<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 MDP00377

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMRPTYYLPLHPLLPLPAGTPVVLLPHGVPAYYLTTYSGPADALTAQFEDALLGFGAGNWKSFGRQRASEPNNSESSHGQSSRSCSPYVIIWLAVQNKQGEDKGMSIVWPTTLCITYHSSSPSAHARSPLTYLPELPPQLQASPPPPASAVPTMLSFTTAASSAADIPASATTSQSITPSIAAERDYLSPSFQRRSSLLRSSPTSDSLRALRALTLAKKPYARPMKTVAAEVSGYVESVVKERERERERLRKARQEQELASQRAKLAGVQPQLTAEPGTPSTSTQKAVQSVPAGSLPTEVLEPRSSAPPEEPAEPESHPTAESDHSGDSLFSPPDATIDLPSTEEEGPTAAESTPAAAPALPDDVQSATAPPIKAEAGPSALSFDAFSEFDSTWGQQSAGYIDTSMEYDMGFNINMDSLGGGRAGGAGGGSFDVDDGFGVFTEDDFDFFDAPSAQRGTAPAHSMPTESGTGLTPAAGPPPLGLPSLATGDLILSGPGPPSAHMNHSSPWAGHMGDPFTPRTVGDLHGMADHPTLPDLLPPSPSRTPSSHSAPATPGVQLSDAHKEGRKSSLSSLGPSFFDPIPFAPSHRQTDGKYAIGKFALPSPPADTDLVEAVVYNEADAQGSRGWRFRYNAVTDPRIGVVKKLIGVKRKSGTQGLREQRRLSAWEFYRETEDWQSSSPPSAGIVDSEESDDEQWMEDEETTFAPRPSTPPPSYLPLGPTLLQTHFHHEYLLPLCTTLRPPGTTMTSPPGTAQPISVPTPVSPAAVLGAASEKSKSLEAAAQILVKEVVENPTWAEAWRENASLALSPPSPPAKLWQADARYISSLLAAGEAVRSPTTVQELFSGPSKGETTVSLRTMTPPMLAVGKDEAIVQLSPTSLRFWEKLGLAPRAGPKDITAFVFYEGSDEERDSEIEEWLGKVSDAYSAKRFGTHVAGISSHCTKPGLVPTRFDTLRKTLMSFVSTIPTRHPHLAFYIATPAHIISLSSTVLRQVLSAVRRFYKANPSGDILVHFVPESLIEGIHTHPAANLAGLDDFVCSVYDRTLVPVTRAMSRKFFTHSAPLVGYFEAPAYALICTAGSGPSSSTAGPQVSFALESSVSSLDVMNRHMLLHVGYQVSSCGRWILATCVDAEGEAHELKTWLTPDDGVESFLVKEVWGFVHEFAKRANIEWRIVISKLGIMAPSEIDAWVSYLESAVAMSSEVPPFHVTLLAIDTEHSFTFVNHPGSGSLDILRRNSATTTSPKASTRATHATFSDVSYASHSLTTKPTLTLYPAYITDRSAKCVPPSLIPGSSNIPYVPDPDEDTDTGGTSQQTPIDALRVPGWSIVVCAPSTTDHTSVSTVRIFELYVTRSLRSTYEISSQKNAVTDTAQAHAEHMDDIVRNFHDLAVLARVRWKLRTHPALPFHLAALETMRTALSSGSYDS
Length1425
PositionKinase
OrganismPycnoporus cinnabarinus (Cinnabar-red polypore) (Trametes cinnabarina)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Agaricomycotina> Agaricomycetes> Polyporales> Polyporaceae> Trametes.
Aromaticity0.08
Grand average of hydropathy-0.288
Instability index58.41
Isoelectric point5.51
Molecular weight152902.47
Publications









Function






Annotated function

Component of the SRB8-11 complex. The SRB8-11 complex is a
regulatory module of the Mediator complex which is itself involved in
regulation of basal and activated RNA polymerase II-dependent
transcription. The SRB8-11 complex may be involved in the
transcriptional repression of a subset of genes regulated by Mediator.
It may inhibit the association of the Mediator complex with RNA
polymerase II to form the holoenzyme complex.



