<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 MDP06559

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMAGPPPLTLPPKPTNPPNPLPPTAAAASSRSDVPAAAPLSSTRPMASRPVPLSLPNRPVTAAGGGGSRPPYTPTTSLYTPSTATPPLTIAGSPRGAAIPSYPTASTSTSTSAPPPPFLAGSPKLPPTAGTATTPTAGGTTTPSTSSAIPDSSAPASSAWSAIPPRLTPDRVAPTAQLIELGEGWSVRYRAWKAPAILVAVAAAAACQQDDAVASAESRTTMGRMDYDPWKAPLGSPSSFTTAGAAKSNRATKDKSNAPTRSTTNEAGPPPPSKKARTMTGSSSDAAKTGVAAASAKGNAFDDLLAQEMTSSAVASNATVGAVVVSEATTPSILMDAIKTPPLAANSVNAAERKPSLRVPAALRKAKAREEAAAAAAAGPDKDLVVYGSAAAPMSTSLQSSTASSTLPEASTSSSSSSGGASAKSFSELRNRLAPICNDPTFCSRDPLELALSTLRTRRTQYAQEGRDQLDLLWHVERHAVTLVGDEGEGESNPPPAPASTTDGKGKRKEVPGDASADDATSAGEECAARLRRGDGHARVLWAFSVVKGGEKDPDDDLDMGSLDQILVDFEFEGLEALAEGELSHSSLFPRLYSPGANSTTNFALPLSTSARSYPSCLALSENILIVPSATDPTPSCTPTQGAYRNFRAALSSCILDELVARPCEGRIPLRLDDAAIFLADPETVYRGMARPATFRAQVHPPTLNRTALLLFTSISDVGLEPFSPATADSPAAAAEKATRTKVILAPLGIEARVVNTYAADSFSPERLAELRREWAEPLSGAGVALDRLDAEGFVLCAITPSAVDAYGSNNEVEALWPRSLVLVDKRPPHSEPSAVDSKSVISVEAARDCSTSPALSTTRTEGIAPTGPRASSDVWAWYKEETKRREEERLEALRREQEDQEALRQKEQASITSDKAKVAGAPSAAAPINERTPMSLGTASTEAPSPAELLALPPSHTTAAAHEHELPQAVADDSTTHDHHVNGMDIDFGLNFYPSPAEAGHAVLSGAGGQSSAPLSTLDAALSSFDWGDGTFGAISSSAAGHDSIPAHASGPGYEDSLMLGLTDDDFSFFDTPSAPAVDGMAAPLGDGRAGSAAALMSVSGPPGFDAFPPPISASLPDNPFAFDVDGGFPMHHITAASMAPVTQAFAPVHIAPPLAPTQLADDVLPVAIDAKFSDGIDHTQSGSMPTVPPEVPSAGKVDFGPSFALDDSASRTGERTVAAFGPVRFDSSLAVLDDRFDPRRGKYGLPSPDSDDGGRARALVPVSRREKQRTRSWYEAVYDPRLHVADRLVSQRIVEKLPSETGGSRLTITAALQAPKSSRAWTTRRRFVEGGVGRGSIDSEALPSPDAWPQNAYASDAAVVDADGDISDEITSDEDVEAFEADDPSSATVNSDVLPREIPSAALLACGRSLVKVLSDTVTATQHITPPPKPTSYEMAYAVFAEQAVYQRQLRRLLLTGPASGNENTSTTTAASTSAVASLLSSVASALGTSPLFSDQTSLPALAAEAAPAFSIRAQSCLVQTDSLAFDFWRAMGFEPIAAAKDVTAVVLCEDEENGDFVRAAHGWMDAMRNAYEGLRLGQHRPAEVTGSPHVAAIRGGLLVVPTGRLAGHALEAELKPIYAAILDLLKHNTHVVVYVHASVEASLDSLGPLAEIIQQITKCRINPNTASANVLAVPLPSGPAHGSLDVNASALAHIAFAVYDQLQVAIERIRLPVPETFPTARPPPVAPLGPAIRLFQAPVISIALPDSQEPQFALSWPPSSFDIEYRHRFLHVCYATRPVPGCPGQEWLVISIVDEKGETWRVLPRYLKYPPNIVVDVHRARIIWNFTKGVVESADVEWRVLVCKLGEPSAVEIKAWESVLHEFASQSKRPLHLSFSCIDPEPPIALSRFDAELHRPSTTSSIPEEGEFNLRAASQPSSAASSFRMDGKGAAVFDAEPAFFSFTPAEPIPLSSLSVVAPASTFLIHLPRTTPLSHCTPSPPPTFEDSSSRQATSAYGIHLLCSTSSKSSLYDSPVASYLADVRRNFVELAALGKARWGTSGRMSWHLEAARDALLLSV
Length2059
PositionKinase
OrganismRhodotorula sp. JG-1b
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Pucciniomycotina> Microbotryomycetes> Sporidiobolales> Sporidiobolaceae> Rhodotorula> unclassified Rhodotorula.
Aromaticity0.06
Grand average of hydropathy-0.191
Instability index51.98
Isoelectric point5.20
Molecular weight216078.33
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.



