<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 MDP11040

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMESIKNSTTSVSAVHGYGVVSFRTFSATASVDSPTAKAAELDGLRCVEARLREARRLVYVDRLKQLLWLFEPGTNPPALDHGSLQSQQLNGLQLAAQSEGELKAAELARFTNRPPASQSGLQHASAASNTRALQAANARAFQGNQHAGGASANGTDASRQHDALSVYESFMSAVIGSISYNLSRFHHMIPLNYRTFVSYSRTANPADRSDDDDDDSAVLGGLGCLLTTLDAHLSTAGTLVISTSVSTTNNVYQLEKILTLYDVHDDFLGELVRIAPCGIIARYVGHETSAVGSEHHGLGTTRRSRATQQWKTDTLRWLRMKGLVLPDMHEEGKWVRIQLQPSQQAPKDLNDPSTSLCRECLWPASLCFFYSAGGGGGDLESLEELRPAGQQDDQDPGVAWWQGPGRSGFADPLWQAYNWFLGKPERNKAIEARKKARQAQEDNPPPVAEPTMAYPSSPLYSRGSAYGDLQGASGVYPTPPDAVLPPGAGGHTTMDGIVMGPTTQDSQSHAGQTSAGGDNFTQQENTGAADATPGEHIDPTRAADTPAGGAADGDDNDDLFEDMDEEMFGANDVTEADFNFFDDGDGGFGDLMDVSQPATFEEQKQNSSPANTRFEGVSPMIHVVDAEQTELEPSTLKSEIATTPAPPEIDVQMTEMEEQPKAEDTPPDQGFETNEAKNEAPEETAIIREPSPPLSPARINEKLFGSPHIGEAETKVHDFAKPKAEGGALFDTVDFSQRMQLADSKYAAGGQFFFSGKDRDPSARAHSGQLSRPTSSAHSATLERASDLIRSIVAPKRTSDDSYMKDGVSEDSDTYSDVSVSTGSYDEDTGSTMLQDSGLLVPSQRKLGSSTAGTPVVGTPGTLQLDSGSQVGDGDNFVPELPPLSSLEPTPSDWSLAGLPPPMIKVRRRYGADPRSRRGSFSLASAASTPSSDGRSEAVADAPALNLKEIINITQMLADQIIHSTLDLIIEEGESNQVCSRNQIGWPRMLAPIQTVQNAVRDLFQQTNECDMVKYASIQDVMPESAAAKQAQQKSVQRRATTAEPHGNMFFSISTPHIRLRRGEDTWDVLPPALSFWESLGLSPTSGPKNVVAYCVYPSSDQLSDPITSFLDNISMAYESSKFGTHVRGPDIEHLSTGGLVSAPINTHESDHWKPTTQSCLQSVRDTCSSLGRHLSRIDFKKVTKPEDSSQPDAVVVYLINPFSDPHNLWQLCSAFWALFQAYLPSPSSRVLDESRPELVLQLVPVKCIASFEAPVVLDPSLLARLAREVYDRCPPKEPSTDHTTLSIYSAPSIQLEETLPKSIPFRLTAEPPSDLLHENSYIHVAYAVSVDGSWLTAAWTDNPGKHQATASYCLNNRTFVEVAREIHQTSLEIMSARRVTWRLCIARAGVMERDEQDAWQGLVTSQCPLVIGTALISVDPNPPFSITSSLPTLASVANQNSGTAGVSTPGGSTPQPGVSPDAHGFTPAATPSDSNTSAPPAADPSNDQDARLVDVTDESWGVILQHRLHNSNSTTEFRPALASGYLVKRGADGNTTDTSGGGSRTDHPEPPPRGPIAVGVNLLWIGSTPGGHQPQRTAAAAAQAAAAAAAAAAAAAAQHPHHVSPTPHNPNISIPLQHLEATAAAAGGNNNNNNSNPNSNGNGAAASAAAGTTGGGGNASGAASALPSPGAGAASGPGGVIVGGGVGGSPFAANQARTTYDTVLKEFLITYRGLGLLARLKGMRGTRGGAVPWHVAAAMRGVEAFERCL
Length1750
PositionKinase
OrganismDiplodia corticola
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Dothideomycetes> Dothideomycetes incertae sedis> Botryosphaeriales> Botryosphaeriaceae> Diplodia.
Aromaticity0.06
Grand average of hydropathy-0.423
Instability index46.80
Isoelectric point5.02
Molecular weight186195.74
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

