<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 MDP03052

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKIGGLRNVSWFQFLPSEAELSPASDTTSSRAEQNDVATYLVLSSHLRLQKEGFLSTWTNSFVGPWDPSQGLYNPDEKIKLWLFLPGRHSSITDKAQAVVSKLRVVASGIWVAPGDSEEISVAFSQSLRNCIERALTGLSYMRFGDVFSKFSPQSEDYLRRGQPTVEFIFAATEEAVFVHVIVSAKNVRALSSGDAERLLRSSLKNSSYRLPVIVSPHGMRGSLTGFCPNDLVKQVYFSSGNIGTSSGYIGLPSHVDRGSRLINDNHCYVEVTLGCCQSINDNTSQTNSTFAVNLPHNQRPEPSVGSRDHRKGQQDISSVREKKFIYPAEAVLVPILQSAFAKFSLKRFWLQNWIGPSLAGSSLYIHWAGDFDFLRSSGNKSDGFYEKNGYNSSGSSRNSSISSTSSASSGSGWRMASRTGDLDADADSLTCRQSGVTCNDDRPKSGSKRSRTGRTESFGQVGITDDQIGWDWDDDDDDDDDDDRGVGMDIKALLSEFGDFGDFFENDALPFGEPPGTAESHTLMIPLDSAEIGCSPVDMMDVSDQIVLPDGFSSFESFNPVPPIIDECLIKSQEVINSSVTSAPLNQMSSSSTGEFDHLIKAEAMMTFAPEYGAVEVPMSEISSFKSPYLPKSHKVESSHSRTSNYVYGPTPPATDSDGAADKNSLGSKACIGNNDGRTLFQSRDYYTQVEGRKDQHKMLPTVISDNSSTKEGVSQLKYSNFSAVKTVQGKKSDGISAVVSTLLSSKTLLATDVGSVMFQAFMSRMRHIIISSKHSSPVNLTRLSGKLFLNQLSNEPSSLTDNISARNEIYKKEIPTRIAGDFDGGMIDSHMSAPVGVWRTVSVPKTAKPASSPNIEAGSSLPHSSFSEDSLLSYGQRQPLQELLDGIALIVQQATSFVDLALDSDCGDGPYGWLALEELWRRELSCGPSAGHAGCGGTLASCHSLDIAGVKLVDPLSAEVFPSSVITLLQSDIKTALKSAFGQSDGPLSVTDWCKGRNHSMDGGSTAESSLREDSGKREETAQSQDIYSSELLRPTLFVLPSPSILVGYQDDWLKISTNALPHWEKAPFEPYALPKNMSYTVVCPDIDPLTSAATDFFQQLGTVYEACRLGTHLPHILGNQMETDAGRLSLSGFVLLDCPQSMKIESNNTSLLGSLSDYFLSLSNGWNVTSYLKSLSRALKGLKLESCLYTNQKEGSATSPCIVVYIVCPFPDPSAVLRTIVQSSIALGSGIRPDKDRRSLLNSQVARAFGSSAAVDEASISHIPVLSGFSVPKLVLQVVSVDSIFRITSPSFNELVILKDTAFSVYNKARKISREMPNDAFQSSSLSSRSSSALTPMSSISGIWKDCVGSRMTGSTHPRDGERDGSMRTSWDSWQMTRSGGLSCDPNRNEDFYLNDESFYLFEPLFILSEPGSVERELSPTFGGLGSESSKPITEDGGRGSGLGVNAMEGIPSGSSSQGDTSQVEGKNIPSLHCCYGWTEDWRWLVSIWTDARGELLDTHIFPFGGISSRQDTKGLQCLFVQVLQQGCQILQACSSPDNGSSKPRDFVITRIGNFFELEYLEWQKAIYSAGGPDIKKWPIQLRRSAPSGIATNCSVSSLQPPDMSLIQERASSSSTFYSSHSKPSNFVKGSIGQSAGRKHIMGGQTISGTPRGLFQWVHSISFTSISLDQSLHLVLPVELVSPGGTGMSSSNYIEGFTPVKSLGSTAYSYMMIPSPNMRFLHPSPLQLPTCLTAESPPLAHLLYSKGCAIPLSTGFVVSKAVPSMRKDSRINMKEEWPSVLSVSLIDYYGGYDNAHDKILQGIMKQGGGGTQETRDFEVESHLILESIAAELHALSWMTASPAYLDRRTALPFHCDMVLRLRRLLHFADKELQTSR
Length1884
PositionKinase
OrganismBrassica oleracea var. oleracea
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> malvids> Brassicales> Brassicaceae> Brassiceae> Brassica.
Aromaticity0.08
Grand average of hydropathy-0.279
Instability index52.99
Isoelectric point5.56
Molecular weight205147.82
Publications
PubMed=24916971