ECO:0000256	RuleBase:RU364134

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

>MDP06559
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     202.11|      31|      31|      73|     103|       1
---------------------------------------------------------------------------
    5-   47 (32.24/ 9.12)	.P.PLTLPPKP.....TNPPNPLPPT.........aaaassrsdvPAAaplSSTRPM..AS
   48-   83 (34.96/10.68)	RPvPLSLPNRPvtaagGGGSRPPY....................tPTT...SLYTPS..TA
   84-  112 (47.52/17.88)	TP.PLTIAGSP.....RGAAIPSYPT........................aSTSTST..SA
  113-  131 (31.08/ 8.45)	PP.PPFLAGSP.....K...LP..PT...............................agTA
  132-  161 (28.17/ 6.78)	TT.P.T.AG........GTTTPS..T...............ssaiPDS...SAPASSawSA
 1109- 1151 (28.13/ 6.76)	PP.PI............SASLPDNPFafdvdggfpmhhitaasmaPVT...QAFAPV..HI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.90|      27|      31|     705|     735|       2
---------------------------------------------------------------------------
  705-  735 (40.73/29.36)	RTALLLftsiSDVGLEPFSPAT..AD..SPAAAAE
  739-  769 (36.17/17.05)	RTKVIL....APLGIEARVVNTyaADsfSPERLAE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     111.65|      34|      36|    1770|    1805|       3
---------------------------------------------------------------------------
 1770- 1805 (59.11/44.25)	RFLHvcYATRPVPGCPGQE..W.LVISIVDEKGETWRVL
 1807- 1843 (52.54/32.01)	RYLK..YPPNIVVDVHRARiiWnFTKGVVESADVEWRVL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      91.81|      27|      29|    1187|    1215|       4
---------------------------------------------------------------------------
  493-  524 (40.81/15.42)	PPPAPASttdgkGKRKEVPGDASADDATSAGE
 1189- 1215 (51.01/27.77)	PPEVPSA.....GKVDFGPSFALDDSASRTGE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     101.08|      30|      31|    1939|    1968|       5
---------------------------------------------------------------------------
 1939- 1968 (51.63/22.10)	P...AFFSFTPAEPIPLSSLSVVAPASTFLIHL
 1969- 2001 (49.45/20.82)	PrttPLSHCTPSPPPTFEDSSSRQATSAYGIHL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     123.93|      38|      43|     984|    1026|       6
---------------------------------------------------------------------------
  985- 1025 (63.92/31.86)	DID...FGlnfYPSPAEAGH....AVLSGAGGQSSAPLSTLDAALSSF
 1026- 1070 (60.01/22.38)	DWGdgtFG...AISSSAAGHdsipAHASGPGYEDSLMLGLTDDDFSFF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     170.07|      43|      45|     215|     257|       7
---------------------------------------------------------------------------
  165-  206 (52.09/25.69)	RLTPDRVAP...............T.AQLIELG..........EgwsVRYRAWKA....PAILVAVA.AAAAC
  207-  248 (60.43/31.22)	QQDD................avasA.ESRTTMG..........R...MDYDPWKAPLGSPSSFTTAG.AAKSN
  249-  295 (30.07/11.10)	RATKDKSNAptrsttneagppppsK.KARTMT.........................GSSSDAAKTGvAAASA
  296-  356 (27.48/ 9.38)	.....KGNA...fddllaqemtssAvASNATVGavvvseattpS...ILMDAIKTPPLAANSVNAAE.RKPSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     144.38|      39|      74|    1590|    1628|       8
---------------------------------------------------------------------------
 1590- 1628 (65.89/37.59)	PHVAAIRGGLLVVP..TGRLAGHA.LE...AELK...PIYAAILDLLK
 1631- 1660 (29.93/12.47)	THVVVYV...............HAsVE...ASLDslgPLAEIIQQITK
 1665- 1705 (48.57/25.49)	PNTAS..ANVLAVPlpSGPAHG.S.LDvnaSALA...HIAFAVYDQLQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     136.57|      31|      31|     594|     624|       9
---------------------------------------------------------------------------
  402-  432 (31.59/11.57)	..ASSTLPEASTSSSSSSGGASAKSFSElrNRL
  594-  624 (53.56/25.60)	PGANSTTNFALPLSTSARSYPSCLALSE..NIL
  627-  655 (51.42/24.23)	PSATDPTPSCTPTQGAYRNFRA..ALSS..CIL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.79|      14|      31|     800|     814|      10
---------------------------------------------------------------------------
  800-  814 (21.25/19.26)	PSAVDAyGSNNEVEA
  832-  845 (24.54/15.59)	PSAVDS.KSVISVEA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.90|      19|      44|    1075|    1094|      11
---------------------------------------------------------------------------
 1075- 1094 (30.62/22.43)	APA....................VDGmAAPLGDGRAGSAA
 1102- 1140 (25.28/11.90)	PPGfdafpppisaslpdnpfafdVDG.GFPMHHITAASMA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     101.22|      30|      31|    1862|    1891|      12
---------------------------------------------------------------------------
 1862- 1891 (54.46/30.92)	LHEFASQSKRPLHLSFSC.IDPEPPIALSRF
 1895- 1925 (46.75/25.27)	LHRPSTTSSIPEEGEFNLrAASQPSSAASSF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.50|      18|      31|    1292|    1316|      13
---------------------------------------------------------------------------
 1292- 1315 (24.03/19.99)	QRIVEklpsetGG.SRLTI.TAALQA
 1326- 1345 (24.47/ 7.01)	RRFVE......GGvGRGSIdSEALPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.93|      22|      31|     919|     941|      14
---------------------------------------------------------------------------
  907-  929 (28.52/18.14)	EQASITSDKAKVAgAPSAAAPIN
  930-  951 (35.41/18.74)	ERTPMSLGTASTE.APSPAELLA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      87.04|      24|      26|    1370|    1393|      15
---------------------------------------------------------------------------
 1370- 1393 (38.98/24.53)	EITSDEDVEAFEADDPSSATVNSD
 1398- 1417 (29.70/16.25)	EIPS....AALLACGRSLVKVLSD
 1418- 1433 (18.36/ 6.13)	TVTATQHIT..PPPKPTS......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.44|      24|      26|     538|     562|      16
---------------------------------------------------------------------------
  538-  562 (38.46/32.67)	RVLWAFSvVKGGEKDPDDDLDMGSL
  564-  587 (38.98/27.59)	QILVDFE.FEGLEALAEGELSHSSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.30|      14|      32|    1711|    1725|      17
---------------------------------------------------------------------------
 1711- 1725 (24.29/15.65)	IRLP...VPEtFPTARPP
 1744- 1760 (24.01/10.47)	IALPdsqEPQ.FALSWPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     120.14|      40|      44|    1475|    1515|      20
---------------------------------------------------------------------------
 1475- 1515 (59.14/38.08)	SAVA...SLLSSVASALGTSPLFS..DQTSLPALAAEAAPAFsIRA
 1517- 1561 (61.00/35.08)	SCLVqtdSLAFDFWRAMGFEPIAAakDVTAVVLCEDEENGDF.VRA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      95.39|      30|     401|     442|     476|      22
---------------------------------------------------------------------------
  442-  476 (47.59/35.10)	CSRDPlelALSTLRTRrtQYAQEG.RDQLDL.LWHVE
  849-  880 (47.80/23.53)	CSTSP...ALSTTRTE..GIAPTGpRASSDVwAWYKE
---------------------------------------------------------------------------




