>MDP11040
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     168.18|      28|      28|    1636|    1663|       1
---------------------------------------------------------------------------
 1448- 1476 (32.65/10.18)	STPgGSTPQPGVSPDAHGFTPAATPSDSN
 1512- 1539 (30.60/ 9.03)	SNS.TTEFRPALASGYLVKRGADGNTTDT
 1606- 1634 (32.50/10.09)	PTPhNPNISIPLQHLEATAAAAGGNNNNN
 1636- 1663 (43.93/16.47)	SNP.NSNGNGAAASAAAGTTGGGGNASGA
 1665- 1690 (28.49/ 7.85)	SAL.PSPGAGAASGPGGVIVGGGVGGS..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     677.97|     187|     213|     364|     576|       2
---------------------------------------------------------------------------
  364-  576 (303.93/189.28)	ASLCFFYSagggGgdlesleelrpagqqDDQDPGVAWWQgPGRSG.FADPLWQAYNWFLgkpER.NKAIEARKKAR.QAQEDN..PPPVAEPTMAYPSSPLYSRGSAYGDLQGA...SGVYPTPPdAVLPPGA...GGHTTMDGIVMGP.TTQ.DSQSHAGQTSAGGDNFTQQ.ENTGAADATPGEHIDPTRAAD....TPAGGAADGDDNDdlFEDMDEE...MFGANDVTE....A
  579-  742 (203.08/91.18)	...................................NFFD.DGDGG.FGD..................LMDVSQPATfEEQKQN..SSP.ANTRFEGVSPMIHVVDAEQTELEPStlkSEIATTPA....PPEI.....DVQMTEMEEQP.KAE.DTPPDQGFETNEAKNEAPE.ET..AIIREPSPPLSPARINEklfgSPHIGEAETKVHD..FAKPKAEggaLFDTVDFSQrmqlA
  748-  893 (170.96/78.27)	AGGQFFFS....G...............KDRDPSAR.....AHSGqLSRPTSSAHSATL...ERaSDLIRSIVAPK.RTSDDSymKDGVSEDSDTY.SDVSVSTGS.YDEDTGS...TMLQDS...GLLVPSQrklGSSTAGTPVVGTPgTLQlDSGSQVGD....GDNFVPElPPLSSLEPTPSD....................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.22|      18|      30|      91|     109|       3
---------------------------------------------------------------------------
   91-  109 (26.11/20.36)	GLQ..LAAQSEGELKAAElAR
  120-  139 (26.11/15.10)	GLQhaSAASNTRALQAAN.AR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.90|      22|      25|     148|     172|       4
---------------------------------------------------------------------------
  148-  172 (34.19/27.20)	GGASANgtdASRQHDALSV.YESFMS
  176-  198 (37.71/21.37)	GSISYN...LSRFHHMIPLnYRTFVS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.27|      19|      30|     222|     240|       6
---------------------------------------------------------------------------
  222-  240 (32.51/21.55)	LGCLLTTLDAHLSTAGTLV
  254-  272 (32.76/21.77)	LEKILTLYDVHDDFLGELV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.69|      28|      32|     951|     978|       7
---------------------------------------------------------------------------
  951-  978 (46.48/34.57)	INITQMLAD.QIIHSTL.DLIIEEGESNQV
  984- 1013 (42.20/30.59)	IGWPRMLAPiQTVQNAVrDLFQQTNECDMV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      94.24|      29|      89|    1170|    1198|       9
---------------------------------------------------------------------------
 1170- 1198 (47.18/30.48)	SLGRHLSRIDFKKVTKPEDSSQPDAVVVY
 1261- 1289 (47.06/30.39)	SLLARLAREVYDRCPPKEPSTDHTTLSIY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.83|      20|      27|     894|     913|      10
---------------------------------------------------------------------------
  894-  913 (38.38/26.64)	WSLAGLPP.PMIKVRRRYGAD
  921-  941 (28.44/17.17)	FSLASAAStPSSDGRSEAVAD
---------------------------------------------------------------------------




































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 MDP11040 with Med13 domain of Kingdom Fungi
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