<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 MDP11317

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFRIGGLHNVSWFQFLPSETELNPGFDRSSRAEQNEVATYLVLSSHLRLQKEGFLTTWTNSFVGPWDPSQGLYNPDEKIKLWLFLPGRHSSISDKAQAAVSKLRVVASGIWVAPGDSEEISVAFSQSLRNCIERALSGISYMRFGDVFSKFSPQSEEYLRRGQPTVEFIFAATEEAVFVHVIISAKNVRTLSSGDAERMLRSSLKNSSYRLPVIVSPHGMRGSLTGFCPNDLVKQVYFSSGNLKTSTGYVGLPSHIGRGSRLINGNHCYVEVTLGCCQNRNDNTSQANSTFAVNLPHNQCPEPSVGSKDHRKGQSDLSSVCEKKFIYPAEAVLVPILQSAFAKFSLKRFWLQNWIGPSLAGSSLFMHWAGDFDCLGASENKSDGFYEKNGYNSSGSSRNSSISSTSSASSGSGWRMTSRTGDLDADADSLTCRQSGLTCNDDRLKMGSKRPRTGMAESFGQVGIENDQIGWDWDADDDDDDREVGMDIKALLSEFGDFGDFFENDALPFGEPPGTAESHVLVFPPDSADVGSSPVDMMDVSDQIVLPVGFSSFESFNPVPPIIDECLIKSQEVLHSSITSVPSNQMSISSTGEFDHLLKAEAMMTFAPEYGAVEAPMSEISSTFFKSPYLPKSHKVESSNSRTSNYVYGATPPTTDSDGAGDMILFGSKSCIGNNAGRTLYHSREHYTQVEGRKGRHDKLPTVISDNSSTKEGVSQSIHSKHSAANAVKVVQGKKTDGISAVVSTLLSSKTLLATDVGSVMFQAFMCRMRHIITSSKHSSPVSLTRLSGNFFLNQLSNEPSTLTDNISARNEIYKKDIPTRIAGDFDGGMLDSHMSAPVGVWRTVSVPKTAKPASSPNIEAGSSLPHSSFSEDSLLSYGQRQPLQDLLDGIALLVQQATSFVDLALDSDCGDGPYGWLALEELWRRELSCGPSAGHAGCGGTLASCHSLDIAGVKLVDPLSAEVFPSSVITLLQSDIKTALKSAFGQSDGPLSVTDWCKGRNQSGDGGSISEGFTAESALSEVSNAIDGGKGDETAQSQDIYSSELLRPTLFVLPSPAILVGYQDDWLKISTNSLTHWEKAPFEPYALPKSINYAVVCPDIDPLTCAATDFFQQLGTVYETCRLGTHLPQSLGNQMEKDVGRLSSSGFVLLDCPQSMKIESNNTSLLGSLSDYFLSLSNGWNVNSYLKSLSKALKGLKLGSGLYTNQKEGSGSPCVVVYIVCPFPDPSAVLRTIVESSIALGSVIQSDRDRRSILNSQVARAFSSSTAVDEASISHIPVLSGFSVPKLVLQVVSVDSIFRITSPSFNELVILKDTAFSVYNKARRISRGMPNDAFFSSSLPSRSSSALTPMNSISGIWKDCGGSRMTGSTHPRDGEIDVSLRTSGWDTSTSWQIPRSGGLSCDPNRNGDFYLNDEIFYLFEPLFILSEPGSVERGVSPTFTSLGSESSKPIPEDGGRGSGPGMNSMEGITSGSSSQGDVSQLEGKAIPSLHCCYGWTEDWRWLVSIWTDARGELLDTHIFPFGGISSRQDTKGLQCLFVQVLQQGCQILQACSSPDNGSFKPRDFVITRIGNFFELEYQEWQKAIYSAGGPEIKKWPIQLRRSAPSGIATNSNGSSLQQQDLSLIQERASSTSTLYSSHSKQSTFVKGSMGQSAGRKQIMGGQTISGTPRGLFQWVHSISFASISLDHSLHFVLPAELVSAGGGQSSTGMSSVNYIEGFTPVKSLGSTAFSYMMIPSPNMRFLHPSPLQLPTCLTAESPPLAHLLHSKGYAIPLSTGFVVSKAVPSMRKDSRINVKEEWPSVLSVSLIDYYGGYDNAHDKILQGIVKQGGGTKETRDFEVESHLILESIAAELHALSWMTVSPAYLDRRTALPFHCDMVLRLRRLLHFADKEVSRIPDKTGV
Length1906
PositionKinase
OrganismArabidopsis thaliana (Mouse-ear cress)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> malvids> Brassicales> Brassicaceae> Camelineae> Arabidopsis.
Aromaticity0.08
Grand average of hydropathy-0.238
Instability index50.19
Isoelectric point5.71
Molecular weight206728.71
Publications
PubMed=11130712
PubMed=27862469

