<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 MDP30044

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMDSIKNSSTSVSAVGGYGVISYRTFSATSSLDATTAKAAELDGLSCVEARLREAKRLVYLDRQKTVLWLFEPGTSPPALDHGSLQSQQLNGLQLSSQSEGDIKAADLARLAGRHHSLSAAQAGGQYGSTASNARALQAANIRAFQSNQQGSGVSAANSDATRQHDPLSVYESFMSAVVGSISYNLSRFHHMIPLNYRTFVSYPRPTTAENPDDDDDDFTILGGMDCLITTLDAHLSTSGTMVISTSVSNSTEIHQLERILTVYDAHEDFLGELVRISPCGIIARYVGHETSAVGSERDGLGSTKRARAIQQWKADTLRWLRMKGLVLPDMDEEGKWVRIQLQPPQHATKDTNDPSATLCRECLWPAALCFFYGPIREDGDLSTADVPGHLRSHDDQDPGVMWWQGPSKQGFTDPLWQAYNWFLGKPEREKAIEARKKARQAQEENVQPTQEPTMAYPSSPLYSRGSAYGDLQVVSGVYPTPPDAVLPPNAGGHAAMDGLLMSQPNQEFISQTGNTGTGADGSATAEHPAPPGTTPGEHLDPSRAMNTPADGQDAEADNNDDLFEDMDEEMFGGNDVTEADFNFFDDGEGDFADLMDVSQPATFEEQQQDTSPAEAKFEDASPVVQVSGQVHAEEEPVTYKSEITATPAVPSADIEMSEPKDETKPGDIFQDPEIQVDEPKGEAEEEVQITREPSPPLGPARIHEKLFPSVHAREADTGAKDFAKTKAEGGAIFNTVDFNQMMQLTDSKYAAGGQFHFPEKANGDTMTAMNYRSANLSIRAPPGQISRPTSSAQSLTLESTSKFIRSIVVPKHTSDDSTMDGLSEDSDSYSDISASSGSFNEETASVAHQKDSGLLAPVHKKWGSSNAGTPMVGTPGTLQLDSGAQDTMIGESDGIMSELPALSSLEPGPSDWPLARLPPPMVKVRRRPGADTRSRRGSFSLASAASTPSSDGRSEAFTEAPALNLKEVINITQMLADQVIHSTLDLMPEDDDPSLLCSERQTGGCRKLAPIQKIQNAVRDLFQQVSECDMLKYASIQDVIPEPAAANKTQHKSVQRRNNNADPQGSMFFTIPTPHVRLRRGEDTWDVLPPALSFWEPLGLSPTNGPKNIMAYCVYPSSDQLKKPVTSFIDSISMAYESCKFGSHVRGPDIEQIATNGRVSAFVNSGEGDHWRPTAQNCLQAVRDTCSSLGRHLSRIDFKKHAKAEDSSTVDALVVYLVNPFSDPHNLWQLCSAFWALFQAYLPSVPSNRAVDDSKPELVLQLVPVKYIASFEAPVVLEPSLLTRFAREIYDRCPPREPSHDHTALSIYSAPSIQLEESLPKSIPFRVTSEPPSDLLHENSYIHVGYAISVDGTWLTAAWTDNPGKHQATVSYCLNNRSFLEVAREIYQTSLEIMSARRVTWRLCIARAGVMEREEQDAWQALVTSPCPLVIGTALVSIEPNPSFCMTSNLPALSASQTLSSGNAGVSTPGGNTPQPGVSPDAHGFTPAATPSDGNTSAPAVDPANDPDARLIDVTDESWGVILQHRLHNSNSTTEFRPALASGYLIKRGADSNTDALASSTGKSDNPDTPRGPVAVGVNLLWIGSTPGGHTPQRAAAAAAAAQAQAAAAAHAAAQAHAHTHQSATPTPTPSAHNPNISIPLQHLEAAAAAAGGASGNGNVASSAGATGGMGSNINSPLPSPAGGAMGQGIGAAAAASTGGGGGGPFAANQARTTYDTVLKEFLVMYRGLGLLARLKGMRGTRGGAVPWHVAAAMRGVKALERCV
Length1764
PositionKinase
OrganismMacrophomina phaseolina (strain MS6) (Charcoal rot fungus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Dothideomycetes> Dothideomycetes incertae sedis> Botryosphaeriales> Botryosphaeriaceae> Macrophomina.
Aromaticity0.06
Grand average of hydropathy-0.413
Instability index45.13
Isoelectric point5.05
Molecular weight188697.41
Publications
PubMed=22992219

