<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 MDP28890

Description Mediator of RNA polymerase II transcription subunit 17
SequenceMGKSQFDFEKGVNLALDPNLLSLPSKKSPSSPNAADQQKEPIVPPATAQEINELVSNPYEIYGKMPLAQLVPLILQQKQIPFSELSQDYILKETSEKVMDSNDAMDNEPQLPDNSKSNFSTMDASESYETIRSKMIDHINVAMNESSLALETVSLLLSGVRENNAKSSISPYLKRNVPMGSLNSDRIPINNSNNVKKTNEKIKFSFGWKLKCLDDSKLMLKKNVDKLFEIVRRENKYWQMISQVIVNTDVIFKLRDKLSGERLIGIKYGFEDSGSNYHLDRGIAVLKNNTELNQLELIPYYNNKNFSIHDSNIRIGYTFIRIRIFTKIESEDDFILSGESSITNNDSTNIRDQIKKFKDIIFEKELMYQLKKESSQLISYGVKIENENKIMIELPNEKIEIELLQVDDLSTVMNEQDNPKINDKRANLILITLRLLLVVIFKKNLRRRSTTNSISNHNGSYSEDILLIRPILGKLRHQNYKILLKKIIKQNILDIIESSQCQEIKITRKPNNDTTRTVDKHIDKLNKDIASFDNLINTPVSHFEVSLPDRKDSFKLVLESPNYCNAIISVKYKDPLNDNRAFDAKFTELKEVEEFLYFIITEYILKKETEEHIPIKQEH
Length619
PositionHead
OrganismKazachstania africana (strain ATCC 22294 / BCRC 22015 / CBS 2517 / CECT 1963 / NBRC 1671 / NRRL Y-8276) (Yeast) (Kluyveromyces africanus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Kazachstania.
Aromaticity0.07
Grand average of hydropathy-0.516
Instability index46.13
Isoelectric point6.57
Molecular weight71380.84
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

>MDP28890
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.25|      27|      34|     310|     341|       1
---------------------------------------------------------------------------
  310-  341 (41.49/34.39)	DS.NIRigytfIRIRIFTKI..ESEDDFILSGESS
  346-  375 (38.76/20.84)	DStNIR.....DQIKKFKDIifEKELMYQLKKESS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      88.04|      33|      36|      97|     131|       2
---------------------------------------------------------------------------
   27-   54 (30.55/14.59)	...........................................KSPSS.PNAADqqKEPIVPPATAQEINEL
   55-  122 (42.78/20.82)	VSNPYE.IygkmplaqlvplilqqkqipfselsqdyilketseKVMDS.NDAMD..NEPQLPDNSKSNFSTM
  124-  148 (14.72/ 9.59)	ASESYEtI.................................rsKMIDHiNVAM...NESSL...........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     156.30|      57|      63|     477|     538|       3
---------------------------------------------------------------------------
  477-  538 (76.18/60.56)	HqnYKILLKKiIKQNILDIIES.SQCQE.IKITRK.PNNDtTRTVDKHIDKLnKDIASFDNLINT
  542-  601 (80.12/45.40)	H..FEVSLPD.RKDSFKLVLESpNYCNAiISVKYKdPLND.NRAFDAKFTEL.KEVEEFLYFIIT
---------------------------------------------------------------------------




































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 MDP28890 with Med17 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) ETSEKVMDSNDAMDNEPQLPDNSKSNFSTMDA
2) NLLSLPSKKSPSSPNAADQQKEPIVPPATAQE
93
19
124
50










Molecular Recognition Features






MoRF SequenceStartStop




NANANA