<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 MDP02962

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMETSEYETNTLSINNIASITFRIYEPPPDQSHGFQSSALEIQSSLRDQGKLVSYDADRVGIWIFQIVSKDGTSKAVNSAPGSSLEASGYTLGMVEEGNLEPVALQKSRIPGNTTQNAPNNTASTASPAEANSRNPLISPTQVAGGALPEGVSQSSAQVTDMRTTQPVPKIIYEQFIVAVISSIAFAFCSRSMAIPLNYRTMLIPPLLADANERERGSLQADPVVGTFKTYLTTTGSLVVSLTFSYCKNLATVEDVLTGDSSSPSSSVLAAPYGVFATKQNFANGDGSDRSLAQTPNTQALSVRSVPDTNDSQWKHSCLKALEYCGLNPSQFKASPWVNLLISKPTSQDADGESKRSRATVPWPGSLCFRKKPMEMSTTHRVGDTMLSGHEECHDPLGDARGWFAGASEREERISKRKAERMYAVTREVNGANPLAQNLNGQSPLTMRRPSTAAAGVMYPTPPDAIQQHIGITPSIDGAISSPNNPPPTLAVVDADMTMPTATPMADAENDAWGGQHEQKRERSDSNAMGDSDDVMNDLGEDVFGDHDVTEDDFNFFDGPDGNDLDMDMPDLQPAPTAPAPQVMPPPVLSHPEPHKAIQPQPEVKPKPKTNDSVFAKPELKHARSSLNDELNHRIKVERPDTTKRGSSPFDPATVFKRVRASLSSPTKDDFAVQPPRRKSSVFEKVEFDPKIPLINKKYEHGGAFDFSKDQSNGDSRPSAHNLSRDEYLEGQGKLKQTSKSLLGNSLIRSLTGIDASTTHASPQRLNGHDWISEESDLESDGDDISSLSGGPVSPVKSSIKRTVVDDDALSQATTSRETELLDDVTDEQLAIELPKLSKTESPEMLLHHLFLDPEPLNVDVGLSNHDFVEIAQIITEQAATGRLEIGIEHKAESSVSLATMRSHELSIARNSLQLLHDAIPSNLGTPTAVRLKGLLEIQDLPLVGQPSRLQPRPIPGRDPNAEQLRANNLYQIPVPHLEVRRSETKLSVLPSSMSFWEGLGLSPSWGTKDISALCIFPGWKGMSDHVESFLSRLKSVYESLKLGTLNNLPLSGDWDDGVLPYEVDRISTSPDATVTGHGSALVESMEVLRSSLSELKSKDKNLVIYFVYSPDNPASIIEACTAFYRCFDEYSDLLAARRESPQNELVLQLVSLDMISSTTSLVVPTPAEMMKLCIETYDRCTLFLDTEFGGPTPAPAVMLEQPPPRMIDFKLTTSPSQSLMHENSCLHVGYAESLDGRWITAAWTDNRGQRQATTSYSITRSRTPDRSVSHHKAAIIAEIWATTLTMISIWKVHWRVIITKSGAMDQKEVEWWQAASTLDDKHSFTMILMSVDTNPSLQLVPPIVKIPHAATSAFYSTPVSTPQANIVSPEQTTTPATPMRDASTLAATPTAEGAAEAEADSFLIDATDQTWGAIVGHRLCNSTTLLEVRPALASGYLIKRTGIKLEDPPVVMEVNLVHTEATPRAYEPLLREMLCYFRGLGTLARARGVVDREMDVRPWHIAAAEKGVRALHLLL
Length1515
PositionKinase
OrganismFusarium oxysporum f. sp. lycopersici (strain 4287 / CBS 123668 / FGSC 9935 / NRRL 34936) (Fusarium vascular wilt of tomato)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Hypocreales> Nectriaceae> Fusarium> Fusarium oxysporum species complex.
Aromaticity0.06
Grand average of hydropathy-0.382
Instability index47.67
Isoelectric point5.19
Molecular weight165292.93
Publications
PubMed=20237561

