<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 MDP00936

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKIGGLHQISWFQFLPNEFDPSSLSDKSVKVDARDAATSVVLSSHLQLQKEGFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFLPGNHSSVVEKAQPTVSKLRVLASGLWVAPGDSEEVAAALSQALRNCVERALKGFSFMRFGDVFSRYHPSSQSEELYRKGQPVVEFIFAATEEAIFVHAVISAKHIRALSSGDIEMTLKHSTDHFSNRLPVVISPHGMLGRLTGCCPSDLVKQVYFSSVKLKASNEVVGLPYHALHGSGCHLRGQNCYAEITLGGPIGGNDKILAQNSGLHKNLSRHNLTESMPETKVNQKGPLEPSRVFIYPAEAVLVPVMQTSLARSCLKSRFWLQNWIGPSLFASSFFMHRSTTRSLCCSFYFSSDCKADSKDGSRLESNSLRSQHGYHSSSSSNNSSISSISSSSSDSDYRTSGAGDLEADADSLTCRQSGLSSIDQSHDILKLGSKRVHSGMSESFNQAGAVINPSTSDYGSIEVNNSAIIGGSNHPVGWGWDDDDRGMGMDIQALLSEFGDFGDLFEDDVLPFGEPPGTAESQAVVISAQDCGDFGSSPSTSMMDVSDQMLLPVGFPSFESFHSPPAPVAMDDSLTQNQDLTKTVSVPGKVNCPPASTSGEFDHVVKAEALMTFAPEYGAVETPSVEVTSSIFRSPYLPKSRKTETENSCSNKYVYSATPPSPCVDDSDEKSGITVNMKICSGRQDKIAVPQSKKYYTHIDGGIHKSNGMSSTCDDGTAAHEPVTMSSSLGLNSLNAVKSVSSKGSDGSLRVESFVPSLKPMLATELECLMCQAFMCRIRHTLLSSRCHLPVGLNRLSAVNILNQPHVDSSILSDNLSSKSEVKKKETIPVRIAGDMDAVLLDGNLSAPVGVWRPVTKGAKSTTHPMELCPSIPQNSFVEENLLSYGLRQPLQELLDGLALLVQQATSFVDVALDSDCGDGVHGWLALQEQLRRGFSCGPSMVHAGCGGVLSSCHSVDIAGVELVDPLSVDVQPSFTISLLQSDIKAALKTAFGTLDGPLFVSDWCKGRSLSCEAGSMCDEFYAESTASASECQDSSNGARAEEASDRKSLQEACLSESEQQAGSKLRPTLAVVPFPAILVGYQDDWLKTSASSLQLWEKAPLEPYATQKHMTYHVVCPDIEPLTTAAADFFQQLGTVYETCNLGTHSPQNFGSEMDLDSGKSSCSGFVVLDCPQSMKIDSSSASILGSISDYFLSLSNGWDLASYLKSLSKVLKTLNLSSCMTTSTKEGNSGPYTVVYVVCPFPEPLAILRTVVESSIAVGSSVLSSDKEKRSMMHNQVGKALNHSAAVDETLSNVLTISGFSIPKLVLQIVTVDAIFRVTNPPLNELVVLKEIAFTVYNKARRVLRGSNCDVVPSSTSLSGRSHSVLMQMASPLTGMWKDCVGPRLAASSLQRESDLDASLRSSTWENSWQTRSGALGCDPNRGGDFLIQDESRCMFEPLFILADPGSLERGVTPPVFGNPASESSKVLADDGTSGSLMQSSASSGSGDTGPSSQHDSSESDGFGSGNQKTLPSLHCCYGWTEDWRWLVCIWTDSRGELLDSYIYPFGGISSRQDTKGLQSLFIQILQQGCQILQSCSADAGKPRDFVIARIGCFFELECQEWQKALYAIGGSEVKKWSLQLRRSVPDGMPTNSNGTSMQQQEMTLLQERTLPSSPSPLYSPHSKSSTFMKSGLGQPSNRKQLMGGVDSSRGLLQWVQSISFISLSVDHSLQLVFQADSLASGSTQSNGFLNQPSYLEGYTPVRSLGLTSASYVLIPSPSIRFLPPAPLQLPTCLTAESPPLAHLLHSKGSAIPLCTGFVVSKAVPSMRKDSRSISKEEWPSILSVSLVDYYGGNNMAQDKIVKGMGKLGGRGLSSEAREFELETHLVLESVAAELHALSWMTVSPAYLERRSALPFHCDMVLRLRRLLHFADKELSRQPEESPS
Length1961
PositionKinase
OrganismCoffea canephora (Robusta coffee)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> asterids> lamiids> Gentianales> Rubiaceae> Ixoroideae> Gardenieae complex> Bertiereae - Coffeeae clade> Coffeeae> Coffea.
Aromaticity0.07
Grand average of hydropathy-0.196
Instability index55.12
Isoelectric point5.55
Molecular weight211884.57
Publications
PubMed=25190796

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. 
ECO:0000256	RuleBase:RU364134
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

