<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 MDP04370

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSRPPPLHPSLPPRPATTLSSAPSRTGGAAGSGGQGAGTSGGSHPSSPATPLTLPARPAFVPTPTHPTSAKSGLSAGYSAGPASAGGLYGSPGTANSMSGPSGSPRAGTFASTSSFASSSDPSASTSNPFSTIRPRISASQARTNAQLIELGEGWVVEYRAWKGPALFVEGEGLKEGRMDYDPLRPPLGSVSPFPMSSSSSSSGKRAAKDKDGDASGPPAPKKAKRRSSAMNTNSKGSNAFDDLIAEELGTSTSSSIPSPSLSASAPFLGATTPSLPASPMQLSTSSSGTTHRVPAALKKAQAAAAAAAAVSTPAAPTPPPASTDAPAVDHLASPPSAPTDSSSSTQALRGRLAPLSNPDFLANDPILRAERDLRRREKARADEGKDRMSLLWLTERKAVQLGRAEKAEDGGKGKGKEAEDAKEKRKEQEKEDLVDAAEGEGRLLWVFCVVRGPDSVGFDDGKEAAADLDGMSFEGLEVFASGKLTHASLFPDLYSLPPGSATPSFTPPLSLPARSYPSALALSAQTYTVPSAATPLPSLTAKQAAYSAFRSTISSLLLDELVQLGAPETRPLHLADSVVYLPRPPSPASKESTLSLARPPAIKVSIPPPSLNQSAIFVLSSVSELSYTVPTCDLSPDTPLLLAPVDLPATLVRPLTRLSPAHLARLASDWRGELDRACVPDEERGDYLLCALDLPDSPRAQDRIEVIWPRALVIVDESRKPQHDDRAPPQAAPATPHETHAPSKSGEIGLAKEKENRPVRASPQLVRRADSALWRRSFADRALAAKSAAPSRRPSTTEGEQVVAVRTGAGDGPNVVKRRTGSVWSWMGDEGSRREEEREEERKRKEREEQERAERLKQEKEAEQEKGKSAAPSAAPAGAAAPINMRTPMSLGTSSTEAPSPAELYQPSTGSAGPSDAAAPASAVEAQAGSAPHAMEIDFGGADVYPSPAEPGPSASSTVQPASSAPMSALDAAFSEFDWGDGTFGTSGMGRGGRDEGHERAHDDGGLLGLTDDDFSFFDAPTPAPGSSALATSIGLSITAPASTVVGDPSFSALPNVAGIDAGFDLFSVAPTHFPAAAPTSLPFTSDGVFGSGTSPHFLQQSPATTFPFEALDSLTPNALGLAAPSPHAPTPSATILEPLAHLPSAVHDVSTATPVSTTSTAVISYSPLLAQGAATFAPTQQGLSSLGQLDSFQPLAFATSLSSDDKYDPRKGKFGLPSPDSDNEGRAARLVETEEDQLRHWYQAVCDPRYVVAQRLRRPKLTAKPSESAARPWTRRLSANPFVSVAVDGATPASLMLEPADVDLADADSDSEDAMDVHGGDGDTRSTDSGVEDGDLTMEDESLTSSCHTALLVDRGAVRHKKRLAKETTRYAPLAAADSARELIYAIIAEQVVINSEFREPVKLASAKDAGLVSLDSIATVTRSLGTICASLGPSPLFDDQAALPALSETPSVTFQLRIQRCIASTTWTAVDFWRPMGFEPLTGAKDVTAFAVFEDGGAEVRASVEEWAKLMSAAYQGLRLGEHVMGSKSTEQAMPGGLFALSPGALSDSHSREEFKVLYSALLETAKTSTNTVVYLVLPPGESPLAPKSPLAGILHQIGKSRSTVVNMVACPVSLSSITRCTSPAPDEPVPSRLLRLALNVYDQLQVPIERLRLPAPETFPSARPPPIAPLGPAVRLFQAPAFSIAPPKPHKVDFVLAWPSPSLEVEQRHRILHIAYASRPMTSGDGEWLVITIIDERGEIWRVSPRVLKLPNGAVADVHRARVVWTLLKGMIDCADVEWRIVICKVGEPSSVEAKATSSTVISEDGELTFIGARDSVPDKSPIFDQSSSTLTFTPREPVALSDGTLVAPASTYVFSVPRFSTADHSSAPAPSGPSSPAVSAYALHFLLSHRTRNSSYAATLKSLLSDVTRSFVELAALGQARFGTSGRMSWHIEAARQALAIIE
Length1948
PositionKinase
OrganismRhodosporidium toruloides (Yeast) (Rhodotorula gracilis)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Pucciniomycotina> Microbotryomycetes> Sporidiobolales> Sporidiobolaceae> Rhodotorula.
Aromaticity0.06
Grand average of hydropathy-0.281
Instability index56.73
Isoelectric point5.56
Molecular weight204337.40
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

>MDP04370
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     168.44|      37|      37|     880|     916|       1
---------------------------------------------------------------------------
   10-   48 (45.09/10.28)	SLPPRPATTLSSAPS.RTGGAAGSGGqGAGT................S..gGSHPSS......P
   49-   84 (37.15/ 7.09)	ATPLTLPARPAFVPT.PT...HPTSA.KSGL................SagySAGPAS.......
