<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 MDP30269

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKIGSMHQISWFQFLPHEPDLNPLPDKSVKVDQKDAAMLLVLSSHLQLQKEGFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFLRGRHSSVVETAQTAVSGLRVVASGLWLAPGDSEEVAAALSQALRNCIERALLGLYYMRFGDVFSKFHQFQREEIFRRGQPAVEFVFAATEEAIFIHVIVSSKHIRMLSTADLEKVLKHSMESTYRLPVIVSPHGIRGSLTGCSPSDLVKQSYFSSTKFRVSNGIIGLPYHVSQGVGCQLRGQNCYVEVSLGFPRSGTDNTLQPNKNSVRNLPKLHVAESPVVGRSDHKGPPDHLLDYDKTFLYPAEAVLVPVLQTSLARSSLRRFWLQNWMGPSLPGSSSFIHCAGNVDCTEDPWTEINGTRTQSSYDSSSNSNNSSISSLSASSSDSDYKTTGPSELEADADSLTCRQSMVSSADQLDSDGPKLGSKRSRTGVTELLSTATNIPVQDAYMSDFGSMEVNNSAITGVGNEPIGSYWDWDDDDRGMEMDIQALLSEFGDFGDFFENDVLPFGEPPGTAESQALMLSAPDCGDVNSSPGGVIDVPDQILLPVGFASFESFNPPPSTSIEECLNKSQDNLNNSMSLGPTNQNQLLYTREFDHIMKAEAMMTFAPEFGAVDTPTCEFSTTLFRSPYFPKSRKAKSSTSSSSNYLYGAAPPTSTCTEGSEGKNGKSVNTKTGSGKHDASTMSLHSKYYYTFVESRKEKNDKNPATCNDNSITKSEGMPPLSNIGSNAIVKSAIRKTTDCTHEAEQFLLSAKTLLATDITCIMLQASMCRLRHILLSSGNLMPAGLSRSTGVSFLNQLPSDPSMTTDNISGKYDVKKKENIPIRIAGDIDGGMLDGHLNAPVGVWRTLGASKVVKPSNSPNMEVVPSFPHNSFNEEGILSYGQRKPLQELLDGIALLVQQAISFVDLALDVDCGDGPYGLLAMQEQWRRGFCCGPSMVHAGCGGSLASSHSLDIAGLELVDPLSADVHASTVISLLQSDIKTALKSAFPNLEGPLSVTDWCKGRNQLIDTGSVVDGVSAESNINECRDSSEPMSPSQSSVGGSSSIKVSNMMDKVDETSQRRSGQDLCSTESEQQTCSRLKPTLIALPFPSILVGYQDDWLKTSANSLQHWEKAPLEPYALQKPITYHVVCPDIDPLTSAAADFFQQLGTVYETCKLGTHSPQGLGNQIEIESAKLSSCGFVLLDCPQSMKIESSNASLVGSVSDYFLSLSNGWDLTSYLKSLSKALRGLKIGSCFSTNPSEGSNSSCLVIYVVCPFPDPTAILQTVIESSVAIGSVVQQSDRERRSSLHSQVVKALSGLATVDEASASNILVLSGFSIPKLVLQIVTVDAIFRVTSPSVSELVILKETSFTVYSKARRISRGISSDFAQSAFSSRSHSGLTQMPSPISGMWKDCVGPRMAGHSLPREGDIDASLRPGTWDNSWQPTRTGGLSCDPSRTGDNFLHDEIRYMFEPLFILAEPGSLENGISVIGSPTSESSKALADDSSGNYVQSTSTAGSVESASSTDASGSDPKTPPSLHCCYGWTEDWRWLVCIWTDSRGELLDCNIFPFGGISSRQDTKGLQCLFVQILQQGCLILQSCDPGLAKPRDFVIARIGGFYELEYLEWQKAIYSVGVSEMKRWPLQLRKSMSDGMSATSNGSSLQQSDMSLIPERTLPSSPSPLYSPHTKSPGFMKGSLGQPTARKQLIGGHSMVDNSRGLLHWAQSISFVAVSMDHTLQLVLPADSSTPGYIEGFTPVKSLGSTSSAYILIPSPSMRFLPTTVLQLPTCLTAESPPLAHLLHSKGSALPLSTGFVVSKAVPSMRKDYRANQKEEWPSVLSVSLIDYYGGTNIPQEKIVRGINKQGGRSLSWEAKDFEIETHLVLESLAAELHALSWMTVSPTYLERRTALPFHCDMVLRLRRLLHFADKELSKQSEKS
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.
Aromaticity0.07
Grand average of hydropathy-0.236
Instability index55.00
Isoelectric point5.52
Molecular weight211998.75
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	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

