<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 MDP05595

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKIGSLHQISWFQFLPHEPDLNPLPDKSVKVDQKDAAMLLVLSSHLQLQKEGFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFLPGRHSSVVETAQTAVSGLRVVASGLWLAPGDSEEVAAALSQALRNCVERALFGLYYMRFGDVFSKFHQFQREELFRRGQPAVEFVFAATEEAIFIHVIVSSKHIRMLSTADLEKVLQHSMEFTYRLPVIVSPHGICGSLTGCSPSDLVKQSYFSSSTKFRVSNGIIGLPYHVSQGVGCQLRGQNCYVEVSLGFPRSGTDNTLQPNKNSVRNLPKLHVAESPIVGRSDHKGSPDHLLDYDKTFLYPAEAVLVPVLQTSLARSSLRRFWLQNWMGPSLPGSSSFIHCAGNVDCTEDPWTEINGTRTQNSYDSSSNSNSSSISSLSASSSDSDYKTTRPSELEADADSLTCRQSMVSSADQLDSDGPKLGSKRSRTGVTESLSTATNIPVQDAYMSDFGSMEVNNSAITGVGNDPIGSYWDWDDDDRGMEMDIQALLSEFGDFGDFFENDVLPFGEPPGTAESQALMLSAPDCGDVNSSPGGVIDVPGQILLPVGFPSFESFNPPPSTSIEECLNKSQDNLNNSMSLCPTNQTQLLYTREFDHIMKAEAMMTFAPEFGAVDTPTCELSTTLFRSPYFPKSRKAKSSNSSSNNYLYGAAPPTSPCTEGSEGKNGMSANTKTGSGKYDASTTSLHSKYYYTFVESRKEKNDKNPATCNDNSITKSEGIPPLSNIGSNAIVKSAIRKTTEGTHEAEHFLLSAKTLLATDITCVTLQASMCRLRHILLSSGNLMPVGLSRSTGVSFLNQLPSDPSMTTDNISGKYDVKKKENIPIRIAGDIDGGMLDGHLNAPVGVWRTLGASKVVKPSNSPNMEVVPSFPHNSFNEEGILSYGLRKPLQELLDGIALLVQQAISFVDLALDADCGDGPYGLLAMQEQWRRGFCCGPSMVHAGCGGSLASSHSLDIAGLELVDPLSADVDASTVISLLQSDIKTALKSAFSNLEGPLSVTDWCKGRNQLVDTGSIVDGVSAESSINECRDSSEPMSPSQSSVGGSSSIKVSNLMDKVDETSQRRSGQDLCSTELEQLSCSRLKPTLIALPFPSILVGYQDDWLKTSANSLQHWEKAPLEPYALQKPITYHVVCPDIDPLTSAAADFFQQLGTVYETCKLGTHSPQGLGNQMEIESAKLSSCGFVLLDCPQSIKIESSNASLVGSVSDYFLSLSNGWDLTSYLKSLSKALRGLKIGSCFSTNPGEGSNSSCLVIYVVCPFPDPTAILQTVIESSVAIGSVAQQSDRERRSSLHSQVVKALSGLTTVDEASASNILVLSGFSIPKLVLQIVTVDAIFRVTSPSVSELVILKETAFTVYSKARRISRGISSDFAQSAFPRSHSVLTQMPSPISGMWKDCVGPRMAGHSLPREGDIDASLRPGTWDNSWQPTRTGGLSCDPSRTGDNFLYDEIRYMFEPLFILAEPGSLENGISVIGSPTSESSKALADDSSGNYAQSTSTAGNAESASSTDGSGSDPETPPSLHCCYGWTEDWRWLVCIWTDSRGELLDCNIFPFGGISSRQDTKGLQCLFVQILQQGCLILQSCDPGLAKPRDFVIARIGGFYELEYLEWQKAIYSVGVSEMKRWPLQLRKSMSDGMSATSNGSSLQQSDISLIPERTLPSSPSPLYSPHTKSTSFMKGSLGQPTARKQLMGGHSMVDNSRGLLHWAQSISFVAVSMDHTLQLVLPADSSTPGYIEGFTPVKSLGSTSSAYILIPSPSMRFLPPTVLQLPTCLTAESPPLAHLLHSKGSALPLSTGFVVSKAVPSMRKDYRSNQKEEWPSILSVSLIDYYGGTNIPQEKIVRGINKQGGRSLSWEAKDFEIETHLVLESLAAELHALSWMTVSPTYLERRTALPFHCDMVLRLRRLLHFADKELSKQSEKS
Length1951
PositionKinase
OrganismGlycine max (Soybean) (Glycine hispida)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> fabids> Fabales> Fabaceae> Papilionoideae> 50 kb inversion clade> NPAAA clade> indigoferoid/millettioid clade> Phaseoleae> Glycine> Glycine subgen. Soja.
Aromaticity0.08
Grand average of hydropathy-0.225
Instability index53.67
Isoelectric point5.38
Molecular weight211857.42
Publications
PubMed=20075913

