<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 MDP21207

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKIGGLHQISWFQFLPHETELIPQPDKSVKDAATQLVLSSHLQLQKEGFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFLPGRHSSYADPPQAAVSKLRVVASGLWMSPGDSEEVATALSQALRNRIERALSGLAYMRFGDVFSKFHASQSEELLRRGQPTVEFIFAATEEGIFVHALVSAKHIRALSSDDLERVQKHSSQNSCYGLPVIVSPHGICGRLTGCCPGDLVKQVYFSKLKTSNFIGLPNHVPQGSGSQLTWQNCYVEVTLGCPRPRSDRALQSNSNSFRNVVKHHPVESPSLGRGDQKGSLDNISVYEKTFVYPAEAVLVPSLQVAGSSLKRFWLQNWIGPSMPGSSFFMLCSDSIEPMEECNETNGIRTQRGYNSSSNSNSSSISSISSSSSDSDDRMATGASELEADADSLTCRQSGLSFNNQLGNDISKLGFKRPRDGRAESFAEVGTATSASLQDTYNSDFGSMEVNNSAITVVTNDQIGSLWDWDGDDRYGTDIHALINEFGDFGDLFESDVLPFGEPPGTAESQALMFSAPDFGDVVDNPVGVMDVSDQLLLSEGFASFESFIPPPPASMEETLIKNQEAINSALSSGPVNCSSASNISEFDHIIKAEALMTFAPEYGAVETPTSEVSSSIFRSPYLPKSRKAESSNSSPSIYTYGPTPPSSCFDGFDEKTGIPSNSKPCAGKKDASNIFRSRNYYTHVESGKEQQDRRLLTSSNGIAVTHDGVAQSPFPVLNSTNAVKAAQRKMTEGTFESENSFLSMRTIPATEIECILFQASMCRIRHTLLSSSSLSSIGFSRLPGDQSVMPENISGKYEARRKESIPVRIAGDIDGGMIDGHLNAPVGVWRSVGAPRVPKPTSSSSMEISSSLPHTSFNDESMLSYGRQPLQELLDGFSLLVQQATSFVDLALDSDCSDGPYGWLALQEQWRKGFSCGPSMVHAGCGGTLASCHSLDIAGVELVDPLSADVHASSVISLLQSDIKTALKSAFGILDGPLPVTDWCRGRNQSGESTVDGYSAESTISECKDSSSIVAPSIVEPLSPSPSCSAGSTCLKVSSAMDGAKVDETSQRRSNQENCTSESDLQMCSRLRPTLFVIPLPAILVGYQDDWLKTSASSLQLWEKAPLEPYALQKPITYYVVCPDIDPLTSAAADFFQQLGTVYETCKLGTHLPQSFGSQMEVDSGRRPSSGFVLLDCPQAMKIESRNASLVGSLSDYFLSISNGWDLTSYLKSLSKALKALKLGHCLSTNAKEGSSGPSTVIYVVCPFPEPIAILQTVIESSIAIGSVIFQSDRERRSTLYSQVSKALSYSATVDEASISNILVLSGFSIPKLVLQIVTVDAIFKVTSPSLNELVILKETAFTVYNKARRISRGASSDAVQSSLSSRSHSVLSQMSSPTPGTWKDCGGPRITGHSLPREGEIDASLRTGSWDSSWQTTRTGAANCDPNRIGDIFSQDETRYMFEPLFILAEPGSLERAFSPLAFGNLPSEPSKALSDDISGGFMQSTSLGGSADSGSGSQADGSELDKIPPSLHCCYGWTEDWRWLICIWTDSRGELLDSHIFPFGGISSRQDTKGLECLFVQVLQQGCQILQACSSDTGVAKPRDFVIARIGSFYELEYQEWQKAINSVGGSEVKKWHLQLRRSVSDGVSASSNGPSLQQQEMSLIQERTLPSSPGPLYGSSHSKISGFMKGGLGQPSVRKQLMGSQLIDSSRSLLQWVQSISFITIAIDHSLHLVIQADTQSPGAQGGVGVGSSGYLEGFAPVKSLGSTPAAYILIPSPSMRFLPPTPLQLPTCLTAESPPLAHLLHSKGSAIPLSTCFVVSKAVPTMRRDYRSNLKEEWPSTLLVSLIDHYGGNNFSQEKLMRGNTKQVGRSPSSEARELEFETHVILESLAAELHALSWMTVSPAYLERRTALPFHCDMVLRLRRLLHFADKDLSRHQEKA
Length1959
PositionKinase
OrganismPrunus yedoensis var. nudiflora
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> fabids> Rosales> Rosaceae> Amygdaloideae> Amygdaleae> Prunus.
Aromaticity0.08
Grand average of hydropathy-0.238
Instability index56.00
Isoelectric point5.41
Molecular weight212388.18
Publications









