<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 MDP02106

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMKRPRSGMPDALDQMGTGAQIQDAFKSDFTSTELIGSPWDWEDDDRGGDDIEDLLLHFGGFGDFFENDVLPFGEPPGTTESQSLMFSAPDYTDVGSSPVVVMDVSDQMLLPVGFPSFDSFNPAVPMTTEEVLSKDHEVTNNALSSVTANQTPVSSSGEFDQITKAEALMTLAPEYGAVETPTSEFSSSMFRSPYIPKTRELESSNLSTNSYIYGATPPSSPHFDRSDEKSGISSNTKPSNVLRAKNYYIHVDNVKEKHIRKSAPSKNSISTSDGLASSLSNHNAVKTTQRKTTEDSVEADCLFMSQKHVLAMEVECLMFQASMCRLRHTLQSSGSSTVSGTTQLSSDPSTITDYMANEVKKKDTSVPIRIAGEADGGILDGHLNAPVGVWRSVGVPKVPKPSNSPSMELGSSLPHNSFHEDGVLSYGQRQPLQELLDAFPLIVQQATSFVDLALDAECGDGPYGWLALQEQWRRGFSCGPSMVHAGCGGTLASCHALDIAGVELVDPLTADVYAPSVMSLLQSDMKTALKSAFGTLDGPLSVIDWCKGRGQLGDSGSTGDGLSAESIVNESKDSSSTVMQNIGEPLSPSHSSASGSSSLKGSTTMDGSKMDETSQRRSNQEICSSGSDQQLLPLRLRPTVLLLPSPAILVGYQDDWLKTSANSLQLWEKAPLEPYAVQKPINYCVICPDIDPLASAAADFFQQLGTVYETCKLGTHTPHNLGNQMDTESGKWLSSGFVLLDCPQSMKIDSSSASIVGSISDYLLSLSNGWDLTSYLRSLSKALKALKLSPSMSANPKEGSNGSCMVLYVICPFPDPLEVLQTVVESSVAVGSVMLQSDRDRRTILCSQVAKSLSCSAAVDESSASNVLVLQGFTLPKLVLQIVTVDVIFRVSSPSVNELVILKETAFTIYNKARRISRGTSNDAAQSSSLSSRSHSVLSSMSPSIPGMWKDCVGPRMTGHSLPREGEIDGTLRSGNWDNSWQSRAGTLNCDPNRIGEYYLQDDSCYMFEPLFILAEPGSLEHGVSPINPVTLGTESSKPLSDDNSGAFLQGTNSTVGMDMGSNSQLDGPEMDGFGCGHQKNPSLHCSYGWTEDWRWLVCIWTDSRGELLDSHTFPFGGISSRQDTKGLECIFVQVLQQGCMILQSCSPDTGVSKPRDLVIARIGMFYELEYLEWQKAIYSLWGSEVKKWPLQLRRCMPDGISSSTNGSSLQQQEMSLIHDRNLPSSPNPLYSPHSKTTGFMKAGIGQPAIRKQLMGGHAVVDNSRGLIQWVHSISFVAVSMEHSLQLLLQADSASPGFAAVTFLSTNLKSLTGGNQGSVHTGSSMYIEGFTPVKSLGSTSSSYILIPSPSLRFLPSNPLQLPTCLTAESPPLAHLLHSKGSAVPLSTGFAISRAVPSMRKDSRSNMKEEWPSVLSVSLIDYYGNNITQEKNVRGVIKQVGRSSTVESRDFEIETHLILESIIAELHALSWMTVSPAYLDRRTALPFHCDMVLRLRRILHFADTELSRRAEKTKR
Length1514
PositionKinase
OrganismCucumis sativus (Cucumber)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> fabids> Cucurbitales> Cucurbitaceae> Benincaseae> Cucumis.
Aromaticity0.07
Grand average of hydropathy-0.252
Instability index56.68
Isoelectric point5.23
Molecular weight164064.93
Publications
PubMed=19881527
PubMed=19495411
PubMed=20565788
PubMed=22047402

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	IBA:GO_Central
GO - Biological Function
transcription coregulator activity	GO:0003712	IBA:GO_Central
GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central