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

>MDP03052
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     197.03|      45|      75|     639|     688|       1
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  639-  683 (81.81/39.19)	SHKVESSHSRTSNYVYGPTPPATDSDGAADKNS..LGSKACIGNNDG
  715-  761 (62.03/27.78)	STKEGVSQLKYSNFSAVKTVQGKKSDGISAVVStlLSSKTLLATDVG
 1627- 1661 (53.20/24.05)	.....SSHSKPSNFVKG.....SIGQSAGRKHI..MGGQTISGTPRG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     326.40|     112|     486|     495|     621|       2
---------------------------------------------------------------------------
  495-  621 (167.66/114.08)	DIK.ALLSEFG......DFGDFFE..NDALPFGeppGTAESHtlmIPLDSAEiGCSPVDMMDV.SDQIVLPDGFssfesFNPVPPII....DECLIKSQEVInSSVTSAPL......NQMSSSST.GEFDHLIKAEAmmTFAPEYGAV
  979- 1111 (158.74/77.61)	DIKtALKSAFGqsdgplSVTDWCKgrNHSMDGG...STAESS...LREDSGK.REETAQSQDIySSELLRPTLF.....VLPSPSILvgyqDDWLKISTNAL.PHWEKAPFepyalpKNMSYTVVcPDIDPLTSAAT..DFFQQLGTV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      98.73|      32|     270|      20|      60|       3
---------------------------------------------------------------------------
   20-   60 (41.48/39.62)	LPSEAELSPASDTTSSRAEQNDVatylvlsSHLRLQKegFL
  300-  331 (57.25/31.63)	LPHNQRPEPSVGSRDHRKGQQDI.......SSVREKK..FI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.23|      14|      19|    1219|    1234|       4
---------------------------------------------------------------------------
 1219- 1234 (19.31/17.64)	PDPSAvlRTIVQSSIA
 1241- 1254 (23.92/14.60)	PDKDR..RSLLNSQVA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      89.77|      28|     288|    1258|    1339|       5
---------------------------------------------------------------------------
  229-  257 (46.79/ 6.29)	LTGFCPNDLVKQVyFSSGNI..GTSSGYIGL
 1274- 1303 (42.98/61.07)	LSGFSVPKLVLQV.VSVDSIfrITSPSFNEL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     143.09|      44|     288|     856|     913|       6
---------------------------------------------------------------------------
  856-  905 (60.93/55.13)	PasSPNIEagsSLPHSSFSEDSLLSyGQRQPLQELLDGIALIVQQATSFV
 1722- 1765 (82.15/38.57)	P..SPNMR...FLHPSPLQLPTCLT.AESPPLAHLLYSKGCAIPLSTGFV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.81|      16|      17|    1149|    1164|       7
---------------------------------------------------------------------------
 1149- 1164 (27.47/15.97)	SMKIESNNTSLLGSLS
 1169- 1184 (29.35/17.62)	SLSNGWNVTSYLKSLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.50|      16|      17|     398|     413|       8
---------------------------------------------------------------------------
  382-  397 (27.25/12.02)	SSGNKSDGFYEKNGYN
  398-  413 (25.24/10.57)	SSGSSRNSSISSTSSA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      35.49|      10|      17|    1432|    1441|       9
---------------------------------------------------------------------------
 1432- 1441 (17.64/ 9.33)	GLGSESSKPI
 1450- 1459 (17.86/ 9.55)	GLGVNAMEGI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     243.18|      76|    1218|      72|     167|      14
---------------------------------------------------------------------------
   72-  167 (114.82/98.04)	DPSQGLYNPDEKIKlwLFLPG...RHSSITDKAQAVVSKLRVVaSGIWvapgdseeisvafsqslRNCIERALTGLSYMRFG..DVFSKFSPQSEDYLRRG
 1308- 1388 (128.36/71.28)	DTAFSVYNKARKIS..REMPNdafQSSSLSSRSSSALTPMSSI.SGIW.................KDCVGSRMTGSTHPRDGerDGSMRTSWDSWQMTRSG
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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 MDP03052 with Med13 domain of Kingdom Viridiplantae
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