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 MDP06559 with Med13 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) ARDCSTSPALSTTRTEGIAPTGPRASSDVWAWYKEE
2) LMDAIKTPPLAANSVNAAERKPSLRVPAALRK
3) MAGPPPLTLPPKPTNPPNPLPPTAAAASSRSDVPAAAPLSSTRPMASRPVPLSLPNRPVTAAGGGGSRPPYTPTTSLYTPSTATPPLTIAGSPRGAAIPSYPTASTSTSTSAPPPPFLAGSPKLPPTAGTATTPTAGGTTTPSTSSAIPDSSAPASSAWSAIPPRLTPDRVAPTAQLIE
4) QQDDAVASAESRTTMGRMDYDPWKAPLGSPSSFTTAGAAKSNRATKDKSNAPTRSTTNEAGPPPPSKKARTMTGSSSDAAKTGVAA
5) REEERLEALRREQEDQEALRQKEQASITSDKAKVAGAPSAAAPINERTPMSLGTASTEAPSPAELLALPPSHTTAAAHEHELPQAVADDSTTHDHHV
6) VTLVGDEGEGESNPPPAPASTTDGKGKRKEVPGDASADDATSAGEECAA
846
333
1
207
885
480
881
364
179
292
981
528










Molecular Recognition Features






MoRF SequenceStartStop




1) LRVPAALRKAKAR
356
368