<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 MDP15099

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMRNLSSDDIEKVLTHTPRSVGEGLPVIVAPSGMLGRLVGCCPSDLARQVYSSKLSASSLPGFTQPTICQLRGQSYYVEVALGFPPASTDKISESENNQIKKELDSVNDPHLGADGQQKLERADGLPVLERTFIYPPEAVMVPMVHQAFVRFSSKRMWSQDWMGSSSWEAWPFWNFSPSSYFRNSSSFYGSSRGLGVNSNFLRLRRQRNSSSNGMASSISSVSSTSNGSEHAVAAKGGDLLADADSTACRQSDLPLNNDIAGSKMVSKRSRSEITEVSSHAGKEVRENMQGTNGQGGCSWGWSEEGVVMDINILLSEFGDFSDFFQEDELDFGEPPGTAESHTLVTPASEYGDMAFIDSPSVAMDIPEQRLSPVGFTSMEAFNHQTMSPIQDVASKVQEPLKEIASSAGSQSLVLSSSRSDFLTRAEATLTFAPEYAAVEISSCESPATLFTNPYLPGSKKRGSCGFSSRVYSYDVTQSSKVESVGDKSEKSDKLIPANLSRDAGRSNLYTLVQGRKKESEKSLNNADEQSCKGETSRPVSGETSFSSSLSLQKKSDNMLNVGYFLLSMKTALATEIECITFQAAMCRIRHTLVSLRTKASAELKSALSSAMQTESGSNSDLVPKYDVKRKESIPARLSSDVDHEMYDRSRMENVGVWRSVVVPKGAKPLDCLSANTFTGTSPSVQRQPIVELLSAMALLVQQSTSFVDIALDMDDGDGSFFWLSLDEQRRRGFSCDPSMVHAGCGGLLGTCHSKDCAGVDLVDPLSAEVSESSMIGLLQSDIKSALKTAFANMDGPLSVIDWCRGRSNIAESAAMGDAYSFHYTTGDIRETSNSIPIGGDAMSPPQSSSDRGTSEEHHKGYHRVRPTIAVLPSPSLLVGYQDDWLKTSANCLKLWEKAPLEPYASAKPVTYYALCPDIDMLTSAATDFFMQLGTIYEVCKLGTHSPQHSGGQIEQSPGKYLPSGLVLVECPDQLKSSGSHSVSISSVTEYFQALSKSWSVKSFLSSLARVIKDIKLTSNISTNQKESSNIPCTVVYVVCPFPEPSAVLQTLVESSVALGSILSSERERKSFLYTQVAKALNSSASADEASASNVVMLSGFSIPKLVLQIVTVETLLRLQKPNELAALKDIAFTVYNKARRIPRFVSTSDLFQSHSYMSRPQSTMMHTASPGPTLWKECLAPRMSGQTLSRETEFDASMRSVSWDNSWQPGRAAGLPDPSKIPELCAQDDRKYAFEPLFILAEPGAVDYNDAMESSRFGADASSSRVYSSISGGTDSGASPLLEGSENDSGTSLHCCYGWTEDWRWLVCIWTDSRGELLDSLIFPFGGISSRQDTTVLQSLFIQILQQGCQIMSSSPEASNTRSRDVVITRIGGFLELEIQEWQKAIYSFGGNEVKKWPVQLRRSIPDGIPSNSNGPTLEQQDMGLIHDRNMPSSPSMLYNPHSKSSFTKGQPGNKKQILVEQTGMESSRGSLHFVRSISLVAVSQDSSLHLACQADLPATRPTSTSGEGNQSSSNTSSSASYLDGFAPVKSIGSMSASSYLLVPSPSMRYLSPATLQLPTCLTSESPPLAHLLHSKGTATPLAMGYVVSKAVPAVRKKLTKEDSRHSVLSVSIVDYYGGTTVQDKMSRGSKQAARHETSAARDYETDMHNVLEAVAAELHSLSWMTASPVFMERRSALPFHCDMVLRLRRLLHYADRHLSQSTEKGDVS
Length1709
PositionKinase
OrganismHordeum vulgare subsp. vulgare (Domesticated barley)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Liliopsida> Poales> Poaceae> BOP clade> Pooideae> Triticodae> Triticeae> Hordeinae> Hordeum.
Aromaticity0.07
Grand average of hydropathy-0.314
Instability index60.04
Isoelectric point5.74
Molecular weight185764.61
Publications
PubMed=23075845

