<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 MDP27648

Description Mediator of RNA polymerase II transcription subunit 17
SequenceMDDEKLNSANGSPNSNISATQGQGINLALDPNLINLTLSPSLITPGAIPNSVNDTGSQPDQSPSAIGTPGQNIHNTGTSLIKNPHEIYGQLPLSQLIPLILQERGPSFKFADLSEERLMEELSNNGLSNEDKHTSPPSELEKPIDDDLMEIDFEDKNNISKDESAPESNIPESNAIYQSSEPQLTQEQFLKVRKDIVDHINMAMNESSLSLEFVSLLLSSVRENNANSSMSAFLKKNASPGSLNSDKIPYTPLSKEETNQLEVLNKGWKLKSLNDSRIMLKENYLKLSASLQREHIYWKKVSNHINNSDVIFKLRDKTTGQRSLGIKYGYEDSGSTYKLDRGIAILRNNPLTDLLELVPFQNSDSDVALRNYEKFIRVRIFTKIESEDDYILSGESLIDNEDGFEGILGSDHSQNDPKFFEDIRFQIKILKKFILEKELMYQLKKESSRLISYGVTIENENKVIIELPNEKFEIELLSLTDSSLIDHERDAPKVNDKRANLMHVTLRMLLVVIFKKNLKNKLMSPKVKKNLNIDKDILLIRPILGRMRHSNYKMLLKKLLENHVLNIIEGTQLVEKKLDLTENSSTEENIKFMDKHVAKLIQDISAFDCILNPCKTQFDIYIPNKGCLSLTLESPNYCNAVINIKYLSENGTVKFDTEFSEFKEIEEFIHFIITEYVK
Length678
PositionHead
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.
Aromaticity0.06
Grand average of hydropathy-0.483
Instability index47.13
Isoelectric point5.27
Molecular weight77003.60
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:RU364140
GO - Cellular Component
core mediator complex	GO:0070847	IEA:EnsemblFungi
mediator complex	GO:0016592	IEA:InterPro
GO - Biological Function
activating transcription factor binding	GO:0033613	IEA:EnsemblFungi
RNA polymerase II complex recruiting activity	GO:0001139	IEA:EnsemblFungi
RNA polymerase II core promoter sequence-specific DNA binding	GO:0000979	IEA:EnsemblFungi
transcription coregulator activity	GO:0003712	IEA:InterPro
GO - Biological Process
positive regulation of transcription by RNA polymerase II	GO:0045944	IEA:EnsemblFungi

Interaction

Binary Interactions











Repeat regions





Repeats

>MDP27648
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.70|      22|      48|     374|     396|       1
---------------------------------------------------------------------------
  374-  396 (33.50/20.02)	KFiRVRIFTK..IESEDDYILSGES
  424-  447 (32.20/15.28)	RF.QIKILKKfiLEKELMYQLKKES
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.14|      23|      31|     268|     293|       2
---------------------------------------------------------------------------
  268-  293 (33.27/36.54)	WK..LKSLNDSRIMLKenyLKLSASLQR
  298-  322 (36.87/28.63)	WKkvSNHINNSDVIFK...LRDKTTGQR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.94|      12|      31|     558|     569|       3
---------------------------------------------------------------------------
  558-  569 (19.31/12.74)	KLLENHVLNIIE
  591-  602 (20.63/14.09)	KFMDKHVAKLIQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.22|      18|      18|      39|      56|       4
---------------------------------------------------------------------------
   31-   48 (31.60/17.55)	PNLINLTLSPSLITPGAI
   49-   66 (33.62/19.10)	PNSVNDTGSQPDQSPSAI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     126.15|      42|     290|     196|     237|       6
---------------------------------------------------------------------------
  196-  237 (69.81/49.57)	IVDHINMA..MNESSLSLEFVSL..LLSSV.RENNANSSMSAFLKKN
  484-  530 (56.34/38.50)	LIDHERDApkVNDKRANLMHVTLrmLLVVIfKKNLKNKLMSPKVKKN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.50|      18|     316|      80|      98|       7
---------------------------------------------------------------------------
   80-   97 (31.31/24.05)	LI...KNPHEIYGQLPLSQLI
   99-  119 (25.20/11.71)	LIlqeRGPSFKFADLSEERLM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.11|      20|      22|     614|     633|       8
---------------------------------------------------------------------------
  614-  633 (36.27/26.73)	CKTQFDI.YIPNKGCLSLTLE
  638-  658 (29.84/20.62)	CNAVINIkYLSENGTVKFDTE
---------------------------------------------------------------------------




































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 MDP27648 with Med17 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) MEELSNNGLSNEDKHTSPPSELEKPIDDDLMEIDFEDKNNISKDESAPESNIPESNAIYQSSE
2) TPGAIPNSVNDTGSQPDQSPSAIGTPGQNIHNTGTSLIKNPH
119
44
181
85










Molecular Recognition Features






MoRF SequenceStartStop




NANANA