<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 MDP15098

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNIFKIAELQTVSWFQFLPVEPDYSPTSDRSSKAEQKDALNSTVLSAYLRLQNEGFLSTWTNSFVGPWDPSQGEHNPDEKIKLWLFLSGRHSSVPEMTQPAVAKLRVVSSGLWVAPGNSEEIAAALCQALRNSLERALRGLSYARFGDVFTKYNPPTRNQNSFRRAQPTVEFVFAATEEAIFVHVIISARYMRNLSSDDIEKVLTHTPRSVGEGLPVIVAPSGMLGRLVGCCPSDLARQVYSSKLSASSLPGFTQPTICQLRGQSYYVEVALGFPPASTDKISESENNQIKKELDSVNDPHLGADGQQKLERADGLPVLERTFIYPPEAVMVPMVHQAFVRFSSKRMWSQDWMGSSSWEAWPFWNFSPSSYFRNSSFYGSSRGLGVNSNFLRLRRQRNSSSNGMASSISSVSSTSNGSEHAVAAKGGDLLADADSTACRQSDLPLNNDIAGSKMVSKRSRSEITEVSSHAGKEVRENMQGTNGQGGCSWGWSEEGVVMDINILLSEFGDFSDFFQEDELDFGEPPGTAESHTLVTPASEYGDMAFIDSPSVAMDIPEQRLSPVGFTSMEAFNHQTMSPIQDVASKVQEPLKEIASSAGSQSLVLSSSRSDFLTRAEATLTFAPEYAAVEISSCESPATLFTNPYLPGSKKRGSCGFSSRVYSYDVTQSSKVESVGDKSEKSDKLIPANLSRDAGRSNLYTLVQGRKKESEKSLNNADEQSCKGETSRPVSGETSFSSSLSLQKKSDNMLNVGYFLLSMKTALATEIECITFQAAMCRIRHTLVSLRTKASAELKSALSSAMQTESGSNSDLVPKYDVKRKESIPARLSSDVDHEMYDRSRMENVGVWRSVVVPKGAKPLDCLSANTFTGTSPSVQRQPIVELLSAMALLVQQSTSFVDIALDMDDGDGSFFWLSLDEQRRRGFSCDPSMVHAGCGGLLGTCHSKDCAGVDLVDPLSAEVSESSMIGLLQSDIKSALKTAFANMDGPLSVIDWCRGRSNIAESAAMGDAYSFHYTTGDIRETSNSIPIGGDAMSPPQSSSDRGTSEEHHKGYHRVRPTIAVLPSPSLLVGYQDDWLKTSANCLKLWEKAPLEPYASAKPVTYYALCPDIDMLTSAATDFFMQLGTIYEVCKLGTHSPQHSGGQIEQSPGKYLPSGLVLVECPDQLKSSGSHSVSISSVTEYFQALSKSWSVKSFLSSLARVIKDIKLTSNISTNQKESSNIPCTVVYVVCPFPEPSAVLQTLVESSVALGSILSSERERKSFLYTQVAKALNSSASADEASASNVVMLSGFSIPKLVLQIVTVETLLRLQKPNELAALKDIAFTVYNKARRIPRFVSTSDLFQSHSYMSRPQSTMMHTASPGPTLWKECLAPRMSGQTLSRETEFDASMRSVSWDNSWQPGRAAGLPDPSKIPELCAQDDRKYAFEPLFILAEPGAVDYNDAMESSRFGADASSSRVYSSISGGTDSGASPLLEGSENDSGTSLHCCYGWTEDWRWLVCIWTDSRGELLDSLIFPFGGISSRQDTTVLQSLFIQILQQGCQIMSSSPEASNTRSRDVVITRIGGFLELEIQEWQKAIYSFGGNEVKKWPVQLRRSIPDGIPSNSNGPTLEQQDMGLIHDRNMPSSPSMLYNPHSKSSFTKGQPGNKKQILVEQTGMESSRGSLHFVRSISLVAVSQDSSLHLACQADLPATRPTSTSGEGNQSSSNTSSSASYLDGFAPVKSIGSMSASSYLLVPSPSMRYLSPATLQLPTCLTSESPPLAHLLHSKGTATPLAMGYVVSKAVPAVRKKLTKEDSRHSVLSVSIVDYYGGTTVQDKMSRGSKQAARHETSAARDYETDMHNVLEAVAAELHSLSWMTASPVFMERRSALPFHCDMVLRLRRLLHYADRHLSQSTEKGDVS
Length1901
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.
