<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 MDP14934

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTQPAVAKLRVVSSDLWVAPGNSEEVAAALCQALRNSLERALRGLSYARFGDVFTKYNPPTRNQNSFRRAQPTVEFVFAATEEAIFVHVIISARYMRNLSSDDIEKVLTHTPRSVGEGLPVIVAPSGMLGRLVGCCPSDLARQVYSSKLSAPNLPGFTQPTICQLRGQSYYVEVALGFPPASTDKISESENNQIKKEFDSGKDPHLGDDGQQKLESADGLPVLERTFIYPPEAVMVPMVHQAFVRFSSKRMWSQDWMSSSSWEAWPFWNFSPSSYFRNSSFFGSSRGLGVNSNFLRLRRQRNNNSNGMASSISSVSSTSNGSEHAVAAKGGDLLADADSTACHQSDLPLNNDIAGSKMVSKRSRSEITEVSSHAGNEVRENMQGTNGQGGCSWGWGEEGVVMDINILLSEFGDFSDFFQEDELDFGEPPGTAESHALVTPASEFGDMPFIDSPSIAMDIPEQRLSPVGFTSMEAFNHETMSPIQDVASKVQEPLKEIASPAGSQSLVLSSSRSDFLTRAEATLTFAPEYAAVEISSCETPATLFTNPYLPGSKKRGSCGFSSRVYSYDVTQSSKVESAGDKSEKSDKLTPANLSRDVGRSSLYTLVQGRKNESEKSLNNADEQSCKGETSRPVSGETSFSSSLTIQKKSDSMLNVGYFLLSMKTALATEIECITFQAAMCRIRHTLVSLRTKASAELKSALSSAMQTESSSNSGLVPKYEMKRKETIPARLSSDVDHDMYDRSLLENVGVWRSVVVPKGAKPLDSLSAKTFTGTSPSVQRQPIVELLSAMALLVQQSTSFVDIALDIDDGDGSFFWLSLDEQRRRGFSCDPSMVHAGCGGLLGTCHSKDCAGVDLVDPLSAEVSESSMIGLLQSDIKSALKTAFANMDGPLSVIDWCRGRSNIAESAAMGDAYSFHYTSGDIRDTSNSIPIGGDAMSPPQSSNDRGTSEEHHKGYHRVRPTIAVLPSPSLLVGYQDDWLKTSADCLKLWEKAPLEPYASAKPVTYYALCPDIDMLTSAATDFFMQLGTIYEVCKLGTHSPQHSGGQIDQSPGKYLPSGLVLVDCPDQLKTSGSHSVSISSVTEYFQALSKSWSVKSFISSLARIIKDIKLTLNISTNQKESSNMPCTVVYVVCPFPEPSAVLQTLVESSVALGSILSSERERKSFLYTQVAKALNSSASADEASASNVVMLSGFSVPKFVLQIVTVETLLRLHKPNELAAFKDIAFTIYNKARRIPRFVSTSDMFQSPTYMSRPQSTMMHTASPGPTLWKECLVPRMSGQTLSRETEFDASMRSVSWDNSWQPGRAAGLPDPSKIPELCAQDDRKYAFEPLFILAEPGAVDYNDTMESSRFGVDASSSRAYSSISGGSDSGASPLLEGSENDSGTSLHCCYGWTEDWRWLVCIWTDSRGELLDSLVFPFGGISSRQDTKVLQSLFIQILQQGCQIMSSSPEASNTRSRDVIITRIGGFLELEIQEWQKAIYSFGGNEVKKWPVQLRRSIPDGIPSNSNGPTLQQQDMGLIQDRNMPSSPSTLYSPHSKSSFTKGQPGNKKQILAEQTGMDSSRGSLHLVRSISLVAVSQDSSLHLACQADLLATRPTSGEGNQSSTGSSSYLDGFAPVKSIGSMSASYLLVPSPSMRYLSPATLQLPTCLTSESPPLAHLLHSKGTATPLAMGYVVSKAVPPVRMNAAQLTKEDRHSVLSVSIVDYYGGGTATVQEKMSRGVGGSTTSKQARNISHETSARDYEMDMHNVLEAVAAELHALSWMTVSPVYTERRSALPFHCDMVLRLRRLLHYADRHLSQLTVKGEM
Length1807
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-0.288
Instability index58.97
Isoelectric point5.74
Molecular weight196638.07
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

>MDP14934
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     748.38|     247|     275|    1025|    1298|       1
---------------------------------------------------------------------------
 1025- 1298 (369.84/260.61)	QLGTiyevcKLGTHSPQHSGGQIDQSPGKYLPSGLVL......VDCPDQLKTSgSHSVSISSVTEYFQALSKSWSVKSFIssLARIIKDIKLTLNISTNQKES.SNMPC........TVVYVVCPFPEPSAVLQTLVESSVALgSILSsererksflytQVAKALNSSASADEASASNVVM..LSGF...SVPKFVLQIVTV........ETLLRLHKPNELAAFKDiAFTIYNKARRIprfVSTSDMFQSPTYMSRPQSTMMHT.ASPGPtlwKECLVPRMSGQTLSRETEF...DASMRSVSWD
 1302- 1580 (378.54/209.85)	QPGR.....AAGLPDPSKIPELCAQDDRKYAFEPLFIlaepgaVDYNDTMESS.RFGVDASSSRAYSSISGGSDSGASPL..LEGSENDSGTSLHCCYGWTEDwRWLVCiwtdsrgeLLDSLVFPFGGISSRQDTKVLQSLFI.QILQ...........QGCQIMSSSPEASNTRSRDVIItrIGGFlelEIQEWQKAIYSFggnevkkwPVQLRRSIPDGIPSNSN.GPTLQQQDMGL...IQDRNMPSSPSTLYSPHSKSSFTkGQPGN...KKQILAEQTGMDSSRGSLHlvrSISLVAVSQD
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     127.60|      33|      34|     586|     618|       2
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  539-  582 (29.43/11.20)	...TPATLFTNpylpgskkrgsC.GFSSrvySYDVTQSSKVESAGDKS
  586-  618 (53.51/25.80)	DKLTPANLSRD...........V.GRSS...LYTLVQGRKNESEKSLN
  622-  654 (44.67/20.44)	EQSCKGETSRP...........VsGETS...FSSSLTIQK.KSDSMLN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.47|      23|     122|      42|      66|       3
---------------------------------------------------------------------------
   42-   66 (38.51/31.84)	LRGLSYarFGDVFTKYNPPTRNQNS
  165-  187 (40.96/26.92)	LRGQSY..YVEVALGFPPASTDKIS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.10|      22|      54|     239|     260|       5
---------------------------------------------------------------------------
  239-  260 (42.05/27.74)	VHQAFVRFSSKRMWSQDWMSSS
  290-  311 (38.05/24.33)	VNSNFLRLRRQRNNNSNGMASS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     166.68|      52|      54|     402|     454|       6
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  402-  454 (87.96/54.86)	MDI.NILLSEFGdFSDF..FQEDELDFGEPPGTAESHALVTPASEFGDMPFIDSPS
  457-  511 (78.71/44.43)	MDIpEQRLSPVG.FTSMeaFNHETMSPIQDVASKVQEPLKEIASPAGSQSLVLSSS
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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 MDP14934 with Med13 domain of Kingdom Viridiplantae
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