<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 MDP04985

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMDFPGGANTNIHLIDGFSNIYWRIYTEEAGITNNPQESPANGYTILKHLSRLKDLEARLRGLNCLASCPRRLGLWVFSPTPEFESLKPLYVRGSDAESNRIVVGTTTLKVSALGSVSSLDLVKGLSSDNQSQHGTQPIGLPRPHQGQPSPRRQDGYSSSAAIYASFISAVTGSIGLQLIRRHAALPLGSRTLFTAVEKSGYESPHINNNNIISTSCLTTLNIQLTMSGTITVSAQTISQAGITRLCSPHEDISERIDMQPGIDLWLCPNGTIAKLITANIDSSTVPSLGYPASGNLSAKRVQWKLDVVQWLRNFGLHIGSIDEEPWVEVEVWEPFFARLAGEAWRQSDDSQSALPLKRMLWPARFCFRRASSSNVSSNVSSGAQTSLLDEPLDFAERWSKIASSLKLDNISHTAQNTPVTQDPQPKDQEMPSPLKPEPLESIESLSRIAQYPDLQTTNLVYPTPPDGTAAVGLNNPNPSEAFVDDSDFGLPHATQRTSRRHAPGSDISPVQNGGVGVGTGRYDASDEEDLFGEMNERDFGSKGITEADFSFFDDPDFDGMEGNSLAEDEDEALKASHPQSEPEAEAMVDAEASPNQPQGIPTHVETHEAHDSPIYDEITRLSEEPMVPEEPAHSPMDRAGQTISPPLSPVEVKKILFPGPEADDHQQSTDNRGQGHYHPVEFEKKLGDWDQKYGAAGKFWFSSGGSLNTLNQTSAIPTIGMPHRGRSSANASGSSTERTKPSLSLTQSENGLRSASVSSDSSDDSIEVISEHVPTPAALPSIPSLKRKRAPSESDIISITSQANSLPVTEASPTYAAENSTFLGNFLANFSDWTLTGYFSAFPPQQLPVLFRREGQLEIAQLLVDQITQSSLKHPLDGQIGLFDLESESLSLQALDDTTLLGETSKMDFKRYISLQDEFFANQLQQQPPQHPPPPKETPKSFISKLSAPHIRVRRGKEYLEALPPAVSFWETFGLEPAHGPKNISAYCIHPQAASSAADVFLTRFGLLYQSCSLGTHTRGDDSVAFEDGLRPWKSETSSYESMMQVLKRTCEQLGSELSQSPVTADNNVVYIINPFTHAAALADICSAFWHLFQQLVAGSERRQTRISNELVLQIIPLEFVMSSETMVIPPETEYLNLALEVYSRCRPNDADTSPLLCAPPMLLADALPRAICFQLAPERSSPLQDGRSLHIAYSKSLDQRWISVAWSDLSGSIQRTMSYCLRYRQSSGARPVSEVRNEIWATTKHIMDKFQARWKVQLVATEPIEPDEVEAWASLADQHNKLRPGSLELTILAVNTVPDLILEPPVPPISMAMLNILSSSTPVSTPIPSASVASPEQSGNAATPTSAGPAAYNAPTPTEMSLEADSEAVLTDICDDSWLTILSHRLNSSPHLTEFRPALSSGYLLRRKGTTDGNGVFAISVNLIYSPRSPPSHDNVLKDTLSMYRDLGCLARAKGICSVQNNTLPWHVATALRGQELLSYVF
Length1483
PositionKinase
OrganismPenicillium nordicum
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Eurotiomycetes> Eurotiomycetidae> Eurotiales> Aspergillaceae> Penicillium.
Aromaticity0.07
Grand average of hydropathy-0.368
Instability index59.17
Isoelectric point5.06
Molecular weight162133.46
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

>MDP04985
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|    1093.80|     313|     345|     317|     659|       1
---------------------------------------------------------------------------
  108-  433 (390.96/295.49)	LKVSA..LGSVSSLDL............V...KGLSSDN....Q.SQHGTQPIGLPR................PHQGQPSPRRQD.GYSSSAAI...YasfisavTGSIGLQLIRRH....AAlplGSRTLFTAVEKSGYESPHINN...........NN....IISTSCLTTLNI....QLTMSGTitvSAQTISQAGITRLCSPH..EDISERIDMQPGIDlwlCPngtIAKLI..TANIDSSTVPSlgYPA...........SGNLSAKRVQWKLdvvqwlrnfglHIGSIDEEPWVEVEVWEpFFARL.........AGEAWRQSDDSQSALPLKRMLWPARFCFRRASSSNVSSNVSSGAQtslldepldfaerwskiaSSLKLDNISHTAQNTPVTQDPQPKDQEMPSP
  434-  771 (502.00/363.88)	LKPEP..LESIESLSR............IAQYPDLQTTNlVYPT.PPDGTAAVGLNNpnpseAFVDD.SDFGLPHATQRTSRRHA.PGSDISPV...Q.......NGGVGVGTGRYD....AS...DEEDLFGEMNERDFGSKGITEadFSFFDDPDFDG....MEGNSLAEDEDE....ALKASHP...QSEPEAEAMVDAEASPNQPQGIPTHVETHEAHD...SP...IYDEI..TRLSEEPMVPE..EPAHSPMDRAGQTISPPLSPVEVKKIL...fpgpeaddHQQSTDNRGQGHYHPVE.FEKKLgdwdqkygaAGKFWFSSGGSLNTLNQTSAIPTIGMPHRGRSSANASGSSTERTK..................PSLSLTQSENGLRSASVSSDSSDDSIEVISE
  772-  991 (200.84/122.35)	HVPTPaaLPSIPSLKRkrapsesdiisiTSQANSLPVTE.ASPTyAAENSTFLG........NFLANfSDWTL......TGYFSAfPPQQL.PVlfrR.......EGQLEIAQLLVDqitqSS...LKHPLDGQIGLFDLESESLS...LQALDDTTLLGetskMDFKRYISLQDEffanQLQQQPP...QHPPPPK...ETPKSFISKLSAP.HIRVRRGKE.........YLEAlpPAVSFWETFGL..EPAHGPKNISAYCIHP....................................................................................................................................................
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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 MDP04985 with Med13 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) DLQTTNLVYPTPPDGTAAVGLNNPNPSEAFVDDSDFGLPHATQRTSRRHAPGSDISPVQNGGVGVGTGRYDASDEEDLFGEMNERDFG
2) KGITEADFSFFDDPDFDGMEGNSLAEDEDEALKASHPQSEPEAEAMVDAEASPNQPQGIPTHVETHEAHDSPIYDEITRLSEEPMVPEEPAHSPMDRAGQTISPPLSPVEVKKILFPGPEADDHQQSTDNRGQGHYHPVEFEKKLGD
3) NISHTAQNTPVTQDPQPKDQEMPSPLKPEPLESIESLSRI
4) NQTSAIPTIGMPHRGRSSANASGSSTERTKPSLSLTQSENGLRSASVSSDS
5) TPIPSASVASPEQSGNAATPTSAGPAAYNAPTPTEMSLEADS
453
542
409
711
1326
540
688
448
761
1367










Molecular Recognition Features






MoRF SequenceStartStop




1) EVKKILFP
2) ITEADFS
651
544
658
550