<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 MDP32961

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFRIGGLQLVSWFQLLPCEYDATTLTDKSVNAEGQKDASTLLVLSSHLQLQNEGYLSTWTNSFVGPWDPSQGVHNPDEKIKLWLFLPGRHTAIVGAAQPAVSRLRVVGAGLWVAPGDSEEVAIALSQALRNRIERAIRGLSYVRFGDAFTRCQSIARTEKHFRRVMHTFEFIFAATKEAIYVHVIVSAKRTRMLSGYDMEVVLRHNSSSKFGGLPVVVAPHGMRGSLTGCCPSDLVKQIYFSKAKALSSMTVLGIPFSVTPSSGCKVRGQNCYAEVSLGIPSSKVETTLLQNSPQGTVAKFDHTETHCSPGVAKSEGKQADYVQAFERTFIYPMEAVLVPVMNTILARTSLRRFWLQDLVGTLLLETSPLSDLSSPPFSMDCFVPGSLNRSDIPESSWIESNVLCHHFYNSSSNSNSSSSSSSSVYSTSSESDCEVVMGSEDLEADADSLASRKAVLSSYDMFENEGSKTVQASKRAHSEITDSFGQGLGPVKSARKGNESTAQTLAAGDGGSITDVYSSIDAHAISTAGAVKDRIVNPWDWGDDDRGVGMDIQTLLAEYGDLGDLFVNDVLDFGEPPGTAESQALMFPVADPGDIAGTPGTGGLDVSDQMLLPVLDFSSLEGFNQPPTAVKDDATSRVHEPMNEIQSSGAVSISSGHSAGELDLLSKAEAMLIFAPEYMAVESPSSTMSSATSTGYHYCPNSGKVDSYQKNSAVYSYGATPPPSPLMGSSDQIADTPGKVNDGLTKRDLLLELRKYYMVVQNVDQSGKRLPLGNNGIVSSKGETAFSASGFGSSSMMTSLHARKTEYESGAFCFLFPLRTVLATDVECLILQAAMCRIRHVVLSGSDGVPLGLNRAIALSVFDQVLSDASVLSGKISGNLEPKKKESIPVRIAGDIEGGLLDGSRSAPVGVWRSVGVPQGSKSPSAPKFDSSSLPINAYEEDGASFYGQKQPLQELLDAMGLLVQQATAFVDLSLDADYGDGPFGWLAFEEQRRRGFSCGPSMVHAGCGGVLAACHSLDIAGVELFDPLSADVHSSSVISLLQSDLKIALKSAFGERNLDGPLPINDWCKGRFQSIEGGSMSSDGCTVESMINDAKESSSTVTLGIGEPITPPQSSAGIKDSEQQMMPPRSKSTVMALSVPSILVGYQDDWLKTSANAIQLFEKAPLEPYALPKPMTYYVVCPDIDPLTTAAADFFQQLGTVYETCKLGTHAPQIVGNQIGLSSEKWSSSGFVLLDVPQSTEKPGSTFSSMGSISDFVLALSEGWNASSYCKSLSKVLRTLRLSSNLSANQKEVLGGTCMVIYVVCPFLDPDAVLQTVVESSRALGSTIFAYDKEKRSLLHSQLAKALSWSSNVDETSISNVLTLSGFSIPKLVLQIVTAETILRITRPPLTELVVLKEIAFTVYNKARRVPRCINPTEAAPLSILLGGRLRSTLTHVGSPVPGLWKDTVTSRNTGTALQRDGPLSWDSSWQAMRPGESLCDFSASGDVLSQDELRYLFEPLFILADPGSLEQGVSLTASEPSRYDETSGVCNNLGGSADTMAGTPIIDVSESDGVVGSCSQKVVSLHCCYGWTEDWRWLVCIWTDSRGELLDSHIFPFGGISGRQDTKGLQCLFVQVLQQGCQMLSSFATDAAIVKPRDIVISRIGSFFELECQEWQKAIYAVGGNEVKKWPLQLRRSVPESASGNGNSLQQQEISLMQDRAMPSQPNPSLYGSHSKSSSFLKGGLTQTNTRKQMLPGQLVGDAPRGVFQWVQSISFVAVSVDHTLQLICPVEMGASPTGVGSQGVGGPPSYWEGFSSVKSLGSTAASYMVIPNPSMRFLPPMPLQLPVGLTAESPPLAHLLHSKGLAIPLTTGFVLSRAVPTIRKDFMRNVKDEWPSILSVSLVDYYGGGASSNINAQEVSSSGKGGGVKQCRIPSSENSGLDAHQILEGVAAELHALSWMTVSPSYLERRTALPFHCDILLRLRRLLHYAEGQLCEQEKFQ
Length1989
PositionKinase
OrganismAmborella trichopoda
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Amborellales> Amborellaceae> Amborella.
Aromaticity0.07
Grand average of hydropathy-0.098
Instability index49.84
Isoelectric point5.32
Molecular weight213818.58
Publications
PubMed=24357323

