - Biological Process
negative regulation of transcription by RNA polymerase II	GO:0000122	IEA:EnsemblFungi
positive regulation of transcription by galactose	GO:0000411	IEA:EnsemblFungi
positive regulation of transcription from RNA polymerase II promoter involved in meiotic cell cycle	GO:0010673	IEA:EnsemblFungi

Interaction

Binary Interactions











Repeat regions





Repeats

>MDP32649
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      78.47|      21|      21|     299|     319|       2
---------------------------------------------------------------------------
  285-  299 (15.57/ 7.04)	......MKLDEETIKINKFMN
  300-  320 (35.19/24.56)	FLDHSHINLDEVVEAMQDMIN
  322-  341 (27.72/17.89)	YVQWNRYNEQGVKKALQVML.
---------------------------------------------------------------------------




































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 MDP32649 with CycC domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




NANANA









Molecular Recognition Features






MoRF SequenceStartStop




NANANA