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

>MDP02962
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      72.88|      13|      69|     493|     507|       1
---------------------------------------------------------------------------
  495-  507 (27.12/18.12)	DMTMPTATPMADA
  565-  577 (23.57/ 7.45)	DMDMPDLQPAPTA
 1370- 1382 (22.19/ 6.26)	EQTTTPATPMRDA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     128.01|      34|     245|     514|     552|       2
---------------------------------------------------------------------------
  514-  548 (56.90/31.32)	GQHEQKRERSDSNAMGDSDDVMNDLGEDvFGDHDV
  631-  654 (37.16/16.58)	.NHRIKVERPDTTKRGSSP..........FDPATV
  702-  725 (33.94/ 9.15)	GAFDFSKDQSN....GDSRPSAHNLSRD.......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     393.57|     139|     615|     318|     494|       3
---------------------------------------------------------------------------
  318-  494 (190.62/192.20)	LKALEYCGlNPSQFKASPwvnllisKPtSQDADGESKR.................sratvpWPGSLCFrKKPMEMSTTHRVGDtmLSGheECHDPlgdarGWfAGASEREERISKRkAERMYAVTREVNGAN.PLAQNL.NGQSPLTMRRPSTAaagvmyptPPDAIQQH.IGITPSID...GAIS...............SPNNPPptlAVVDA
  937- 1119 (202.95/117.27)	IQDLPLVG.QPSRLQPRP.......IP.GRDPNAEQLRannlyqipvphlevrrsetklsvLPSSMSF.WEGLGLSPSWGTKD..ISA..LCIFP.....GW.KGMSDHVESFLSR.LKSVYESLKLGTLNNlPLSGDWdDGVLPYEVDRISTS........PDATVTGHgSALVESMEvlrSSLSelkskdknlviyfvySPDNPA...SIIEA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     102.80|      31|     245|    1199|    1229|       4
---------------------------------------------------------------------------
 1199- 1229 (58.64/36.81)	LEQPPPRM.IDFKLT.TSPS..QSLMHENSCLHVG
 1445- 1479 (44.16/25.78)	LEDPPVVMeVNLVHTeATPRayEPLLREMLCYFRG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     238.21|      76|     734|       9|      85|      11
---------------------------------------------------------------------------
    9-   85 (123.07/76.52)	NTLsINNIASITFRIYEPPPDQ..SHGFQSSALEIQSSLRDQGKLVSYDADRVGIWIFQ.IVSKDGTSKAVNSAPGSSLE
  744-  822 (115.15/67.39)	NSL.IRSLTGIDASTTHASPQRlnGHDWISEESDLESDGDDISSLSGGPVSPVKSSIKRtVVDDDALSQATTSRETELLD
---------------------------------------------------------------------------




































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 MDP02962 with Med13 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) GAFDFSKDQSNGDSRPSAHNLSRDEYLEGQGKLK
2) GIDASTTHASPQRLNGHDWISEESDLESDGDDISSLSGGPV
3) ISKRKAERMYAVTREVNGANPLAQNLNGQSPLTMRRPSTAAAGVMYPTPPDAIQQHIGITPSIDGAISSPNNPPPTLAVVDADMTMPTATPMADAENDAWGGQHEQKRERSDSNAMGDSDDVMNDLGEDVFGDHDVTEDDFNFFDGPDGNDLDMDMPDLQPAPTAPAPQVMPPPVLSHPEPHKAIQPQPEVKPKPKTNDSVFAKPELKHARSSLNDELNHRIKVERPDTTKRGSSPFDPATVFKRVRASLSSPTKDDFAVQPPRRKS
4) VALQKSRIPGNTTQNAPNNTASTASPAEANSRNPLISPTQVAG
702
752
413
102
735
792
679
144










Molecular Recognition Features






MoRF SequenceStartStop




1) DHDVTEDDFNF
2) ITFRIY
3) VFKRVRA
545
19
654
555
24
660