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

>MDP32961
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     305.82|      98|     523|     885|    1279|       1
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  202-  306 (156.21/11.31)	DMEVVLRHNSSSKF..GGLPVVVAPHGMRGSLT.GCCPSD..LVKQIyFSKAKALSSMTVLGIPFSVTPS.SGCKVRGqncyAEVSLGIPSSKveTTLLQNS.PQGTVAKFD
 1050- 1154 (149.60/102.20)	DLKIALKSAFGERNldGPLPINDWCKGRFQSIEgGSMSSDgcTVESM.INDAKESSSTVTLGIGEPITPPqSSAGIKD....SEQQMMPPRSK..STVMALSvPSILVGYQD
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     330.65|      92|     524|    1162|    1279|       2
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  553-  641 (124.12/63.03)	.....VGMDIQT..LLAEYGD....LG.DLFVNDVLdfgeppGTAESQALMFPVADPGDIAGTPGTGGLDVSDQMLLPVLDFSSLEGFNQPPTAVKD..DATS
 1181- 1274 (153.63/128.54)	MTYYVVCPDIDP..LTTAAADFFQQLG.TVYETCKL......GTHAPQIVGNQIGLSSEKWSSSGFVLLDVPQSTEKPGSTFSSMGSISDFVLALSEgwNASS
 1305- 1357 (52.90/16.20)	MVIYVVCPFLDPdaVLQTVVESSRALGsTIFAYDK.........EKRSLLHSQLA.KALSWSS........................................
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     171.58|      53|     471|     986|    1049|       3
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  986- 1047 (85.56/65.04)	DGPFGWlafeEQRRRGFSCGPSMVH.AGCGGVLaACHSLDIagveLFDPLS..ADVHS.SSVISLL
 1467- 1523 (86.02/44.98)	DGPLSW....DSSWQAMRPGESLCDfSASGDVL.SQDELRY....LFEPLFilADPGSlEQGVSLT
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.21|      20|     530|     885|     918|       4
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  895-  915 (31.50/36.56)	VRIAGDIEGGLLDgSRSAPVG
 1586- 1605 (40.71/11.57)	VCIWTDSRGELLD.SHIFPFG
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     541.32|     143|    1094|     650|     800|       5
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  376-  466 (108.88/48.51)	..................DLSSPPFSMDCFVPGSLNrSDIPESSWIESNVLCHHfYNSSSNSNSSSSSSSSVYSTSSES.....DCEVVMGSEDLEADA.....DSLASRKAVL..SSYDM..........................................
  650-  800 (222.19/128.79)	IQSSGAVSISSGHSageLDLLSKAEAMLIFAPEYMA.VESPSSTMSSATSTGYH.YCPNSGKVDSYQKNSAVYSYGATP.....PPSPLMGSSDQIADTPgKVNDGLTKRDLLLELRKYYMVVQNVDQSGKRLpLGNngiVSSKGETAFSAS.....GFGSSS
 1758- 1900 (210.25/103.79)	VQSISFVAVSVDHT...LQL.........ICPVEMG.A.SPTGVGSQGVGGPPS.YWEGFSSVKSLGSTAASYMVIPNPsmrflPPMPLQLPVGLTAESP.PLAHLLHSKGLAIPLTTGFVLSRAVPTIRKDF.MRN...VKDEWPSILSVSlvdyyGGGASS
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.01|      24|      27|      98|     121|       9
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   98-  121 (40.85/22.74)	VGAAQPAVSRLRVVGAGL.WVAPGD
  127-  151 (34.16/17.85)	IALSQALRNRIERAIRGLsYVRFGD
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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 MDP32961 with Med13 domain of Kingdom Viridiplantae
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