>MDP00936
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     218.67|      94|     252|      47|     161|       1
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   56-   99 (35.27/41.96)	..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................EGFLStwtnSFVGPWDP.SQGLHNPDEKIKLWLFLPGNhsSVVEK
  100-  158 (67.86/48.19)	AQPTVSKLRVLASGL.WVAPGDSEEVAAALSQALRNCVERALKGFSFMRFGdvFSrYHPS...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
  877-  915 (41.14/15.42)	............................................................sqseelyrkgqpvvefifaateeaifvhavisakhiralssgdiemtlkhstdhfsnrlpvvisphgmlgrltgccpsdlvkqvyfssvklkasnevvglpyhalhgsgchlrgqncyaeitlggpiggndkilaqnsglhknlsrhnltesmpetkvnqkgplepsrvfiypaeavlvpvmqtslarsclksrfwlqnwigpslfassffmhrsttrslccsfyfssdckadskdgsrlesnslrsqhgyhsssssnnssississsssdsdyrtsgagdleadadsltcrqsglssidqshdilklgskrvhsgmsesfnqagavinpstsdygsievnnsaiiggsnhpvgwgwddddrgmgmdiqallsefgdfgdlfeddvlpfgeppgtaesqavvisaqdcgdfgsspstsmmdvsdqmllpvgfpsfesfhsppapvamddsltqnqdltktvsvpgkvncppastsgefdhvvkaealmtfapeygavetpsvevtssifrspylpksrktetenscsnkyvysatppspcvddsdeksgitvnmkicsgrqdkiavpqskkyythidggihksngmsstcddgtaahepvtmssslglnslnavksvsskgsdgslrvesfvpslkpmlateleclmcqafmcrirhtllssrchlpvglnrlsavnilnqphvdssilsdnlssksevkkketipvriagdmdavllDGNLS....APVGVWRPvTKGAKSTTHPMELCPSIPQN..SFVEE
  919-  975 (74.39/38.05)	SYGLRQPLQELLDGLaLLVQQATSFVDVALDSDCGDGVHGWLALQEQLRRG..FS.CGPS...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     191.48|      48|     121|    1149|    1196|       2
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 1149- 1196 (86.15/58.60)	HVVCPDIEPLTTA..AADFFQQLGTVYETC.NLGT...HSPQNFGSEMDLDSGK
 1222- 1263 (47.62/28.35)	GSISDYFLSLSNGwdLASYLKSLSKVLKTL.NL......SSCMTTSTKE.....
 1273- 1316 (57.71/36.27)	YVVCPFPEPLAI..........LRTVVESSiAVGSsvlSSDKEKRSMMHNQVGK
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     590.16|     185|     756|     626|     827|       3
---------------------------------------------------------------------------
  626-  827 (295.26/146.47)	NCP..PAST..SGEfDHVVkaeaLMTFA.PEYGAVET...PSVeVTSSIFRSPYLPKSRKTET.ENSCSNKYVYSATPPSPCVD..DSDEKSGITVNMKIcsgrqdkIAVPQS.KKYYTHIDGGIHKSNGMSSTCDDGTAAHEpVTMSSSLGLNSLNAVKSVSSKGSDG.SLRVESFVPSLKPMLA.TE.LECLMCqaFMCRIRHTLLSSRCHlPVG
 1385- 1584 (294.90/118.16)	NCDvvPSSTslSGR.SHSV....LMQMAsPLTGMWKDcvgPRL.AASSLQRESDLDASLRSSTwENSWQTRSGALGCDPNRGGDflIQDESRCMFEPLFI.......LADPGSlERGVTPPVFGNPASESSKVLADDGTSGSL.MQSSASSGSGDTGPSSQHDSSESDGfGSGNQKTLPSLHCCYGwTEdWRWLVC..IWTDSRGELLDSYIY.PFG
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     302.01|      99|     631|     381|     506|       4
---------------------------------------------------------------------------
  381-  506 (139.26/117.83)	SFYFS...SDCKADSK......DGSRLESNSLRSQhgyhsssssnnsSISSISSSSSDSDYRTSGAGDLEADaDSltcrqSGLSSIDQSHDILKLGskrvHSGMSESFNQAGAVINPSTSdygsiEVNNSAIIGG
 1009- 1116 (162.75/84.24)	SFTISllqSDIKAALKtafgtlDGPLFVSDWCKGR............SLSCEAGSMCDEFYAESTASASECQ.DS.....SNGARAEEASDRKSLQ....EACLSESEQQAGSKLRPTLA.....VVPFPAILVG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.79|      23|     632|    1199|    1221|       8
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 1199- 1221 (44.32/21.58)	CSGFVVLDCPQSMKIDSSS......ASIL
 1832- 1860 (37.47/17.20)	CTGFVVSKAVPSMRKDSRSiskeewPSIL
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.92|      18|     816|     307|     324|       9
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  307-  324 (32.50/19.74)	LTESMPETKVNQKGPLEP
 1122- 1139 (31.42/18.81)	LKTSASSLQLWEKAPLEP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.19|      18|     816|      11|      43|      10
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   11-   28 (35.31/42.97)	LHQISWFQFLPNEFDPSS
 1912- 1929 (32.88/10.71)	LHALSWMTVSPAYLERRS
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.78|      11|      25|     571|     581|      11
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  571-  581 (20.36/12.70)	SSPSTSMMDVS
  598-  608 (21.43/13.91)	SPPAPVAMDDS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      37.52|      11|     623|     980|     992|      14
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  980-  992 (14.19/15.01)	GCgGVLSSChSVD
 1606- 1616 (23.33/11.43)	GC.QILQSC.SAD
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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 MDP00936 with Med13 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) LADDGTSGSLMQSSASSGSGDTGPSSQHDSSESDGFG
1505
1541










Molecular Recognition Features






MoRF SequenceStartStop




1) FGDFGDLFEDD
533
543