<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 MDP29579

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMNILSSSSVSWSKIGLIAYADNVSTEGNLSITFLETINGLNWRFHEPQKYCIHPHLHETQFHSSSNVFVGGSHGPNSVNSGNTIPASTGQTSTPSILGSLPVSNNASKSSSHHFFYSISSVYWNNWFNLPGDMLAVCDELGNMTMLILGQSPQGPVTIDKLTMLFQDNVYKLHNQLLPLQQVNEKSDKIERKETKKEYQTTILDFSWFSSSKPIISSQFCVLDSSTDLYKNKVQQIQPYGVFYPPSMKYGCLAVRKNGQVDFWYQFSNSKNHKKITTHLLNAQNKETNELDWLQFAKITPMNEDQCILITTFSRISKRLTFYKLHVNWNINPTNPTIINNPSLRVYHLLETTVDSINEEGNPIELTDLYILSRPSSEKEPPLEVLLIFENLEDSTSIIKRYRLTKSKVSKDFLKMLNIDINNIQDQNSNTVLNHTNNTSTNNNNNMNNNYTNMLSSKRYTLTFFDKIKLEKRVVSISSKNLYEFITIYFEDGTIKTYSHNEWKLESDKLKNQNNLGKYRNILTSVISCGFQFPKTFHSSSLEWMIISPSMTGAIVKLKKRQTPNYFAIETDVSDGERDRLTATAYAFGFVSSTHRQLSSEDLSISCKTHLMKINEVNNERAHEFVTSLMTSIYSFFNMTPDAPKDILDKMISSRPVQKTILLQLELSNGLKQTNIYEMSRSIMSLRNVLFAFNGVARNLQFAIEQINSNSISHSNGKLFQAIFTKQDLIHSLIPIAKWFIKFVTYLIQGAILMINDNNSKSNTLVLGILGAKIPRTIMISILSEINKVIQLITKYPETTFPILDESSNFLRMIILESPINLEDLERLLIDVNTSLIKFTEHKPYFIKNPRLLVTSAVLEGDKDVENYLLSLVKNTFLKDDTTSNIFFSDTNGLRITNDVFFQKELLQSLQPLSKGLVVDQEILPNKFQDSKSISILTYDSISYEEFTLDEIQGKKLKRCCRCGSITRAGYTIFPSRAVIATSIQTKRWPTMYSRVCICSGYLYELDTYTPTGMTPSNAIATPLLNNTNQNSNSELDLNSGDNSNNTHLHSSTHHHHNQSHHPMEGIVSTNTNTPAPTMI
Length1079
PositionTail
OrganismTetrapisispora blattae (strain ATCC 34711 / CBS 6284 / DSM 70876 / NBRC 10599 / NRRL Y-10934 / UCD 77-7) (Yeast) (Kluyveromyces blattae)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Tetrapisispora.
Aromaticity0.09
Grand average of hydropathy-0.326
Instability index37.63
Isoelectric point8.04
Molecular weight122709.11
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

>MDP29579
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     376.01|     103|     151|      94|     214|       1
---------------------------------------------------------------------------
   94-  199 (167.57/118.33)	PSI.LGSLPVSNNASKSssHHFFYS.ISSVYwNNWFNLPGDML.AVCDELGNMTMLILGQ.SPQGP...VTIDKLTM...LFQD.NVYKLHNQLLPLQQVNEKSDKIERKETKKEYQ
  245-  347 (139.21/101.66)	PSMkYGCLAVRKNGQVD....FWYQ.FSNS..KNHKKITTHLLnAQNKETNELDWLQFAKiTPMNEdqcILITTFSR...ISKRlTFYKLHVNW....NINPTNPTIINNPSLRVYH
  622-  688 (69.23/36.80)	...................HEFVTSlMTSIY..SFFNMTPD...APKDILDKM....ISS.RPVQK...TILLQLELsngLKQT.NIYEMSRSIMSLRNV.................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     185.40|      62|     472|       2|      65|       2
---------------------------------------------------------------------------
    2-   65 (103.72/82.67)	NILSSSSVS...WSKIGLIAYADNVSTEgNL....SITF....LETINGLNWRFhEPQKYCIHPHLHETQ................FHSSS
  452-  540 (81.69/55.08)	NMLSSKRYTltfFDKIKLEKRVVSISSK.NLyefiTIYFedgtIKTYSHNEWKL.ESDKLKNQNNLGKYRniltsviscgfqfpktFHSSS
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      85.54|      26|     174|     701|     737|       3
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  712-  737 (45.15/40.30)	SHSNG.KLFQAIFTKQDLIHSLIPIAK
  888-  914 (40.39/16.37)	SDTNGlRITNDVFFQKELLQSLQPLSK
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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 MDP29579 with Med16 domain of Kingdom Fungi
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