Aromaticity0.08
Grand average of hydropathy-0.311
Instability index58.57
Isoelectric point5.82
Molecular weight207446.82
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	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

>MDP15098
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|    1589.45|     501|     551|     713|    1262|       1
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  429-  655 (151.42/77.01)	......................................................................................................................................................................................................................................................GDLLA.....DADSTACRQ..SD.L..PLNNDIAGSKMV....................................................................................................................................................skrsrseitevsshagkevrenmqgtngqggcswgwseegvvmDINILLSEFGDFsdFF.........QEDELDFGEP..PGT.AESHTlvTPASEYGDMAFIDSPSVAMDIPEQRLS....PVGFTSM.EAFNHQTMS.PIQDVASKVQEPLKEIASSAgS....QSLVLSSSRSDFLTRAEATLTFaPEYAAVEISSCE....SPATLftNPYLPGSKKRGS
  713- 1262 (756.74/575.07)	KSLN...NADEQSCKGETSrpVSGetsFS.SSLSLQkksdnMLNVGYFL.LSMKTALAT..EIECITFQAAMcRI.RHTLVSLRTKASAELKSALSSAMQTESGSnsdlvPKYdvkRKESIPARLSSD.VDHEM.YDRSrMENV...GVW...RSVVVPKGAK.PLDCLSANTFTGTSP.SVQRQP.IVELLSAMA...LLVQQSTSFVDIALDMDDGDGSFFWLSLDEQrRRGFScdpsmVHAgCGGLLG.....TCHSKDCAG..VD.LVDPLSAEVSESSMIGLLQSDIKSALKTAFANMDGPLSVIDwCRGRSNIAesAAMGDaysfhYTTGDIRETSNSI.PIGGDAMS..PPQ..SSSDRGTsEEHHKGyhrvrPTiavLPSPSL.LVgyQDDWLKTSANclKLWEKAPLEPYASAKP.VTYYALCP...........................................DIDMLTSAATDF..FM.........QLGTIYEVCK..LGTHSPQHS..GGQIEQSPGKYLPSGLVLVECPDQLKSSGSHSVSISSVtEYFQALSKSWSVKSFLSSLARVIKDIKLTS.N....ISTNQKESSNIPCTVVYVVCPF.PEPSAVLQTLVE....SSVAL..GSILSSERERKS
 1270- 1805 (681.29/409.48)	KALNssaSADEASASNVVM..LSG...FSiPKLVLQ.....IVTVETLLrLQKPNELAAlkDIAFTVYNKAR.RIpRFVSTSDLFQSHSYMSRPQSTMMHTASPG.....PTL...WKECLAPRMSGQtLSRETeFDAS.MRSVswdNSWqpgRAAGLPDPSKiPELCAQDDRKYAFEPlFILAEPgAVDYNDAMEssrFGADASSSRVYSSISGGTDSGASPLLEGSEN.DSGTS.....LHC.CYGWTEdwrwlVCIWTDSRGelLDsLIFPFGG.ISSRQDTTVLQSLFIQILQQGCQIMSSSPEASN.TRSRDVVI..TRIGG.....FLELEIQEWQKAIySFGGNEVKkwPVQlrRSIPDGI.PSNSNG.....PT...LEQQDMgLI..HDRNMPSSPS..MLYNPHSKSSFTKGQPgNKKQILVE...........................................QTGMESSRGSLH..FVrsislvavsQDSSLHLACQadLPATRPTST..SGEGNQSSSNTSSSASYL.DGFAPVKSIGSMSAS.....SYL..LVPSPSMR.YLSP.ATLQLPTCLTS.EspplAHLLHSKGTATPLAMGYVVSK..AVP.AVRKKLTKedsrHSVLS..VSI.........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.86|      24|      27|     367|     390|       4
---------------------------------------------------------------------------
  367-  390 (44.24/22.39)	NFSPSSYFRNSSFYGSSRGL.GVNS
  391-  415 (36.62/17.22)	NFLRLRRQRNSSSNGMASSIsSVSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.19|      15|      27|      58|      72|       8
---------------------------------------------------------------------------
   58-   72 (30.70/15.32)	FLSTWTNSFVGPWDP
   88-  102 (29.50/14.42)	FLSGRHSSVPEMTQP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.47|      23|     121|     140|     164|       9
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  140-  164 (38.51/29.31)	LRGLSYarFGDVFTKYNPPTRNQNS
  263-  285 (40.96/24.74)	LRGQSY..YVEVALGFPPASTDKIS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      37.87|      11|      34|     665|     675|      10
---------------------------------------------------------------------------
  665-  675 (18.76/10.85)	YDVTQSSKVES
  701-  711 (19.11/11.19)	YTLVQGRKKES
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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 MDP15098 with Med13 domain of Kingdom Viridiplantae
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