Interaction

Binary Interactions











Repeat regions





Repeats

>MDP02106
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     746.07|     186|     254|     333|     530|       1
---------------------------------------------------------------------------
  333-  518 (320.06/173.58)	SGSSTVSGTTQLSSDPSTIT..DYMANEVKKKDTSVPI..RIAGEA..DGGILDGHLNAPVGVWR..............................S....VGVPK......................VPKPSN....SPSME.....................LGSSLPHNSFH....EDG.VLSYG....QRQPLQELLDAFP.....LIVQQATS..FVDLALDAECGD.........................................GPYGWLALQEQWRRGFSCG....PSMVHAGCGGT....LASCHALDIAGVELVDPLTA..DVYAPSVM
  589-  829 (231.92/121.98)	SHSS.ASGSSSLKGS.TTMD..GSKMDETSQRRSNQEI..CSSG.S..DQQLLPLRLRPTVLLLP..............................SpailVGYQDdwlktsanslqlwekaplepyaVQKPINycviCPDIDplasaaadffqqlgtvyetckLGTHTPHNLGNqmdtESGkWLSSG.fvlLDCPQSMKIDSSS.....ASI..VGS..ISDYLLSLSNGW.........................................DLTSYLRSLSKALKALKLS....PSMSANPKEGS....NGSCMVLYVI.CPFPDPLEVlqTVVESSVA
  850- 1113 (194.09/106.71)	AKSLSCSAAVDESSASNVLVlqGFTLPKLVLQIVTVDVifRVSSPSvnELVILK...ETAFTIYNkarrisrgtsndaaqssslssrshsvlssmS....PSIPG......................MWKDCV....GPRM......................TGHSLPREG.E....IDG.TLRSGnwdnSWQSRAGTLNCDPnrigeYYLQDDSCymFEPLFILAEPGSlehgvspinpvtlgtesskplsddnsgaflqgtnstvgmdmGSNSQLDGPEM..DGFGCGhqknPSL.HCSYGWTedwrWLVCIWTDSRG.ELLDSHT...........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.91|      24|     513|     918|     941|       2
---------------------------------------------------------------------------
  918-  941 (40.13/24.78)	RGTSNDAAQSSSLSSR.....SHSVLSSM
 1433- 1461 (33.77/19.59)	RGVIKQVGRSSTVESRdfeieTHLILESI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     290.43|      95|    1114|     187|     291|       3
---------------------------------------------------------------------------
  187-  291 (147.12/88.31)	SSMFRSPYIPktreLESSNLSTNSYIYGATP.....PSSPhfdrSDEKSGISSNTKP.SNVLRAKNYYIHVDNvkEKHIRKSAPS..KNSIST.....SDGLASSLSNHNAVKTTQRK
 1323- 1430 (143.31/68.14)	SSMYIEGFTP....VKSLGSTSSSYILIPSPslrflPSNP....LQLPTCLTAESPPlAHLLHSKGSAVPLST..GFAISRAVPSmrKDSRSNmkeewPSVLSVSLIDYYGNNITQEK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     176.99|      54|     648|     524|     586|       4
---------------------------------------------------------------------------
  524-  562 (58.63/25.47)	........................................DMKTAL.KSAF.GT..LDGPLSVIDWCKGRGQLGDSGSTGDGL
 1147- 1210 (72.04/43.09)	SPD..TGVSKPRD...LviarigmfyelEYL.........EWQKAI.YSLW.GSevKKWPLQ.LRRCMPDGI..SSSTNGSSL
 1211- 1275 (46.32/27.04)	QQQemSLIHDRNLpssP...........NPLysphskttgFMKAGIgQPAIrKQ..LMGGHAVVDNSRGLIQWVHSIS.....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      87.42|      25|      81|      73|      98|       7
---------------------------------------------------------------------------
   73-   98 (42.77/33.83)	GEPPGTTESQSLMFSAPDYTDVgSSP
  157-  181 (44.64/29.77)	GEFDQITKAEALMTLAPEYGAV.ETP
---------------------------------------------------------------------------




































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 MDP02106 with Med13 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) DSSSTVMQNIGEPLSPSHSSASGSSSLKGSTTMDGSKMDETSQRRSNQEICS
2) IRKSAPSKNSISTSDGLASSLSNHNAVKTTQRKT
3) LSTNSYIYGATPPSSPHFDRSDEKSGISSNTK
4) TEEVLSKDHEVTNNALSSVTANQTPVSSSGEFD
573
259
206
128
624
292
237
160










Molecular Recognition Features






MoRF SequenceStartStop




1) GDDIEDLLLHFGGFGDFFENDVL
2) TELIGSPWDWED
48
32
70
43