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

>MDP11317
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.71|      15|      60|     923|     945|       1
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  350-  365 (27.11/ 8.99)	LKRFWLQNW.IGPSlAG
  924-  939 (25.61/28.11)	LEELWRRELsCGPS.AG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     491.94|     156|     182|     828|    1006|       2
---------------------------------------------------------------------------
  801-  991 (232.88/169.57)	SNEPSTLTDNISARNeiykkdiptriaGdfDGGMLDSHMSAPVG...VWRTVSVPKTAKPASSPNIEAGSSLPHSSF...SEDSLLSYgQRQPLQdlLDGIALLVQQATSFVDLALDSD......CGD.GPYGWLAleelwrrelscgpsagHAGC..GGTLAscHSLDIAGVKLVDPLSAEVF............................................PSSVI.TLLQS.DIKTALKSAFGQ
  992- 1173 (231.96/146.30)	SDGPLSVTDWCKGRN..........qsG..DGGSISEGFTAESAlseVSNAIDGGKGDETAQSQDIYSSELLRPTLFvlpSPAILVGY.QDDWLK..ISTNSLTHWEKAPFEPYALPKSinyavvCPDiDPLTCAA......tdffqqlgtvYETCrlGTHLP..QSLGNQMEKDVGRLSSSGF..............................................VLL.DCPQSmKIESNNTSLLGS
 1175- 1250 (27.10/ 8.77)	SDYFLSLSN...GWN.........................................................................................................................................................................vnsylkslskalkglklgsglytnqkegsgspcvvvyivcpfpdPSAVLrTIVES.SI..ALGSVI.Q
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     165.28|      56|     494|    1276|    1334|       3
---------------------------------------------------------------------------
 1276- 1334 (82.58/69.95)	ASISH.....IPVLSGFSVPKLVlQVVSVDSIFRITS..PSFNElVILKDtAFSVYNKAR.RISRGM
 1766- 1829 (82.70/56.04)	AHLLHskgyaIPLSTGFVVSKAV.PSMRKDSRINVKEewPSVLS.VSLID.YYGGYDNAHdKILQGI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.59|      25|    1211|      89|     121|       4
---------------------------------------------------------------------------
   89-  121 (35.72/44.02)	LPGRHSSisdkaqaAVSKLRVVaSGIWVAPGDS
 1344- 1368 (48.88/34.02)	LPSRSSS.......ALTPMNSI.SGIWKDCGGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     149.56|      44|    1211|     397|     441|       5
---------------------------------------------------------------------------
  379-  429 (67.11/37.50)	LGAS.ENKSDGFyekngynSSGSSRNSSISSTSSASS.....G.....SGWRMTS......RTGDLDA
  430-  485 (57.37/34.84)	DADSlTCRQSGLtcnddrlKMGSKRPRTGMAESFGQV.....GiendqIGWDWDA......DDDDDD.
 1372- 1406 (25.09/ 7.96)	.....................GSTHPR......DGEIdvslrT.....SGWD.TStswqipRSGGLSC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     123.50|      37|     452|     253|     292|       7
---------------------------------------------------------------------------
  253-  292 (65.18/43.90)	YVGLPSHIGRGSRL...INGNHCYVEvtlGCCQNRNDNTSQAN
  691-  730 (58.33/32.48)	YTQVEGRKGRHDKLptvISDNSSTKE...GVSQSIHSKHSAAN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.17|      24|     154|     164|     189|       9
---------------------------------------------------------------------------
  164-  189 (38.46/46.55)	RRGQPTV......EFIFAAteEAVFVHVIISA
  315-  344 (36.70/34.41)	RKGQSDLssvcekKFIYPA..EAVLVPILQSA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     146.95|      44|     191|    1437|    1481|      10
---------------------------------------------------------------------------
 1437- 1481 (74.30/40.07)	ERgVSPTFTSLGSESSKPIPEDGGRGSGPGMNS.MEGITSGSSSQG
 1631- 1675 (72.65/35.17)	ER.ASSTSTLYSSHSKQSTFVKGSMGQSAGRKQiMGGQTISGTPRG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.87|      24|    1481|     207|     231|      12
---------------------------------------------------------------------------
  207-  231 (41.15/27.52)	SLKNS.SYRLPV.IVSPHGMRGSlTGF
 1689- 1714 (35.72/18.92)	SLDHSlHFVLPAeLVSAGGGQSS.TGM
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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 MDP11317 with Med13 domain of Kingdom Viridiplantae
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