<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 MDP28656

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMVREVDSICKLITNCASRHVSPKQFTNFYNMFFNEQYDSVIESQGDNEAKPPIEPVYEAISQGLLKVLNDGKYNLVADYVVEIVFVNYNSELLKIFLPKLHLVKNQLVLIHFFSRSTGFMRNLTNKLISDQISNDIYSDILPSILSFNFSELGDELITIITKFLHTVLKISESPAKIQDENIRNNGNLLLQRLSKCNKLLYKRLFNDLDPKFQAGEPSSSVGTFALPPSTIPSPSVTSPKYESITVGVTKQPSLAPNELKYQDVKLTRYYKNLWLNNKIHYFTVSDPDFLNKYESIGELTKTSGSPQIERSSQTNVADLIETTFTCFAQFVSNKLYHQLNSNFSLLERKWTIFITKQLPLIIKQSIPNEPQLVLHALENIDDKVVKAIKSYNTEKDEVKNRTEDLFDDYPVNNLDIRHEFLKNLIMLGLQPPNVLNEYLREDQMVDLKSLVTSEHLVIENSQCVKESILDIKGFMKRSIETLDFESMFDDSNQLVIGTDNGLLQLAHNLESVAPTKQQEISNIIYDVLRKAVEDFDHKSISKILTLLTLNIGHLLTNILCFIGPEKLLGPVVTFIDVIWEPNGNKLNDVISEDSEFENLSAFMAYTLSMAFIIHMVKTYNVNLESLVEIPSKSTVLNFISKLGDIQETFSDEGNPDASKNMLQLWLRDLFINNSISDPLMKTADVKVLGTMIPFIFKQSLVNVETGLISDVSNFVNGFEYFLQPFMSIGLLNIFFWLEQHLISLKTDDSFLQIGGKIFDLLNAIIAPKGMNPDAKAVHYVILKLNCINLLKELKSFQVSNESNYGMYSSQYQQDPKLDSLISKLESVAQSSNIYDIDPRITTATGNSYSQKQISYNKLTMTSDLPINKIMTNQINSFWNLHSSTYYNFDYLLELTNLVTPAQFLHDVFESLKYKVSTYGIPGSVNRPPATALDHVLSYLFYFMVLRDIKNPEEKSALLEYLETGKFSSAIIRNKIKTDSSSILGSSAPQADNKSDQDPVDAADEDFDMLFGESFSGLPDESQKPNDIKHESGLKDENSETLEPRVSLVRLTESFGFAYFMMMKDTKEAYDAGQETEPRYENFINLYNRYVETLKISVI
Length1098
PositionTail
OrganismEremothecium cymbalariae (strain CBS 270.75 / DBVPG 7215 / KCTC 17166 / NRRL Y-17582) (Yeast)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Eremothecium.
Aromaticity0.10
Grand average of hydropathy-0.200
Instability index42.49
Isoelectric point5.03
Molecular weight124933.96
Publications









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
mediator complex	GO:0016592	IEA:EnsemblFungi

GO - Biological Function
transcription coregulator activity	GO:0003712	IEA:InterPro

GO - Biological Process
histone H3 acetylation	GO:0043966	IEA:EnsemblFungi
regulation of transcription by RNA polymerase II	GO:0006357	IEA:EnsemblFungi
transcription by RNA polymerase II	GO:0006366	IEA:EnsemblFungi









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP28656
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     436.72|     111|     114|     707|     818|       1
---------------------------------------------------------------------------
  590-  699 (116.00/61.56)	.ISEDSEFENlsAFmA.YTLSMAFIIHMVKTYNVNLESLVEIP..SKSTVLNFISKLGDIQETF.SDEG.NPDAsKN....MLQL............WLRDL..FINNSISDPLMKTADvkvlgtmipfiFKQS......
  707-  818 (183.88/105.45)	LISDVSNFVN..GF.E.YFLQPFMSIGLLNIFFWLEQHLISLK..TDDSFLQIGGKIFDLLNAIIAPKGMNPDA.KAVHYVILKL.NCI.......NLLKELKsFQVSNESNYGMYSSQ...........YQQDP..KLD
  820-  933 (136.84/73.93)	LISKLESVAQ..SS.NiYDIDPRITTATGNSY...SQKQISYNklTMTSDLPI.NKI..MTNQINSFWNLHSST.YYNFDYLLELtNLVtpaqflhDVFESLK.YKV...STYGIPGS............VNRPPatALD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.28|      24|      51|     230|     256|       2
---------------------------------------------------------------------------
  230-  256 (34.05/33.22)	TIPSPSVTSpKYESItvGVTKQPSLAP
  283-  306 (43.23/28.29)	TVSDPDFLN.KYESI..GELTKTSGSP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     141.97|      48|      52|     465|     516|       3
---------------------------------------------------------------------------
  465-  516 (70.18/65.62)	KESILDIK.GFMKRSIETLDFESMfddSNQLVIGTDN.GLLqLAHNLESVAPTK
  517-  566 (71.79/51.98)	QQEISNIIyDVLRKAVEDFDHKSI...SKILTLLTLNiGHL.LTNILCFIGPEK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.27|      16|     609|     415|     431|       4
---------------------------------------------------------------------------
  415-  430 (26.87/19.32)	DIRHEFLKNLIMLGLQ
  433-  448 (26.40/12.54)	NVLNEYLREDQMVDLK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     116.50|      30|     239|     126|     155|       6
---------------------------------------------------------------------------
  126-  155 (51.08/34.32)	KLISDQISNDIYSDILPSILSFNFSELGDE
  331-  349 (24.15/11.80)	......VSNKLYHQ.....LNSNFSLLERK
  371-  397 (41.26/26.11)	QLVLHALEN.IDDKVVKAIKSYN.TE.KDE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.83|      13|     115|     937|     949|       7
---------------------------------------------------------------------------
  937-  949 (25.66/15.61)	SYLF.YFMVLRDIK
 1053- 1066 (23.17/13.40)	SFGFaYFMMMKDTK
---------------------------------------------------------------------------




































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 MDP28656 with Med5 domain of Kingdom Fungi
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