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

>MDP30044
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     179.44|      47|      50|      71|     118|       1
---------------------------------------------------------------------------
   31-   68 (44.29/19.64)	..........LDATTAKAAELDGL...SCVEARLREA..KrLVYLDRQKTVLW
   71-  118 (74.75/41.77)	EPGT..SPPALDHGSLQSQQLNGLQlSSQSEGDIKAA..D.LARLAGRHHSLS
  121-  168 (60.39/29.43)	QAGGqyGSTASNARALQAANIRAFQ.SNQQGSGVSAAnsD.ATR...QHDPLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     284.28|      48|      50|    1585|    1632|       2
---------------------------------------------------------------------------
 1467- 1509 (67.39/25.42)	STPGGNTPQPGVSPDAHGFTPAATPSDGNTSAPA......VDP.AND.PDA
 1527- 1575 (55.36/19.55)	LHNSNSTTEFRPALASGYLIKRGADSNTDALA.SSTG.KSDNPdTPRgPVA
 1585- 1632 (80.81/31.96)	STPGGHTPQRAAAAAAAAQAQAAAAAHAAAQAHAHTH.QSATP.TPT.PSA
 1638- 1681 (50.59/17.22)	SIPLQHL.EAAAAAAGGASGNGNVASSAGATGGMGSNiNSPLP.SP.....
 1683- 1712 (30.13/ 7.24)	...GGAMGQGIGAAAAASTGGGGGGPFAANQAR..................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     125.05|      43|      51|     597|     647|       3
---------------------------------------------------------------------------
  597-  647 (56.56/48.35)	V.SQPATFEEQQQDTSPAEAkFEDasPVVQVS.GQVHAEEEpVtyksEITATP
  649-  693 (68.48/34.85)	VpSADIEMSEPKDETKPGDI.FQD..PEIQVDePKGEAEEE.V....QITREP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      97.96|      24|      50|     354|     377|       4
---------------------------------------------------------------------------
  354-  377 (49.13/33.42)	PSATLCRECLWPAALCFFYGPIRE
  406-  429 (48.83/33.17)	PSKQGFTDPLWQAYNWFLGKPERE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     152.66|      49|      51|     716|     766|       5
---------------------------------------------------------------------------
  716-  766 (79.51/47.70)	DTGAKDFAKTKAEGGAIFNTVDFNQMMQL.TDSKYAAGgqFHFPEKANGD.TM
  769-  819 (73.15/38.28)	MNYRSANLSIRAPPGQISRPTSSAQSLTLeSTSKFIRS..IVVPKHTSDDsTM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     145.97|      51|      53|     447|     498|       6
---------------------------------------------------------------------------
  447-  469 (28.18/ 7.33)	.....................................QPTQEPTMAYPSSPLYSRGSAYG
  470-  525 (84.92/39.81)	DLQVVSGVYP....TPPDAVLPPNAGGHAAMDgllmsQPNQEFISQTGNTGTGADGSATA
  526-  557 (32.87/ 9.88)	EHPAPPGTTPgehlDPSRAMNTPADGQDAEAD............................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.02|      18|      47|     855|     872|       7
---------------------------------------------------------------------------
  855-  872 (34.62/19.87)	LAPVHKKWGSSNAGTPMV
  905-  922 (34.40/19.68)	LEPGPSDWPLARLPPPMV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     146.13|      47|      50|    1103|    1152|       8
---------------------------------------------------------------------------
 1103- 1139 (42.26/33.69)	...................TNGPKNIMAYCVYPSSDQLkKPVTSfiDSISMAYESC
 1140- 1186 (74.09/46.10)	KFGSHVRGPDIEQ....iaTNG..RVSAFVNSGEGDHW.RPTAQ..NCLQAVRDTC
 1188- 1223 (29.77/12.98)	SLGRHLSRIDFKKhakaedSSTVDALVVYLVNPFSD....................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.19|      22|      53|    1243|    1282|      11
---------------------------------------------------------------------------
 1243- 1281 (28.68/44.85)	PSVPS..NRAvddskpelvlqlvpvkyIASFEAPVV.LEPSL
 1295- 1319 (29.51/10.83)	PREPShdHTA.................LSIYSAPSIqLEESL
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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 MDP30044 with Med13 domain of Kingdom Fungi
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