Function

Annotated function Component of the Mediator complex, a coactivator involved in regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene- specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. 
ECO:0000256	RuleBase:RU364134
GO - Cellular Component
mediator complex	GO:0016592	IBA:GO_Central
GO - Biological Function
transcription coregulator activity	GO:0003712	IBA:GO_Central
GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central

Interaction

Binary Interactions











Repeat regions





Repeats

>MDP05595
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|    1061.19|     360|     418|     996|    1410|       1
---------------------------------------------------------------------------
  996- 1408 (521.36/356.80)	PLSA...DVDASTVI..SL.LQSDIKTALKsafsnlEGPLSvTDWckgrnQLVDTGsivdGVSAESS.......INECRDSSEPM....SPSQ....SSVGGSSSIKVSNLMdkVDETSQRRSGQDLCSTELEQLSCSRLKPTLIALPfPSI..LVGYQDDWLKTsansLQHWEKAPLE.......PYAlqkPITYHvvcPDIDPLTSAAADFFQQLGTVYETCKlgthsPqGLGNQMEIESAKLSscGFVLLDCPQSIK.IESSNAS........LVGSVSDYFLSLSNGWDLTSYLKSLSKAlRGLKIGSCFSTNPGEGSNSsclviYVVCPFPDPTAILQ.....TVIESSVAIGSVAQqsdrerrsSLHSQVVKALSGLTTVDEASASNILVLSGFSiPKLVLQiVTVDAIFRVTSPSVSEL..VILK.ETAFTVYSK..ARRI.SRG....ISSDFAQS.AFP
 1420- 1834 (539.82/268.24)	PISGmwkDCVGPRMAghSLpREGDIDASLR......PGTWD.NSW.....QPTRTG....GLSCDPSrtgdnflYDEIRYMFEPLfilaEPGSlengISVIGSPTSESSKAL..ADDSSGNYAQSTSTAGNAESASSTDGSGSDPETP.PSLhcCYGWTEDWRWL....VCIWTDSRGElldcnifPFG...GISSR...QDTKGLQCLFVQILQQGCLILQSCD.....P.GLAKPRDFVIARIG..GFYELEYLEWQKaIYSVGVSemkrwplqLRKSMSDGMSATSNGSSLQQSDISLIPE.RTLPSSPSPLYSPHTKSTS.....FMKGSLGQPTARKQlmgghSMVDNSRGLLHWAQ........SISFVAVSMDHTLQLVLPADSSTPGYIEGFT.PVKSLG.STSSAYILIPSPSMRFLppTVLQlPTCLTAESPplAHLLhSKGsalpLSTGFVVSkAVP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      99.21|      23|      28|     539|     566|       2
---------------------------------------------------------------------------
  520-  536 (23.10/ 6.66)	...........QALLSEFGDFGDFFEND
  541-  566 (37.87/28.39)	G..EPPGtaeSQALMLSAPDCGDVNSSP
  568-  592 (38.24/15.10)	GviDVPG...QILLPVGFPSFESFNPPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      35.27|      10|      28|     780|     789|       3
---------------------------------------------------------------------------
  780-  789 (17.11/ 8.16)	HFLLSAKTLL
  807-  816 (18.16/ 9.12)	HILLSSGNLM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      85.41|      26|      28|      59|      86|       4
---------------------------------------------------------------------------
   59-   86 (49.58/30.86)	LSTWTNSFVGPWDPS.QGLHNPDEkiKLW
   89-  115 (35.83/16.54)	LPGRHSSVVETAQTAvSGLRVVAS..GLW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.31|      21|      56|     817|     838|       5
---------------------------------------------------------------------------
  817-  838 (34.77/18.44)	PVGLSRSTGVSFLNQlPSD.PSM
  875-  896 (33.54/14.04)	PVGVWRTLGASKVVK.PSNsPNM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.29|      15|      29|     439|     457|       6
---------------------------------------------------------------------------
  439-  457 (18.13/17.21)	QSMvSSA......DQLDSDgpkLGS
  466-  486 (20.15/ 6.74)	ESL.STAtnipvqDAYMSD...FGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.85|      17|      61|     654|     670|       9
---------------------------------------------------------------------------
  654-  670 (32.80/20.74)	STTLFRSPY...FPKSRKAK
  714-  733 (26.05/14.85)	STTSLHSKYyytFVESRKEK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.12|      18|      33|     186|     203|      11
---------------------------------------------------------------------------
  186-  203 (30.74/18.47)	VIVSSKHI..RML..STADLEK
  217-  238 (22.38/11.24)	VIVSPHGIcgSLTgcSPSDLVK
---------------------------------------------------------------------------




































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 MDP05595 with Med13 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) ALADDSSGNYAQSTSTAGNAESASSTDGSGS
2) DPWTEINGTRTQNSYDSSSNSNSSSISSLSASSSDSDYKTTRPSELEADADSLT
3) LYGAAPPTSPCTEGSEGKNGMSANTKTGSGK
4) QSMVSSADQLDSDGPKLGSKRSRTGVTESLSTAT
1514
383
680
439
1544
436
710
472










Molecular Recognition Features






MoRF SequenceStartStop




NANANA