<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 MDP05590

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKIGSLHQISWFQFLPHEPDLNPLPDKSVKVDQKDAAMLLVLSSHLQLQKEGFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFLPGRHSSVVETAQTAVSGLRVVASGLWLAPGDSEEVAAALSQALRNCVERALFGLYYMRFGDVFSKFHQFQREELFRGQPAVEFVFAATEEAIFIHVIVSSKHIRMLSTADLEKVLQHSMEFTYRLPVIVSPHGICGSLTGCSPSDLVKQSYFSSSTKFRVSNGIIGLPYHVSQGVGCQLRGQNCYVEVSLGFPRSGTDNTLQPNKNSVRNLPKLHVAESPIVGRSDHKGSPDHLLDYDKTFLYPAEAVLVPVLQTSLARSSLRRFWLQNWMGPSLPGSSSFIHCAGNVDCTEDPWTEINGTRTQNSYDSSSNSNSSSISSLSASSSDSDYKTTRPSELEADADSLTCRQSMVSSADQLDSDGPKLGSKRSRTGVTESLSTATNIPVQDAYMSDFGSMEVNNSAITGVGNDPIGSYWDWDDDDRGMEMDIQALLSEFGDFGDFFENDVLPFGEPPGTAESQALMLSAPDCGDVNSSPGGVIDVPGQILLPVGFPSFESFNPPPSTSIEECLNKSQDNLNNSMSLCPTNQTQLLYTREFDHIMKAEAMMTFAPEFGAVDTPTCELSTTLFRSPYFPKSRKAKSSNSSSNNYLYGAAPPTSPCTEGSEGKNGMSANTKTGSGKYDASTTSLHSKYYYTFVESRKEKNDKNPATCNDNSITKSEGIPPLSNIGSNAIVKSAIRKTTEGTHEAEHFLLSAKTLLATDITCVTLQASMCRLRHILLSSGNLMPVGLSRSTGVSFLNQLPSDPSMTTDNISGKYDVKKKENIPIRIAGDIDGGMLDGHLNAPVGVWRTLGASKVVKPSNSPNMEVVPSFPHNSFNEEGILSYGLRKPLQELLDGIALLVQQAISFVDLALDADCGDGPYGLLAMQEQWRRGFCCGPSMVHAGCGGSLASSHSLDIAGLELVDPLSADVDASTVISLLQSDIKTALKSAFSNLEGPLSVTDWCKGRNQLVDTGSIVDGVSAESSINECRDSSEPMSPSQSSVGGSSSIKVSNLMDKVDETSQRRSGQDLCSTELEQLSCSRLKPTLIALPFPSILVGYQDDWLKTSANSLQHWEKAPLEPYALQKPITYHVVCPDIDPLTSAAADFFQQLGTVYETCKLGTHSPQGLGNQMEIESAKLSSCGFVLLDCPQSIKIESSNASLVGSVSDYFLSLSNGWDLTSYLKSLSKALRGLKIGSCFSTNPGEGSNSSCLVIYVVCPFPDPTAILQTVIESSVAIGSVAQQSDRERRSSLHSQVVKALSGLTTVDEASASNILVLSGFSIPKLVLQIVTVDAIFRVTSPSVSELVILKETAFTVYSKARRISRGISSDFAQSAFPRSHSVLTQMPSPISGMWKDCVGPRMAGHSLPREGDIDASLRPGTWDNSWQPTRTGGLSCDPSRTGDNFLYDEIRYMFEPLFILAEPGSLENGISVIGSPTSESSKALADDSSGNYAQSTSTAGNAESASSTDGSGSDPETPPSLHCCYGWTEDWRWLVCIWTDSRGELLDCNIFPFGGISSRQDTKGLQCLFVQILQQGCLILQSCDPGLAKPRDFVIARIGGFYELEYLEWQKAIYSVGVSEMKRWPLQLRKSMSDGMSATSNGSSLQQSDISLIPERTLPSSPSPLYSPHTKSTSFMKGSLGQPTARKQLMGGHSMVDNSRGLLHWAQSISFVAVSMDHTLQLVLPADSSTPGYIEGFTPVKSLGSTSSAYILIPSPSMRFLPPTVLQLPTCLTAESPPLAHLLHSKGSALPLSTGFVVSKAVPSMRKDYRSNQKEEWPSILSVSLIDYYGGTNIPQEKIVRGINKQGGRSLSWEAKDFEIETHLVLESLAAELHALSWMTVSPTYLERRTALPFHCDMVLRLRRLLHFADKELSKQSEKS
Length1950
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-0.223
Instability index53.40
Isoelectric point5.36
Molecular weight211701.23
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. 
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

