<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 MDP28710

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMYLPGQQLVSWSKTGLIAYGDSKSPEGNFCVTFLETVNGTNWRFHPPKRYIIHPQLHEVPASGIGNALTQTGNSLNGSGSTPNVAALNNDKHAHQFFYNISSVHWNNWFSLPGDMLAVCDEIGNMTMLISGQSPEGPSTIDKLTMLFQDNVYKIYNHVMPLNTVSNSSPKGKLERKQTKKEYHTTILDFHWLSSSKPVIISQFCAFDSSANVYRNKAQPIPPFSVFHPPFMKYACVAVRKNGQIDFWYQFSNSKDHKKITSQLMTSQDQRTKEFDWLLFAKVTPINDDQSMLITTYSQLSKRLTFFKLHMSWNVNTANPTLLNDPSLKISHIFETTLDAVDEEGYVLDLAHLHVLSKSPLEKNASPEILLVYDVCGTNKSLVRRFRLTKTLLNNNFISILRPNRPADTAKQPTISKRYNLHYVDKLLLENKIVSVTSEMLDGFTTFYAEDGSVTSYNPSDWKSESERLPTQSQEAKFRDIITSILSTGFKYPKIPPACAVEWMQVSPAMCGVIFKLNKCDTPKFYSIFGEEYKDPTKDNIHAAAFAFGFVASIHRQLSSEDLTIACKSHVLKIAKADENRAKEFITNLMASVYSFFNVSPDARKEIMDKMISSRPIQKTMLLQLELGSCFTQSNIYKMARVVMSLRNVLFAFSGVARNLHFAIEQLSNSTIQHSSGNSFQTSFSKQDLVHSLIPISKWFVKFVTFLIQEVILLINDPQEQSNTLVLGIFGARMPRTLILSILNEIKKVTQLVTKFPETTYPVLNESSNFLKIVLGESPVNFEKFETFLVDVNNKFTAFNEQQPSSSREPSLLVKAEIPSNVSKIGDFLLAYSNNAVISHVKANSVYFADTSGLRISNDEFFEPEVFRLLQPLEKGLVIDDEDFPEKYRNSKSFCQVDYDAISYDHLSSEELKDGKLKRCCRCGCVTRAGYVIFNNKTIVPTSIQTKRWPTIYARICICSGFLYELET
Length967
PositionTail
OrganismTorulaspora delbrueckii (strain ATCC 10662 / CBS 1146 / NBRC 0425 / NCYC 2629 / NRRL Y-866) (Yeast) (Candida colliculosa)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Torulaspora.
Aromaticity0.11
Grand average of hydropathy-0.226
Instability index43.71
Isoelectric point8.42
Molecular weight109586.09
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. 
GO - Cellular Component
core mediator complex	GO:0070847	IEA:EnsemblFungi
mediator complex	GO:0016592	IEA:EnsemblFungi

GO - Biological Function
RNA polymerase II activating transcription factor binding	GO:0001102	IEA:EnsemblFungi

GO - Biological Process
negative regulation of transcription by RNA polymerase II	GO:0000122	IEA:EnsemblFungi
positive regulation of transcription by RNA polymerase II	GO:0045944	IEA:EnsemblFungi
regulation of establishment of protein localization to chromosome	GO:0070202	IEA:EnsemblFungi
RNA polymerase II preinitiation complex assembly	GO:0051123	IEA:EnsemblFungi









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP28710
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     254.82|      83|     106|     471|     558|       1
---------------------------------------------------------------------------
  471-  558 (137.96/103.97)	QSQEAKFRDIITSILSTGFKYPKIPPACAVEWM..QVS..PAMCGVIFK..LNKCDTPKfySIFGEEYKDPTKDNIhaaAFAFGFVA.SIH...RQLS
  575-  667 (116.86/74.74)	KADENRAKEFITNLMASVYSFFNVSPDARKEIMdkMISsrPIQKTMLLQleLGSCFTQS..NIYKMARVVMSLRNV...LFAFSGVArNLHfaiEQLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      93.56|      27|      84|     165|     198|       2
---------------------------------------------------------------------------
   78-  105 (45.26/21.23)	SGSTPNvAALNNDKHAHQFFYNISSVHW
  165-  191 (48.30/37.36)	SNSSPK.GKLERKQTKKEYHTTILDFHW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.03|      25|     106|       3|      27|       3
---------------------------------------------------------------------------
    3-   27 (45.84/30.52)	LPGQQLVSWSKTG.LIAYGDSKSPEG
  111-  136 (42.19/27.53)	LPGDMLAVCDEIGnMTMLISGQSPEG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     156.48|      45|     173|      29|      74|       4
---------------------------------------------------------------------------
   29-   74 (80.23/51.46)	FCvTFLETVNGTNWRFHP.PKRYIIHPQLHE.....VPASGIGNALTQTGNS
  203-  253 (76.26/44.73)	FC.AFDSSANVYRNKAQPiPPFSVFHPPFMKyacvaVRKNGQIDFWYQFSNS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     251.87|      86|     340|     368|     469|       6
---------------------------------------------------------------------------
  368-  469 (121.83/98.96)	ILLVYDVCGTNKSLVRRF...RLTKTLLnnnfISILRPNR.........PADTakQPTISKRYNLHyvdKLLLENKIVSvtsemLDGFTTFYAE.DGSVTSYNpsDWKSESERLP
  711-  809 (130.05/70.26)	ILLINDPQEQSNTLVLGIfgaRMPRTLI....LSILNEIKkvtqlvtkfPETT..YPVLNESSNFL...KIVLGESPVN.....FEKFETFLVDvNNKFTAFN..EQQPSSSREP
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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 MDP28710 with Med16 domain of Kingdom Fungi
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