<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 MDP00784

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMRYGDVFSKYHPSQNEGLFRRQPTVEFVFAANEEAIFVHVVISAKHIRALSSGDIEKVLKHSTNHSGYRLPVIVSPHGMRGWLTGCCPNDLIKQVYFSGSGKIRTSNRFIGLPYHLSQGPGCLLRGQNCYVEVTLGCPISDTEKGLQSSSNSIRNLTKNHVVESPVVGRGDHKGSPDQISIHEKTFIYPAEAVVVPVLQTSFARSSLKRFWLQNWIGPSFPGSSFFMHCGGDLDSMEGSRIESNGTRIQHGYNSSSNSNSSSIGSISSSSSDSDQKMTTETGDLDADADSLSCRQSGLSSNDQLEIDGAKLGSKRPRSGMTEAYGQMGTMKNTSMQDAYKSDFGSLEVNNSTITGVANEQIGSHLDWDDDDRGMGINIQALLSEFGDFDDFFENDALPFGEPPGTAESQALMFSAPDCGEVVSSPIGVMDVADHMLLPVGFSSFESFNPPPTTSMDECISKSQDITLEALTSGPVNHTPLSSTGEFDHLIKAEALMSFAPEYGAVETRASESSSSIFRSPYRPQSRKVESSNSSPNNYTYGATPPSSPCFDGSDEKTSMPMNLKSGPARQDTKKYYTHVESGRDYRDRKFITHNGSLARSEIVSSSFSMVNSTNAIKSVQRKMAEATGSENFLLSMKTVLATEVECLMFQASMCKVRHILSSSSNPVPTSLSRLSSSTVLSELPGDGSTMTDNISSRYEMKKKESIPVRIAGDIDGGVLDSHLNAPVGVWRSVAVPKVAKPSNSPSIEVGPSLPFHSLNEERMLSYKHRQPLQELLDGMALLVQQATSFVDVALDADCGDGPYGWLALQEHWRRGFSCGPSMVHAGCGGTLASCHSLDIAGMPLVDPLSSDINASSVISLLHSEIRTALKSAFGNLDGPLSITDWCRGRSQSSDGGIACDGSFAESTLSECKDSSSTVTYSPAIATVSATADGAKADDTGQRRLSQEIESEQLPGSRRPTLFVLPSPALLVGYQDDWLKTSSSSLQLWEKAPFEPYASPKPITYCVICPDIDPLTSAAADFFQQLGTVYEMCKLGTHQPQSQGNQMEIDTGKLSSTGFVLLDCPQSMKIESSNTSLVGSISDYFLSLSNGWDLTSYLKSLSKAIKVLKIGPSLSTNPKEGNSGPCMVIYVVCPFPEPVAVLQTVIESSVAVGSTFLTSDRERRPILLNHVGKALSSSAVVDEASPSNILVLSGFNVPKLVLQIVTVDAIFRVTSPGLNELVILKETAFTVYNKARRISKGSSNDIQSSTMSGRSHSVMPQMTSIPAMWKDCVAPRLGGPALPREGDIDASLRPGTWDNSWQTRTGGLNYDPNRNGDYFLQDDIRYLFEPLFILSEPGSLENATAPAVFGNLTAESSKMLSDDSSGGFMQNASSAVSADTGSSSQLDGSEPDGFGGSYQKTLPSLHCCYGWTEDWRWLVCIWTDARGELLDSHIFPFGGISSRQDTKGLQCLFVQVLQQGCQILQACSSPDIGAIKPRDFVITRIGNFFELEYLEWQKAIYSVGGSEMKKWPLQLRRSIPDGMPGSSNGASLQQQEMSLMQERTLPSSPSPLYSPHSKGSGFMKGGLGQSSGRKQLIGGHTVVDNSRGMLQWVQSISFVAISIDHSLHLVFQADSQSPAGAQGGIGVGASGYLEGFTPVKSLGSTSASYIVIPSPSLRFLPPTPLQLPTCLTAESPPLAHLLHSKGSAIPLATGFVVSKAVPSMGKDYRSNSREEWPSVLSVSLIDYYGGNSITQEKIPRGIMKQGRISSEVRDFEIEIHLILESISAELHALSWMTVSPAYLDRRTALPFHCDMVLRLRRLLHFADKELSSQPDKSQM
Length1818
PositionKinase
OrganismJatropha curcas (Barbados nut)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> fabids> Malpighiales> Euphorbiaceae> Crotonoideae> Jatropheae> Jatropha.
Aromaticity0.07
Grand average of hydropathy-0.258
Instability index55.58
Isoelectric point5.54
Molecular weight196683.09
Publications
PubMed=24837971