>MDP30269
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|    1428.26|     390|     419|     734|    1152|       1
---------------------------------------------------------------------------
  734- 1048 (467.07/285.08)	.........................................................................................................................DKnPA...T....CNDNSITKSEGMPPLSNIGS.NAIVKSAIRKTTDCTHEAEQFLLSAKTLLAtDITC..IMLQA...SMCRLRHILLSS.....GNLMP......AGLSRSTGVSFLNQLPS.D..PSMTTDNISGKYD...VKKKEN.....IPIRIAGDI.D.GGMLDGHLNAPVGVWR.TLGASKVVKPSNSPNMEVVPSFPHNSFNEEGILSYGQRKPLQEL.LDGIAL..LVQQAIS....FVDLALDV.DCGDGPYGLLAMQEQWRRGFCCGPSMV..HAGC..GGSLASS..HSLDIAGL.ELVDPLSA...DVHASTVI..SL.LQSDIKTALKSAFPNLEGPLSVTDWCKGRNqlIDTGSV.VD
 1049- 1468 (474.17/325.82)	GVSAESNI..NECRDSSEPM....SPSQ....SSVGGSSSIKVSNMMdkVDETSQR..RSGQDLCSTESEQQT.CSRLKPtliALPfPSI..LVGYQDDWlktsanslqhwekaplepyalQK.PI...TyhvvCPDIDPLTSAAADFFQQLGTvYETCKLGTHSPQGLGNQIE..IESAK..LS...SCgfVLLD......CPQSMKIESSnaslvGSVSD......YFLSLSNGWDLTSYLKSlS..KALRGLKIGSCFS...TNPSEGsnsscLVIYVVCPFpDpTAILQTVIESSVAIGS.VVQQSDRERRS.SLHSQVVKALSGLATVDEASAS....NIL..V.LSGFSIpkLVLQIVT.....VDAIFRV..TSPSVSELVILKETSFTVY.SKARRI..SRGI..SSDFAQSafSSRSHSGLtQMPSPISGmwkDCVGPRMAghSLpREGDIDASLR...P...GTWD.NSWQPTR.....TGGLsCD
 1469- 1872 (487.03/291.18)	PSRTGDNFlhDEIRYMFEPLfilaEPGSlengISVIGSPTSESSKAL..ADDSSGNyvQSTSTAGSVESASSTdASGSDP...KTP.PSLhcCYGWTEDW..........................rwlV....C...IWTDSRGELLDCNIFP.FGGISS..RQDT....KGLQCLF.VQIL...QQGC..LILQScdpGLAKPRDFVIAR....iGGFYEleylewQKAIYSVGVSEMKRWPL.QlrKSM.SDGMSATSNgssLQQSDM...slIPERTLPSS.P.SPLYSPHTKSP.GFMKgSLG.....QPTARKQLIGGHSMVDNS...RGLLHWAQSISFVAVsMDHTLQ..LVLPADSstpgYIEGFTPVkSLGSTSSAYILIPSPSMR.FL..PTTVlqLPTCltAESPPLA..HLLHSKGS.AL..PLST...GFVVSKAV..PS.MRKDYRANQKEEWPSVLS.VSLIDYYGGTN..IPQEKI.VR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.40|      24|      27|     482|     508|       2
---------------------------------------------------------------------------
  482-  508 (37.84/38.88)	DFGsMEVNNSA.ITGVGNepIGSYWDWD
  511-  535 (40.56/27.71)	DRG.MEMDIQAlLSEFGD..FGDFFEND
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.62|      23|      28|     172|     194|       3
---------------------------------------------------------------------------
  172-  194 (38.97/28.21)	EFVFAATEEAIF.IHVIVSSKHIR
  202-  225 (36.65/26.04)	EKVLKHSMESTYrLPVIVSPHGIR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.67|      13|      30|     411|     423|       5
---------------------------------------------------------------------------
  411-  423 (23.00/12.23)	SASSSDSDYKTTG
  443-  455 (23.66/12.83)	SADQLDSDGPKLG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.17|      12|      28|     303|     314|       6
---------------------------------------------------------------------------
  303-  314 (21.46/11.54)	LHVAES...PVVGRS
  331-  345 (16.72/ 7.34)	LYPAEAvlvPVLQTS
---------------------------------------------------------------------------




































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 MDP30269 with Med13 domain of Kingdom Viridiplantae
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