<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 MDP27145

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKIGGLHHISWFQFLPHESDLNPPNDKSVKVEQKDPATLVVLSTHLQLQREGFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFLPGRHSSVAEAAQVAVSRLRVVASGFWLAPGDSEEVAAALSQALRNCIERALIGLNYMRFGDVFSKYHPFSQSEELFRRGQPTIEFIFAATEEAIFVHVIISAKHVRALASGDMEMVLKHSSNKYSESLPVIVSPHGMLGRFTGCCPSDLVKQVYFSKFKTSNGFIGLPYHLSQGSGCQLRGQNCYVEVTLGCPSAGTDKMLQSNSNSIRNFPKYHVADPHAMGKGAQKGLPDHVSERTFIYPAEAVLVPVLQTSFSRSSLKRFWLQNWIGPSLSGSSFFTHWAGKTDSLDESWIDSNGTRTQHSYNSSSNSNDSSISSITSSSSDSDVKMTTGAGDPEADADSLTCRQSGLSSNDQLENDCHKLGSKRPRTGISESFGQVGTVNNAPMQDAYRSGYGSVEVNNSAITGVASEQISHWDWDDDDRGAVMDIQALLSEFGDFGDFFENDALPFGEPPGTAESHALIFPAPDCEGSSPCTGMMDVSDQMLLSVGFQSFDNFNPSPPVAMEECLTKNQEVTNNTLSSGPLNYTPASSIGEFDHLIKAEALLTFAPEYGAVETPTSESSSSIFRSPYLPKSRKVESSNSSAKDYVYGATPPSSPCFDGSDEKPGMPVNSKTCPVRHEASSILHSKKYYTHVEGGKEQHEKRSFTCDNSIASGEGLTPSSFSGFNSTNATKPVQRKTTEGTIGMEHLVLPMKTVLATEVECIMFQASMCKIRHTLLSSSSPPSIGLSRLTGSTVLNSLPGEPSTMTENISGKYEVKKKESIPVRIAGDFDGGMLDGPLNATVGVWRTVGVAKGAKPTNSPGVEVSSSLPHNSFNEEGMLSYGQRQPLQELLDGMAIIVQQATSFVDEALDADCGDGPYGWLALQEQWRRGFSCGPSMVHAGCGGILASCHSLDIAGMELVDPLSADVNASSVFTLIQSDIKNALKSAFGILDGPLSATDWCKGRSQSGDVGTTGDGFSAEHGVNEGRDSSSTVTIGEPISPSQSSAGGSSCIKVSSVTDGARVDDTCRRRPNQEFSSSESEQQLGSRLRPTLFVLPLPAILVGYQDDWLKTSANSLQLWEKAPLEPYALQKPMAYYVICPDIDPLTSAAADFFQQLGTVYETCKLGTHTPQSLGNQMEVDSGKLSSSGFVLLDCPQSMKIESSNSSLLGSISDFFLSLSNGWDLTGFLKSLSKVLKTLKLGSCLATNPKEGISGPCTVIYVVCPFPEPIALLRTVIETSVAVGSVILSSDKERRSILQSQVGKALSCPAAVDEASMSNILTLSGFSIPKLVIQIVTVDAIFRVTSPALNELAILKETAFTVYNKARRISRGSSSDIQSSSLSGRSHSAMMQMASPTSGMWKDCVGPRITGPSLSREGELDAGLRSGTWDNSWQTARTGGLSCDPNRNGDFLFQDEVRYMFEPLFILAEPGSLEHGVSATAFGNLGSESLKTLSDDGSGGFMQSASSAGSIDTGPGSQLDGSESDGFGSGHQKNLPSLHCCYGWTEDWRWLVCIWTDSRGELLDSHIFPFGGISSRQDTKGLQCLFVQILQQGSQILQACSSPDTGIVKPRDLVITRIGSFYELECQEWQKAIYSVGGSEVRKWPLQLRQAAPDGMSGSSNGSSLQQQEMSMIQERNLPSSPSPLYSPHSKASGYMKGGLGQPAARKQLMGGGHSLVDSSRGLLQWVQSITFVAVSIDHSLSLVFQADSSTPGATQGGGTMGPSGYLEGFTPIKSLGSTTASYILIPSPSLRFLPPTPLQLPTCLTAESPPLAHLLHSKGSAIPLSTGFVISKAVPAMRKEFRSNAKEEWPSVISVSLIDYYGGNNITQDKVVRGLTKQGGRSISSEARDFEIETHLILETVAAELHALSWMTVSPAYLERRTALPFHCDMVLRLRRLLHFADKELSRTPEKSQV
Length1987
PositionKinase
OrganismVitis vinifera (Grape)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> Vitales> Vitaceae> Viteae> Vitis.
Aromaticity0.08
Grand average of hydropathy-0.244
Instability index52.31
Isoelectric point5.49
Molecular weight214190.32
Publications
PubMed=17721507

