<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 MDP27688

Description Mediator of RNA polymerase II transcription subunit 17
SequenceMDDQQNADQKMGINLALDPNLINLTLYNHPTATPLSGSNTSTTEPTTAPATTTTVTDANALASSTIVNNGQSMVKNPYEVYGQMPLSQLIPLILQERGQGFKFVDLSEELLAQEIANDKQRTQLSNTNPQDEHTNDNVNNTEVQPQEQQQEEESNNPDLMDIDMENEPEQQSQLPLNDTSLNTISKENQNENSATEAVGATQNPTLTIPETSLTQEQFIKIRKEMVDNINIAMNETSLSLDFVSLLLSSVRENNANSSMSTFLKKNVPTGTLNSDKVPHVPKQKDELTQLEISNRGWKLKSLNDSRLILKENYNKLNNSLTIEHSFWKKLSNHINSNDIIFKLRDKSTGQRSLGIKYGYEDSGSTYKMDRGVAILRTNPTTGKLELKPFSTSKNTKMSSSSSSSNDTIKGLEKFIRIRIFTKIESEDDYILSGESFSDIESRSGNKNANDYSNNDDSISDEDEDIRAQIENLKKFIIEKELMYQLKKECSHLLSYGVTVENENRIVIELPNEKFEIELLSFDDNSLTNHDRDAPKINDKRANLILITLRMLLVVMFKKNLRNKLLSSKVNKSLNIEKEILLIRPILGSIRHSNYKMLLKKIMKSYVLDIVPESTLEESTLPSSTEHIQDHGNTHQMDRHIVKLTKDITAFDHILNIAKTLFQISLPNKGRITIILESTNYCNAVVNIKYVSQDNTTTFDSNFAEFKEVEEFLHFIISEYVKERN
Length724
PositionHead
OrganismNaumovozyma dairenensis (strain ATCC 10597 / BCRC 20456 / CBS 421 / NBRC 0211 / NRRL Y-12639) (Saccharomyces dairenensis)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Naumovozyma.
Aromaticity0.06
Grand average of hydropathy-0.628
Instability index45.83
Isoelectric point5.19
Molecular weight82088.15
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

>MDP27688
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     304.30|      61|      61|     228|     288|       2
---------------------------------------------------------------------------
   90-  160 (65.46/31.69)	.IPLILQERGQ.GFKFVDLSEELLAQEIANDKQR...TQLSNTNPQDEHTNDNVnntevqPQ...EQQQEEEsnnpdLM
  164-  227 (77.72/38.96)	MENEPEQQSQL.PLNDTSLNTISKENQNENSATE...AVGATQNPTLTIPETSL......TQeqfIKIRKEM.....VD
  228-  288 (92.86/47.93)	NINIAMNETSL.SLDFVSLLLSSVRENNANSSMS...TFLKKNVPTGTLNSDKV......PH...VPKQKDE.....LT
  289-  348 (68.25/33.35)	QLEISNRGWKLkSLNDSRLILKE.NYNKLNNSLTiehSFWKK..LSNHINSNDI...........IFKLRDK.....ST
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.45|      21|      61|     628|     652|       3
---------------------------------------------------------------------------
  360-  380 (37.51/22.43)	EDSGSTYKMDRGVAILRTNPT
  628-  648 (38.94/37.04)	QDHGNTHQMDRHIVKLTKDIT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      32.83|      10|      29|     469|     478|       7
---------------------------------------------------------------------------
  469-  478 (16.44/ 9.46)	IENLKKFIIE
  499-  508 (16.39/ 9.41)	VENENRIVIE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      33.05|      10|      31|     563|     572|       8
---------------------------------------------------------------------------
  563-  572 (15.95/10.67)	KLLSSKVNKS
  595-  604 (17.09/12.03)	KMLLKKIMKS
---------------------------------------------------------------------------




































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 MDP27688 with Med17 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) FVDLSEELLAQEIANDKQRTQLSNTNPQDEHTNDNVNNTEVQPQEQQQEEESNNPDLMDIDMENEPEQQSQLPLNDTSLNTISKENQNENSATEAVGATQNPTLTIPETSLT
2) YNHPTATPLSGSNTSTTEPTTAPATTTTVTDANALASSTIVNNGQSMVKNPYEVY
103
27
214
81










Molecular Recognition Features






MoRF SequenceStartStop




1) LGIKYGY
353
359