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

>MDP21207
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     408.88|      90|     175|     839|     946|       1
---------------------------------------------------------------------------
  633-  686 (60.54/22.57)	........AP.................EYGAVETPTSEV..SSSIFRSPY....LPksrkaESSNSSPSIYTYGPTPPSSCFDGF..................................
  850-  944 (145.43/88.83)	GMIDGHlnAPVGVW..R..........SVGAPRVPKPTS..SSSMEISSS....LP.....HTSFNDESMLSYGRQPLQELLDGFSLLVQQATSF.VDLALDSDCSDgpYgWLALQEQW
 1008- 1081 (58.19/21.65)	..LDGP..LPVTDWcrGrnqsgestvdGYSA.ESTISECkdSSSIV.APSivepLS.....PS....PSCSAG..................STCLkVSSAMDGAKVD............
 1771- 1856 (144.72/71.07)	GYLEGF..APVKSL..G..........STPAAYILIP....SPSMRF.......LP.....PTPLQLPTCLTAESPPLAHLLHSKGSAIPLSTCFvVSKAVPTMRRD..Y.RSNLKEEW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.47|      10|     122|    1153|    1162|       2
---------------------------------------------------------------------------
 1153- 1162 (21.72/10.94)	YVVCPDIDPL
 1277- 1286 (22.75/11.82)	YVVCPFPEPI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     280.94|      93|     344|    1174|    1276|       3
---------------------------------------------------------------------------
 1174- 1276 (135.92/97.18)	GTVYETCKLGTHLPQSFGSQM...EVDsgRRPSS.....GFV....LLDCpqaMKIESRnASLVGSLSDYFLSISNGWDlTSYLKSLskALKALKLGhCLSTNAKEGSSG...P.STVI
 1515- 1623 (145.02/75.67)	GGFMQSTSLGGSADSGSGSQAdgsELD..KIPPSlhccyGWTedwrWLIC...IWTDSR.GELLDSHIFPFGGISSRQD.TKGLECL..FVQVLQQG.CQILQACSSDTGvakPrDFVI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.92|      27|      28|      86|     112|       4
---------------------------------------------------------------------------
   82-  110 (43.53/27.45)	WLflPGRHSSYADP.PQAAVSKLRVVASGL
  111-  139 (38.39/23.21)	WM.sPGDSEEVATAlSQALRNRIERALSGL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      91.09|      25|      28|     497|     524|       5
---------------------------------------------------------------------------
  500-  524 (50.25/32.63)	WDWD....GDDRYGTDIHALINEFGDFGD
  526-  554 (40.84/18.15)	FESDvlpfGEPPGTAESQALMFSAPDFGD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     130.04|      44|     507|     786|     840|       6
---------------------------------------------------------------------------
  786-  840 (59.47/56.89)	IECILFQASMCRiRHTLLSSSSlSSIGFSRLPGDQSVmpENI...SGkyearrkESIP
 1299- 1345 (70.57/37.65)	IGSVIFQSDRER.RSTLYSQVS.KALSYSATVDEASI..SNIlvlSG.......FSIP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.00|      11|     172|     273|     283|       7
---------------------------------------------------------------------------
  273-  283 (23.64/12.78)	LGCPRPRSDRA
  446-  456 (22.36/11.66)	LGFKRPRDGRA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     143.82|      39|     172|    1685|    1742|       8
---------------------------------------------------------------------------
  230-  262 (42.31/11.24)	PGDLVKQvyfSKLKTSNF....IGLPNHVPQGSGSQL.......
  947-  969 (37.21/ 8.36)	................GFSCG....PSMVHAGCGGTLA.SCHSL
 1690- 1730 (64.30/59.34)	PGPLYGS...SHSKISGFMKGgLGQPSVRKQLMGSQLIdSSRSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      87.59|      28|     618|     738|     779|      11
---------------------------------------------------------------------------
  555-  582 (48.18/21.72)	VVDNPVGVMDVSD.....QLLLSEG.FASFESFI
  743-  776 (39.41/34.47)	VAQSPFPVLNSTNavkaaQRKMTEGtFESENSFL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      85.39|      28|     340|    1393|    1429|      12
---------------------------------------------------------------------------
 1393- 1429 (34.82/44.68)	AVQSSLssrsHSVLsQMSSPTPGTWkdcGGPRItGHS
 1743- 1770 (50.57/29.06)	AIDHSL....HLVI.QADTQSPGAQ...GGVGV.GSS
---------------------------------------------------------------------------




































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 MDP21207 with Med13 domain of Kingdom Viridiplantae
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