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

>MDP27145
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     519.43|     174|     203|    1170|    1371|       1
---------------------------------------------------------------------------
 1170- 1363 (271.77/158.94)	VICPDIDPLTSAAADFFqqlgTVYETCKlgthtPQSLGNQMEVDSGKLSS...SGFVLLDCPQS.MKIESSNSSLLG.SIS...DFFLSLSNG.WDltgflkslsKVLKTLKLG..SClATNPKEGISGPCTVIYVVCP...FPEPIALLRTVIETSVA.VGSVILS..SDKERRSILQ..SQVGKALSCPAAVDEASMSNILTlSGF..SIPKL
 1376- 1570 (247.66/107.37)	VTSPALNELAILKETAF....TVYNKAR.....RISRGSSSDIQSSSLSGrshSAMMQMASPTSgMWKDCVGPRITGpSLSregELDAGLRSGtWD.........NSWQTARTGglSC.DPNRNGDFLFQDEVRYMFEPlfiLAEPGSLEHGVSATAFGnLGSESLKtlSDDGSGGFMQsaSSAGSIDTGPGSQLDGSESDGFG.SGHqkNLPSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     241.11|      81|     154|     865|     950|       2
---------------------------------------------------------------------------
  865-  950 (123.83/79.50)	GM.................................LDGPLNATvgVWRTVGVAKGAKPTNSPGVEVSSSLpHNSFNEEGMLSYGQR.QPLQELLDGMAIIvQqATSFVDEA.LDADCGDGP
  989- 1104 (117.27/59.55)	GMelvdplsadvnassvftliqsdiknalksafgiLDGPLSAT..DWCKGRSQSGDVGTTGDGFSAEHGV.NEGRDSSSTVTIGEPiSPSQSSAGGSSCI.K.VSSVTDGArVDDTCRRRP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     272.22|      93|    1025|     754|     864|       3
---------------------------------------------------------------------------
  635-  735 (142.25/84.03)	LLTFAPEYGA..VETPTSESSSSIfRSPYLP.KS...RKVES..SNSSAKDYVYGATPPSSPCFDGSDEKPGMPV.NSktCPvrHEASSILH..SKKYYTHvegGKEQHEKR
  754-  857 (129.97/122.58)	FSGFNSTNATkpVQRKTTEGTIGM.EHLVLPmKTvlaTEVECimFQASMCKIRHTLLSSSSPPSIGLSRLTGSTVlNS..LP..GEPSTMTEniSGKYEVK...KKESIPVR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     390.24|     122|    1237|     483|     615|       4
---------------------------------------------------------------------------
  483-  615 (195.68/140.70)	SGYGSVEVNNSAitgvASEQI...SHwDWDDDDRGAVMDIQAL....LSEFGDFGDFFENDAlpfgEPPGTAESHALIFPAPDCEGSSPCTGMMDVSDQMLLsVGFQSFdNFNPSPPVAMEECLTKNQEVTNNTL.SSG...PL
 1725- 1857 (194.56/110.75)	SGYMKGGLGQPA....ARKQLmggGH.SLVDSSRGLLQWVQSItfvaVSIDHSLSLVFQADS....STPGATQGGGTMGPSGYLEGFTPIKSLGSTTASYIL.IPSPSL.RFLPPTPLQLPTCLTAESPPLAHLLhSKGsaiPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     107.66|      33|      46|     234|     279|       5
---------------------------------------------------------------------------
  234-  270 (54.75/59.71)	CPSDLVKQVYFSkfkTSNGFIGLP.YHL....SQGSGCQlRG
  281-  318 (52.92/26.36)	CPSAGTDKMLQS...NSNSIRNFPkYHVadphAMGKGAQ.KG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     176.92|      35|     647|     951|     986|       8
---------------------------------------------------------------------------
  951-  986 (64.18/36.53)	YGWLAlQEQWRRGFSCGPSMVHAGCGGILASCHSLD
 1574- 1601 (54.64/26.91)	YGW...TEDWRW.LVC....IWTDSRGELLDSHIFP
 1602- 1636 (58.09/29.06)	FGGIS.SRQDTKGLQCLFVQILQQGSQILQACSSPD
---------------------------------------------------------------------------




































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 MDP27145 with Med13 domain of Kingdom Viridiplantae


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) DESWIDSNGTRTQHSYNSSSNSNDSSISSITSSSSDSDVKMTTGAGDPEADADSLTCRQSGLS
2) DQLENDCHKLGSKRPRTGISESFGQVGTVNNAPMQDAYRSGYG
3) GMSGSSNGSSLQQQEMSMIQERNLPSSPSPLYSPHSKA
4) GTTGDGFSAEHGVNEGRDSSSTVTIGEPIS
379
444
1687
1044
441
486
1724
1073










Molecular Recognition Features






MoRF SequenceStartStop




1) KDYVY
676
680