  265-  314 (36.54/ 6.85)	SAP....FLGATTPSlPASPMQLSTS.SSGTthrvpaalkkaqaaaaA...AAAVST......P
  887-  930 (49.66/12.11)	RTPMSLGTSSTEAPS.PAELYQPSTG.SAGP................S..dAAAPASaveaqaG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      95.81|      32|      35|     490|     523|       2
---------------------------------------------------------------------------
  492-  523 (59.78/21.34)	PDLYSLP.PGSATPSFTPPLSLPA..RSYPSALAL
  525-  559 (36.04/ 6.45)	AQTYTVPsAATPLPSLTAKQAAYSafRSTISSLLL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|      97.89|      17|      17|    1671|    1687|       3
---------------------------------------------------------------------------
  319-  333 (23.32/ 7.70)	PPPASTDAPAVDHL..A
  334-  349 (22.78/ 7.25)	SPPSAPTDSSSST.QAL
  600-  616 (22.85/ 7.31)	PPAIKVSIPPPSLNQSA
 1668- 1684 (28.94/12.34)	PPPIAPLGPAVRLFQAP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      35.71|      11|      15|    1630|    1640|       4
---------------------------------------------------------------------------
 1630- 1640 (20.12/10.28)	DE.PVPSRLLRL
 1646- 1657 (15.59/ 6.24)	DQlQVPIERLRL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     106.90|      31|     434|     393|     431|       5
---------------------------------------------------------------------------
  206-  227 (31.34/ 8.73)	...........RAAKDKD.GDASGPPA.PKKAKRR
  393-  427 (44.42/38.35)	WLTerkAVQLGRAEKAEDGGKGKGKEAeDAKEKRK
  446-  465 (31.14/11.91)	WVF...CVVRG....PDSVGFDDGKEA........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     308.84|      84|     487|    1198|    1339|       6
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  743-  797 (61.82/11.14)	PSKSGEIGLAK..EKENRPVRASPQLV...RRADSALWRRSfadrALAAKSAAPSRRPST..............................
 1126- 1192 (107.84/62.66)	PSPHAPTPSATILE....PLAHLPSAVHD....VS............TATPVSTTS...TAVISYSPLLAQGAATFAPTQQGLSSlGQLD
 1221- 1305 (139.18/88.74)	PDSDNEGRAARLVETEEDQLRHWYQAVCDpRYVVAQRLRRP....KLTAKPSESAARPWTRRLSANPFVSVAVDGATPASLMLEP.ADVD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     193.01|      49|     435|    1401|    1450|       7
---------------------------------------------------------------------------
 1401- 1450 (78.53/53.79)	REPVKLASAKDAGLVSLDS..IATVTRsLGTICASLGPSPLFDDQAALPALS
 1798- 1835 (46.82/24.96)	......AKATSSTVISEDG..ELTF...IGARDSVPDKSPIFDQSSS..TL.
 1840- 1884 (67.67/40.88)	REPVALS...DGTLVAPAStyVFSVPR.FSTADHSSAPAP...SGPSSPAVS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     225.81|      51|     434|    1062|    1115|       8
---------------------------------------------------------------------------
  942-  972 (47.21/13.60)	..GADV.......YPSPAEPG.PSASSTVQ.............PASSAP.MSALD
  974- 1004 (29.85/ 6.51)	.................AFSEFDW.GDGTFGtSGMGRGGRDEGHERAHD......
 1013- 1055 (62.03/23.02)	DDDFSFFD.APT..PAPGSSALA.TSIGL...SITAP....ASTVVGDPsFSAL.
 1062- 1114 (86.72/42.79)	DAGFDLFSvAPThFPAAAPTSLPFTSDGVFG.SGTSPHFLQQSPATTFP.FEALD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.54|      19|      30|    1565|    1583|       9
---------------------------------------------------------------------------
 1565- 1583 (31.57/18.70)	LLETAKTSTNTVVYLVLPP
 1597- 1615 (33.96/20.65)	ILHQIGKSRSTVVNMVACP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.41|      15|      35|     660|     685|      10
---------------------------------------------------------------------------
  660-  678 (22.01/13.02)	SPAHLARLASDWrgelDRA
  698-  712 (28.40/17.22)	SPRAQDRIEVIW....PRA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.64|      19|      33|      91|     111|      11
---------------------------------------------------------------------------
   91-  111 (30.92/21.93)	SPGTANSMSgpSGSPR.....AGTFA
  123-  146 (28.72/12.87)	SASTSNPFS..TIRPRisasqARTNA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.55|      16|      35|    1732|    1747|      12
---------------------------------------------------------------------------
 1732- 1747 (30.05/20.76)	W.LVITIIDERGEIWRV
 1769- 1785 (27.50/18.36)	WtLLKGMIDCADVEWRI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      35.98|      10|      16|    1888|    1897|      13
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 1888- 1897 (19.16/12.24)	LHFLLSHRTR
 1905- 1914 (16.82/ 9.77)	LKSLLSDVTR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.23|      17|     481|     369|     386|      16
---------------------------------------------------------------------------
  369-  386 (25.46/21.38)	RAERdLRRREKARADEGK
  853-  869 (27.77/17.63)	RAER.LKQEKEAEQEKGK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.44|      15|      44|     633|     649|      17
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  633-  649 (25.42/19.99)	CdlSPD...TPLLLAPVDLP
  679-  696 (26.02/13.44)	C..VPDeerGDYLLCALDLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.16|      20|    1062|     230|     256|      19
---------------------------------------------------------------------------
  176-  203 (31.02/12.94)	EGRMDYDPL.RPPLGSvspfpmssSSSSS
  236-  256 (30.14/14.70)	KGSNAFDDLiAEELGT........STSSS
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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 MDP04370 with Med13 domain of Kingdom Fungi
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