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

>MDP15099
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     562.61|     181|     768|     622|     816|       1
---------------------------------------------------------------------------
  622-  816 (275.17/198.76)	VPKYDVKRKESIPARLSSDVDHEMYDRsrmENVGVWRSVVVPKGAKPL.DCLSANTFTGTSPSVQRQPIVElLSAMAlLVQQSTSFV.DIALDMDDGDGSffwLSLDEQRRRGfSCDPSMVhAGCGGLLGTCHSKDCAGVDLVDPLSA..EVSESSMIgLLQSD....IKSA...LKTAFANMDGPLSVIDWCRGrsnIAESAAMG
 1394- 1585 (287.44/165.33)	VKKWPVQLRRSIPDGIPSNSNGPTLEQ...QDMGLIHDRNMPSSPSMLyNPHSKSSFTKGQPGNKKQILVE.QTGME.SSRGSLHFVrSISLVAVSQDSS...LHLACQADLP.ATRPTST.SGEGNQSSSNTSSSASYLDGFAPVKSigSMSASSYL.LVPSPsmryLSPAtlqLPTCLTSESPPLAHLLHSKG...TATPLAMG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     788.49|     216|     996|      71|     304|       2
---------------------------------------------------------------------------
   71-  304 (350.04/217.36)	RGQSYYVEVAL..................GFppASTDKISESENNQIKKELDSVNDP...hlgadGQQKL....ERADGLPVLERTFIYPPE..AVMVPmvhqafvRFSSkrmwSQDWMGSSSWEAWP....FWNFSPS.SYFRNSSSFYGS.SRG.LGVNSNF...LRLRRQRNSSSNGMASSI...SSVSSTSNGSEHAVAAK.....GGDLLADADSTACRQSDLPLNN.DIAGSKMVSKRSRS.EITEVSSHAGKEVRENMQGTNGQG.GCSWGWSEE
  345-  558 (221.60/113.32)	TPASEYGDMAFidspsvamdipeqrlspvGF..TSMEAFNHQTMSPIQDVASKVQEPlkeiassaGSQSLvlssSRSDFLTRAEATLTFAPEyaAVEI.......................SSCE...........SPA.TLFTN.PYLPGSkKRGsCGFSS......RVYSYDVTQS....SKV...ESVGDKSEKSDKLIPANlsrdaGRSNLYTLVQGRKKESEKSLNNaDEQSCKGETSRPVSgETSFSSSLSLQKKSDNM.................
 1132- 1302 (216.85/109.18)	......................................................................................FTVYNK..ARRIP.......RFVS....TSDLFQSHSYMSRPqstmMHTASPGpTLWKECLAPRMS.GQT.LSRETEFdasMRSVSWDNSWQPGRAAGLpdpSKIPELCAQDDRKYAFE.......PLFILAEPGAVDYND.AMES.SRFGADASSSRVYS.SISGGTDSGASPLLEGSENDSGTSlHCCYGWTED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.65|      15|     605|     309|     325|       9
---------------------------------------------------------------------------
  309-  325 (24.03/18.67)	DINILLSEFGDFsdFFQ
  917-  931 (28.61/15.63)	DIDMLTSAATDF..FMQ
---------------------------------------------------------------------------




































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 MDP15099 with Med13 domain of Kingdom Viridiplantae
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