<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 MDP28005

Description RNA polymerase II holoenzyme cyclin-like subunit
SequenceMSADYWSSSQRNKWQLTRFSLLEARRKVLLLERKMIQNGLIKDYPNIVYDYNMRIYLHNLLIKLGRRLNVRQIALATAEVYLTRFLTRVSLKEINVYLLVTTCVYVACKIEECPQHIRLIINEARNIWPEYIPHDVTKLAEFEFYLIEEMDSYLLLHHPYKSLIQIKDYLVENYTVFGLKFSDEELQNAWSLINDSYITDLHLLVPPHIIAMAAIYITIVLKKNLTQIRSGANTDETKQDPKELDAKVMNIDDLMNLTKVNTSSQEGTSGHPQQVSTDNQPTTNFQDDLNILDEDTIKINKFMNFLDHSHINLDEMVEAMQDMINLYVLWNRYNEQGAKKALQVMLLTRM
Length350
PositionKinase
OrganismSpathaspora passalidarum (strain NRRL Y-27907 / 11-Y1)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Debaryomycetaceae> Spathaspora.
Aromaticity0.09
Grand average of hydropathy-0.239
Instability index43.72
Isoelectric point5.83
Molecular weight41069.93
Publications
PubMed=21788494

Function

Annotated function 
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

>MDP28005
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      70.59|      14|      70|     244|     257|       2
---------------------------------------------------------------------------
  244-  257 (23.65/14.97)	LDAKVMNIDDLMNL
  292-  305 (23.38/14.73)	LDEDTIKINKFMNF
  313-  326 (23.57/14.90)	LDEMVEAMQDMINL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      70.53|      16|      70|      90|     105|       3
---------------------------------------------------------------------------
   91-  105 (20.21/ 9.17)	LKEINVYLLVTTCVY.
  147-  162 (26.02/13.42)	IEEMDSYLLLHHPYKS
  163-  178 (24.30/12.17)	LIQIKDYLVENYTVFG
---------------------------------------------------------------------------




































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 MDP28005 with CycC domain of Kingdom Fungi
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