>MDP05590
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|    1085.45|     366|     418|     995|    1409|       1
---------------------------------------------------------------------------
  995- 1407 (537.68/388.51)	PLSA...DVDASTVI..SL.LQSDIKTALKsafsnlEGPLSvTDWckgrnQLVDTGsivdGVSAESS.......INECRDSSEPM....SPSQ....SSVGGSSSIKVSNLMdkVDETSQRRSGQDLCSTELEQLSCSRLKPTLIALPfPSI..LVGYQDDWLKTsansLQHWEKAPLE.......PYAlqkPITYHvvcPDIDPLTSAAADFFQQLGTVYETCklgthSPqGLGNQMEIESAKLSscGFVLLDCPQSIK.IESSNASLVGSVS.DYFLSLSNGWDLTSYLKSLSKALRGLKIGSCFSTNPGE.GSNSSCLVIYVVCPFPDPTAILQ.....TVIESSVAIGSVAQqsdrerrsSLHSQVVKALSGLTTVDEASASNILVLSGFSiPKLVLQiVTVDAIFRVTSPSVSEL..VILK.ETAFTVYSK..ARRI.SRG....ISSDFAQS.AFP
 1419- 1833 (547.77/298.82)	PISGmwkDCVGPRMAghSLpREGDIDASLR......PGTWD.NSW.....QPTRTG....GLSCDPSrtgdnflYDEIRYMFEPLfilaEPGSlengISVIGSPTSESSKAL..ADDSSGNYAQSTSTAGNAESASSTDGSGSDPETP.PSLhcCYGWTEDWRWL....VCIWTDSRGElldcnifPFG...GISSR...QDTKGLQCLFVQILQQGCLILQSC.....DP.GLAKPRDFVIARIG..GFYELEYLEWQKaIYSVGVSEMKRWPlQLRKSMSDGMSATSNGSSLQQSDISLIPERTLPSSPSPlYSPHTKSTSFMKGSLGQPTARKQlmgghSMVDNSRGLLHWAQ........SISFVAVSMDHTLQLVLPADSSTPGYIEGFT.PVKSLG.STSSAYILIPSPSMRFLppTVLQlPTCLTAESPplAHLLhSKGsalpLSTGFVVSkAVP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     140.29|      45|      57|       2|      58|       2
---------------------------------------------------------------------------
    2-   53 (70.01/76.97)	WTNVFkIGslhqiSW..FQFLpHEPDLNP.....LPDKS...VKVDQKDAAMLLVLSSHLQL
   62-  116 (70.29/42.28)	WTNSF.VG.....PWdpSQGL.HNPDEKIklwlfLPGRHssvVETAQTAVSGLRVVASGLWL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.29|      25|      55|     812|     837|       3
---------------------------------------------------------------------------
  812-  837 (43.09/31.40)	GNL.MPVGLSRSTGVSFLNQlPSD.PSM
  869-  895 (37.20/21.73)	GHLnAPVGVWRTLGASKVVK.PSNsPNM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      99.66|      26|      55|     506|     531|       4
---------------------------------------------------------------------------
  506-  531 (47.16/28.10)	DWDD...DDRGMEMDI..QALLS.EFGDFGDF
  533-  560 (30.18/14.97)	ENDVlpfGEPPGTAES..QALML.SAPDCGD.
  562-  587 (22.31/ 8.88)	..NS...SPGGV.IDVpgQILLPvGFPSFESF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     166.57|      55|      62|     653|     712|       5
---------------------------------------------------------------------------
  653-  712 (90.12/54.57)	STTLFRSPY...FPKSRKAKSSNSSS...NNYLYGA..APPTSpctEGseGKNGM..SANTKTGSGKYDA
  713-  777 (76.45/35.54)	STTSLHSKYyytFVESRKEKNDKNPAtcnDNSITKSegIPPLS...NI..GSNAIvkSAIRKTTEGTHEA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.74|      21|      30|     397|     418|       6
---------------------------------------------------------------------------
  397-  418 (30.42/22.49)	DSSSNSNSSSISSlSASSSDSD
  430-  450 (37.32/23.35)	DADSLTCRQSMVS.SADQLDSD
---------------------------------------------------------------------------




































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 MDP05590 with Med13 domain of Kingdom Viridiplantae
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