<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 MDP32648

Description RNA polymerase II holoenzyme cyclin-like subunit
SequenceMAANYWESTQRKHWLFTKDELAAMRAKLEAEEPNLVASFPLPQLRHLNIYFNQQINRLGKRMGLRQQALATAQVYIKRFYTKVEIRRTNPHHVLVTALYLACKMEECPQHIRLMANEARGFWPTDFQSQTEVARIGECEFYLISEMSSHLIVHSPYRTLTSLQGELGLAQEDVNLAWSVINDHYMTDLPLLHPPHVIALTAILLALVLRQDPSGRLPGTAASASGLVAASAALAQAQAQAQARAAMMAGGGQTVPGLTPQSSSGLQAMLPPQSPAGEGPAEGNKNPRMAKVHRFAAWLSDSNIDIEAMVDCTQELISFYECHEQYNDKNTREQINRFVKARGLDK
Length345
PositionKinase
OrganismNeurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Sordariomycetidae> Sordariales> Sordariaceae> Neurospora.
Aromaticity0.07
Grand average of hydropathy-0.275
Instability index61.01
Isoelectric point7.20
Molecular weight38471.57
Publications
PubMed=12655011
PubMed=12712197

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). 
GO - Cellular Component
mediator complex	GO:0016592	IBA:GO_Central
nucleus	GO:0005634	IBA:GO_Central

GO - Biological Function
cyclin-dependent protein serine/threonine kinase regulator activity	GO:0016538	IBA:GO_Central

GO - Biological Process
positive regulation of transcription by RNA polymerase II	GO:0045944	IBA:GO_Central
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP32648
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     198.89|      62|     102|      58|     121|       1
---------------------------------------------------------------------------
   58-  121 (101.91/86.67)	LGKRMGLRQQALATAQVYIKRFYTKvEIRRTNPHHVL.VTALYLACKMEECPQHiRL..MANEARGF
  162-  226 (96.99/72.72)	LQGELGLAQEDVNLAWSVINDHYMT.DLPLLHPPHVIaLTAILLALVLRQDPSG.RLpgTAASASGL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      92.16|      26|     172|     122|     149|       2
---------------------------------------------------------------------------
  122-  149 (43.43/39.48)	WPTDfqSQTEVARIGECEFYLISEMSSH
  297-  322 (48.73/36.25)	WLSD..SNIDIEAMVDCTQELISFYECH
---------------------------------------------------------------------------




































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 MDP32648 with CycC domain of Kingdom Fungi
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