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

>MDP00784
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     185.70|      68|     122|     945|    1013|       1
---------------------------------------------------------------------------
  945-  989 (66.07/31.85)	............................................................................SQEI...........................................................................................................................................................................................................................................................ES..EQLPGSRRPTLFVLPSPALLVGYQDDWLKTSSSSLQLWE
  990- 1013 (19.34/ 8.58)	KAPFEPYASPKPITYcVICPDIDP..............................................................................................................................................................................................................................................................................................................................................................
 1066- 1108 (46.30/19.97)	........................ltsaaadffqqlgtvyemcklgthqpqsqgnqmeidtgklsstgfvlldcpqSMKI...........................................................................................................................................................................................................................................................ESsnTSLVGSISDYFLSLSNGWDLTSY....LKSLSKAIKVLK
 1115- 1137 (25.14/ 7.50)	TNPKEGNSGPCMVIY.VVCPFPEP..............................................................................................................................................................................................................................................................................................................................................................
 1389- 1414 (28.86/ 9.50)	................................................................................vavlqtviessvavgstfltsdrerrpillnhvgkalsssavvdeaspsnilvlsgfnvpklvlqivtvdaifrvtspglnelvilketaftvynkarriskgssndiqsstmsgrshsvmpqmtsipamwkdcvaprlggpalpregdidaslrpgtwdnswqtrtgglnydpnrngdyflqddirylfeplfilsepgslenatapavfgnltaesskmlsddssggfmqnassavsadtgsssqldgsEP..DGFGGSYQKT...LPSLHCCYGWTEDW............
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     177.14|      56|     124|    1539|    1598|       2
---------------------------------------------------------------------------
 1539- 1598 (92.76/65.11)	MQERTLPSSPSPLYSP..HSKGSGF.MKGGLGQSSGRKQLigGHTVVDNSRgmLQW..VQSISFV
 1664- 1724 (84.38/47.63)	LQLPTCLTAESPPLAHllHSKGSAIpLATGFVVSKAVPSM..GKDYRSNSR..EEWpsVLSVSLI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     191.41|      48|      49|     231|     279|       3
---------------------------------------------------------------------------
  231-  279 (77.19/46.36)	GDLDSMEgSRIESNGTRIQHGYNSSSNS...NSSSIGSISSSSSDSDQKMTT
  282-  322 (66.89/35.40)	GDLD....ADADSLSCR.QSGL..SSN....DQLEIDGAKLGSKRPRSGMTE
  325-  363 (47.33/22.72)	GQMGTMK.......NTSMQDAYKSDFGSlevNNSTITGVANEQIGS......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     315.05|     103|     443|     731|     855|       4
---------------------------------------------------------------------------
  731-  841 (171.47/100.35)	RSVAVPKVAKPSNSPSI..EVGPS..LPFHSLNEERM.LS.......YKHRQP.LQElldgmaLLVQQATSFVDVALDADCGDGPYGWLALQEHWRRGFSCGPSMvhAGCGGTLASCHSLDIAG
 1163- 1278 (143.58/69.52)	RPILLNHVGKALSSSAVvdEASPSniLVLSGFNVPKLvLQivtvdaiFRVTSPgLNE......LVILKETAFTVYNKARRISKGSSNDIQSSTMSGRSHSVMPQM..TSIPAMWKDCVAPRLGG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      94.95|      28|      49|      85|     113|       6
---------------------------------------------------------------------------
   85-  113 (49.01/33.08)	GCCPNDLIKQVYfSGSGKIR..TSNRFIGLP
  136-  165 (45.94/25.89)	GCPISDTEKGLQ.SSSNSIRnlTKNHVVESP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     179.60|      45|     539|     470|     524|       8
---------------------------------------------------------------------------
  382-  425 (57.85/30.54)	LSEFGDFDDFFENDAL.PF....GEPPGTAESQA......................lmfsapDCGEVVSSP
  426-  479 (64.99/35.39)	IGVMDVADHMLLPVGFSSFesfnPPPTTSMDECISKSQD...........itleaL......TSGPVNHTP
  480-  539 (56.76/46.57)	LSSTGEFDHLIKAEALMSF....APEYGAVETRASESSSsifrspyrpqsrkvesS......NSSPNNYT.
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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 MDP00784 with Med13 domain of Kingdom Viridiplantae
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