<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 MDP00475

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMKVKEVKYTVFSPQNNDDQSLLDAELDLRKNYPRLLAVLYSKDLWTFALNGDDPPNPNAKFGLKASPVKSFDPHNMYKSNAGTPSSLMSLLCATFIKAIKKQLVLTLVLRRELIPFGSAGLLPGSSHILHIEPKLVETGDLLVSLTTRQHNFELLNEYPVSQRSVNKENTIYLVPSGIRAYLTDETLAESTASKPLNATSIAESLETLHGIQIDVDACTWIRLIPNLAHLNGMTAPVADFFKPVPNNKFLVWPAELCVVQPASKLRATEINWKKEFTDPLSLIDSFVKLKATATTKTPSAVPTAHNTPADVDHLHHTHHIETPSSKPTPDGFPLQATAPITEEPRKEEELSSNKDEWDDLDAELFGGDSPNAEPDFDFFDEPKSATNVITGHANANTDTLMLDNDIDLDDDDDLGLHADLASELEMLAGQDEDGAPESLIPIDTEDKPATHTQTPDPYDIPLHEMMMPSTPPYTDPGAPLPVQSPKTVSRKRSIFSPLNFNPIIKSNVDDKYANGGKFHVASSDTPTGETSGGTPATVLDEGFGKDEGDDDDSEDEGDSESGSESESDEDEVGNSIVTGDDLVSSNMSIPPEGSIEPDLKRIKTDGTPSTQSFEGVISENKAGSLSPGVASNGNPNIWPFLLRMIPLHTMPDQVYLDSPNISKEGSEELVDTLIDQVVWDDSCLSEVIPRGLCFEESECDNLHRAIALVYPEFHPTSLSEYSGIPYNKPQKTPTVIESPLSSFKAPDYSHGTEFITTPPQVKEAQEPAEESKSCFVISQPKVKVKRLHQEISVNASAVHLWNTLSFGSLTGQKDVRVLMLSPKEVSEQATYFLSSLVQVYKKCQLGEMEKMVYSAQGAPGLITAGFNDVDYEDQVLSGFRAAHQILVRGMNYKDIVVIFPDYGEDLTSTISITKIFLKIKQTLLTTSSGKTLPIKVHLKIISSSFVTHDGVFSVLSINRLARMALCIFNNVCNPQDTFAKLSSSPSYKINFQLTERPVAEKILAQDSFIHLAFERSIDKEWCVAAWADNKANVRKVKAWAGSTKTKEPLEKVMDEMWQITISLSSKLKGRKYLVLTRSNGMITDDELLQLKRMSSKSKDLTLILVSMNQNTRLLLKANDPGFPFNQLFNQDESFSGALTSNKVEAAGTVGSSTGLTPSTIFTPQPAVNSPDLFTMGRATTHDSPSEGRHADDGSVINDVSDTVYGLITDYASPLANTPTRLSIKTGFLIKPVKHTNNKLQAFELNLLSCPSTFSSWDLMHELLIQCRNLATIGELYGVTHPNDSLIPWHVKAVDKAMKCLTHVKIDNGSQT
Length1311
PositionKinase
OrganismCyberlindnera fabianii (Yeast) (Hansenula fabianii)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Phaffomycetaceae> Cyberlindnera.
Aromaticity0.07
Grand average of hydropathy-0.337
Instability index41.59
Isoelectric point4.96
Molecular weight144020.68
Publications
PubMed=25103752
PubMed=28385833

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

>MDP00475
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     390.95|     121|     136|     308|     443|       1
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  308-  443 (192.64/139.92)	PADVDhlHHTHHIETPSSKPTPD.GFPLQATAPITEEPRKE..EELSSNKDEWDDLDAELFGGDSpnaepdfdfFDEPKSATNviTGHANANTDTLMLDNDIDLD..DDDDLGLHADLASELEmlAGQDEDGAPESLIPID
  455-  580 (198.31/112.67)	PDPYD..IPLHEMMMPSTPPYTDpGAPLPVQSPKTVSRKRSifSPLNFNPIIKSNVDDKYANGGK.........FHVASSDTP..TGETSGGTPATVLDEGFGKDegDDDDSEDEGDSESGSE..SESDEDEVGNSIVTGD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     203.60|      68|     305|     783|     978|       2
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  909-  978 (106.51/233.65)	TISITKIFLKIKQTLLTTSSGKTLPIK.VHLKIISSSfvTHDGVFSVLSINRLARMALCI......FNNVCNPQDTF
 1060- 1134 (97.09/22.01)	TISLSSKLKGRKYLVLTRSNGMITDDElLQLKRMSSK..SKDLTLILVSMNQNTRLLLKAndpgfpFNQLFNQDESF
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     130.86|      42|     523|     615|     659|       3
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  615-  659 (68.26/45.08)	GVISENK...AGSLspGVASNGNPNiWPF....LLRMIPLHTMPDQVYLDSP
 1136- 1184 (62.60/32.22)	GALTSNKveaAGTV..GSSTGLTPS.TIFtpqpAVNSPDLFTMGRATTHDSP
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     165.53|      59|     512|     194|     272|       4
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  194-  272 (85.31/91.86)	KPLNATSIAESleTLHGIQidvdactwirlIPNLAH.LNGMTAP..VADFFKPVPNNKflvwpaeLCVV..QPASKLR..ATEIN........W
  728-  801 (80.21/47.13)	KPQKTPTVIES..PLSSFK...........APDYSHgTEFITTPpqVKEAQEPAEESK.......SCFVisQPKVKVKrlHQEISvnasavhlW
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     135.79|      43|     190|     662|     713|       8
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  662-  713 (67.58/63.91)	SKEGSEELVDTLIDQVVWDDSCLS......EVIPRGLCFEEsecdnlhraIALVYPEF
  854-  902 (68.21/44.88)	SAQGAPGLITAGFNDVDYEDQVLSgfraahQILVRGMNYKD.........IVVIFPDY
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.55|      17|     836|     151|     168|      11
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  151-  168 (27.77/26.36)	NFElLNEYPVS..............QRSVNKE
  990- 1020 (21.78/14.05)	NFQ.LTERPVAekilaqdsfihlafERSIDKE
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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 MDP00475 with Med13 domain of Kingdom Fungi
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