GO - Cellular Component
mediator complex	GO:0016592	IEA:InterPro

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

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IEA:InterPro









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP00377
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     226.01|      41|      45|     461|     501|       1
---------------------------------------------------------------------------
  294-  336 (33.06/ 7.80)	.S.....LP..TEV...L..EPrSSAPPeePAEP...ES.HPTaesdhsGDSLFS........................PPD....AT
  340-  386 (38.06/10.24)	PS.....TE..EEGPTAAesTP.AAAPA.lPDDV...QS..AT......APPIKA................EAG.....PSAlsfdAF
  461-  501 (79.26/30.39)	HS.....MP..TESGTGL..TP.AAGPP..PLGL...PS.LAT......GDLILS................GPG.....PPS....AH
  504-  548 (43.78/13.04)	HS.....SPwaGHMGDPF..TP.RTVGD..LHGMadhPT.LP........DLLPP................SPS....rTPS....SH
  690-  753 (31.84/ 7.20)	ESddeqwME..DE.ETTF..AP.RPSTP..P......PSyLPL......GPTLLQthfhheyllplcttlrPPGttmtsPPG....TA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     451.36|     173|     708|      20|     217|       2
---------------------------------------------------------------------------
    3-  119 (132.40/96.66)	........PTYYLP.L.................HPLL....PLPA.....................................................................................gtpvvllphgvpayyltTY...........................................................................................................................................................................................................................................................................................................................................SGPADALTAQFEDALLGFGAGNWKSFGRQRASE.........PNNSESSHGQSSrscSPYVIIWLAVQNKQGEDKgmsiVWPTTlcITYHSS
  120-  217 (128.31/55.79)	SPSAHARSPLTYLPEL.................PPQLQASPPPPASAV.PTMLSF......TTAAsSAADIPA......SATTSQS.ITPSIAAERD.YLSPSFQRRSSLLRSSPTSDSLRALRALTLAK..........................................................................................................................................................................................................................................................................................................................................................................................................................................................
  549-  606 (47.79/11.66)	.....................................................................................................................................................kpyarpmktvaaevsgyvesvvkererererlrkarqeqelasqraklagvqpqltaepgtpststqkavqsvpagslptevleprssappeepaepeshptaesdhsgdslfsppdatidlpsteeegptaaestpaaapalpddvqsatappikaeagpsalsfdafsefdstwgqqsagyidtsmeydmgfninmdslgggraggagggsfdvddgfgvfteddfdffdapsaqrgtapahsmptesgtgltpaagppplglpslatgdlilsgpgppsahmnhsspwaghmgdpftprtvgdlhgmadhptlpdllppspsrtpsshSAPATP.GVQLSDAHKEGRKSSLSSLG.PSFFD.........PIPFAPSHRQTD...GKYAIGKFAL..PSPPA..................
  760-  826 (48.24/13.13)	...................................................................................................................................................TP...........................................................................................................................................................................................................................................................................................................................................VSPAAVL...........GAASEKSKSLEAAAQilvkevvenPTWAEAWRENAS..........LALSPPSPPAK....LWQAD..ARYISS
  829-  956 (94.63/35.35)	AAGEAVRSPTT.VQELfsgpskgettvslrtmtPPMLAVGKDEAIVQLsPTSLRFweklglAPRA.GPKDITAfvfyegSDEERDSeIEEWLGKVSDaYSAKRFGTHVAGISSHCTKPGLVPTRFDTLRK..........................................................................................................................................................................................................................................................................................................................................................................................................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     181.33|      52|     340|    1028|    1083|       3
---------------------------------------------------------------------------
  982- 1034 (77.27/46.19)	IISLSSTVLRQVLSAV.RRFYkaNPSGDILVHF.VPE.SLIEGIHTHPAANLAGLD
 1037- 1090 (82.52/67.08)	VCSVYDRTLVPVTRAMSRKFF..THSAPLVGYFeAPAyALICTAGSGPSSSTAGPQ
 1091- 1115 (21.54/ 6.17)	.VSFALESSVSSLDVMNRHML..LH....VGY........................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      90.20|      26|     522|     656|     681|       6
---------------------------------------------------------------------------
  656-  681 (49.75/34.10)	GLREQRRLSAWEFYRETEDWQSSS.PP
 1179- 1205 (40.45/26.07)	GIMAPSEIDAWVSYLESAVAMSSEvPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.27|      12|     732|     625|     636|       7
---------------------------------------------------------------------------
  625-  636 (25.97/18.91)	RGWRFRY......NAVTD
 1352- 1369 (16.29/ 8.87)	RSLRSTYeissqkNAVTD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.00|      10|     708|     426|     440|       8
---------------------------------------------------------------------------
  404-  413 (20.04/11.25)	SMEYDMGFNI
  430-  439 (18.97/ 7.62)	SFDVDDGFGV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      73.26|      15|     279|     960|     974|       9
---------------------------------------------------------------------------
  960-  974 (28.40/13.95)	SFVSTIP...TRHPHLAF
 1237- 1254 (20.74/ 8.03)	SATTTSPkasTRATHATF
 1258- 1272 (24.12/10.64)	SYASHSL...TTKPTLTL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.70|      12|      29|     388|     399|      10
---------------------------------------------------------------------------
  388-  399 (23.35/12.41)	EFDSTWGQQSAG
  414-  425 (22.35/11.57)	NMDSLGGGRAGG
---------------------------------------------------------------------------




































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 MDP00377 with Med13 domain of Kingdom Fungi
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