<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 MDP01143

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFRIGGLHHVSWFQFLPSEAELNPTSDTSSRAEQNDVATYLVLSSHLRLQKEGFLSTWTNSFVGPWDPSQGLYNPDEKIKLWLFLPGRHSSITDKAQAAVSKLRVVASGIWVAPGDSEEISVAFSQSLRNCIERALSGLSYMRFGDVFSKVSPQNEEYLRRGRLTVEFVFAATEEAVFVHVIVSAKNVRTLSSGDAERLSRSSLKNSSYRLPVIVSPHGMRGSLTGFCPNDLVKQVYFSSGNLRSSSGYIGLPPHAGSGSRLINGDHCYVEVTLGCCQNINDNTSQTNSTFAVNVPQTSVGSKDHRKGHPDIASMCEKKFIYPAEAVLVPILQSAFAKFSLKRFWLQNWIGPSLAGSSLFMHWAGDFDFFGSSGNKSDGFFEKNGYNSSGSSGNSSISSTSSASSGSGWRMTSRTGDLDADADSLTCNDDHPKLGSKRPRTGMAESFGQVGTANDQFGWDWDDDDDDDRGVGMDIQALLSEFGDFGDFFENDALPFGEPPGTAESHSLILPSDSADVGSSPMDTMDVSDQIVLPVGFSSFESFNPAPPIIDEGLIKSQEVLNNSVTSVSAPSNQMLSSSNSEFDHLMKAEAMMTFAPEYGAVEAPMSEISSTSFKSPYLPKSHKVESSNSRTSSYVYGPTPPATDSDGAVDKILLGSKAYIGNDGRTLYTKVEGRKGRYDKLPTLISDNNSKKEGVSQLKYSNYNASSAVKIVQGKKTDGISAVVSTLLSSKTLLATDVGSVMFQAFMYRMRHKAISSKHSSPVSLSRLSGNFFLNQVPNEPSSLTDNVSGRNEIYKKEVPTRIAGDFDGGMLDSHMSAPVGVWRTVSVPKTAKPASSPNIEAGSSLPHSSFSENSLLSYGQRQPLQELLDGIALLVQQATSFVDLALDSDCGDGPYGWLALEELWRRELSCGPSAGHAGCGGTLASCHSLDIAGVKLVDPLSAEVFPSSVITLLQSDIKTALKSAFGQSDGPLYVTDWCKGRNQSMDGVSISEGSTAESVLSEVSNAIDGGKGEESAQSQDIYSSELLRPTLFVLPSPSILVGYQDDWLKVSTNSLPHWEKAPFEPYALPKNMNYTVVCPDIDPLTSAAVDFFQQLGTVYETCRLGTHLPQILGNQMETDAGRLSSSGFVLLDCPQSMKIESNNTSLLGSLSDYFLSLSNGWNVNSYLKSLSKALKGLKLGSGLYTNQKEGSATPCMVVYIVCPFPDPSAVLRTVVESSIALGSGIKPDRDRRSLLNSQVARAFGSSAAVDEASISHIPVLSGFSVPKLVLQVVSVDSIFRITSPSFNELVILKDTAFSVYNKARRISRGMPNDAFLSSSLSNRSSSALASVNSISGIWKDCVSSRMTGSTHPRDGDIDGSIRTSSWDSSWQITRSGGVSCDSNRNGDFYINEEIFYLFEPLFILSEPGSVDRGVSPTFGGLGSESSKPIPEDGGRGSGLGVNSMEGTSSQGDASQVEGKAVPSLHCCYGWTEDWRWLVSIWTDARGELLDTHIFPFGGISSRQDTKGLQCLFVQVLQQGCQILQACSSPDSGSFKPRDFVITRIGSFFELEYLEWQKAIYTAGGPEIKKWPIQLRRSAPSGVATNSNGPSLQQHDLSLIQERASSTSTLYGSHSKPSTFVKGGMGHSAGRKQTMGGQTISGTPRGLFQWVHSISFASISLDHSLHFVLPAELVSPGGGQSSTGMSAANYIEGFTPVKSLGSTAFSYMMIPSPNMRFLHPSPLQLPTCLTAESPPLAHLLHSKGCAIPLSTGFVVSKAVPSMRKDSRINVKEEWPSVLSVSLIDYYGGYDNAHDKVLQGIMKQGGGGTKETRDFEVESHLILESIAAELHALSWMTVSPAYLDRRTALPSHCDVVLRLSRLLHFADKERSRLPDKSGV
Length1883
PositionKinase
OrganismBrassica napus (Rape)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> malvids> Brassicales> Brassicaceae> Brassiceae> Brassica.
Aromaticity0.08
Grand average of hydropathy-0.236
Instability index45.98
Isoelectric point5.69
Molecular weight203354.67
Publications
PubMed=25146293

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	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

>MDP01143
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     390.63|     120|     149|     157|     305|       1
---------------------------------------------------------------------------
  164-  293 (192.96/132.76)	RRGRLTV......EFVFAAteEAVFVHVIVSAKNVRTLSSGDAERLSRSSLKNSSYRLPVI..VSPHGMRGSLT.GFcpndLVKQVYFSSGNLRSSSGYIGLPPHAGSGSRLIN..GDHCYVEVTLGCcqniNDNTSQTNS
  310-  440 (197.67/88.24)	RKGHPDIasmcekKFIYPA..EAVLVPILQSAFAKFSLKRFWLQNWIGPSLAGSSLFMHWAgdFDFFGSSGNKSdGF....FEKNGYNSSGSSGNSSISSTSSASSGSGWRMTSrtGDLDADADSLTC....NDDHPKLGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     421.07|     127|     149|    1343|    1475|       2
---------------------------------------------------------------------------
 1343- 1475 (209.97/114.54)	IWKDCVSSRMTGSTHPRdGDIDGSIRTSSWDSSW.QITRSGG...VSCDSNRNGDFYINEEIFYLFEPLFILsEPGSVDRGVSpTFGglGSESSK.PIPEDGGRGSGLGVNSMEGTSSQGDASQVEGKAvPSLHCCYG
 1486- 1617 (211.09/98.16)	IWTDARGELLDTHIFPF.GGISSRQDTKGLQCLFvQVLQQGCqilQACSSPDSGSFKPRDFVITRIGSFFEL.EYLEWQKAIY.TAG..GPEIKKwPIQLRRSAPSGVATNSNGPSLQQHDLSLIQERA.SSTSTLYG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     117.58|      35|     149|     668|     744|       3
---------------------------------------------------------------------------
  632-  666 (61.73/78.91)	SNSRTSSYVYGPTPPATDSDGAVDKILLGSKAYIG
  706-  740 (55.85/22.10)	SNYNASSAVKIVQGKKTDGISAVVSTLLSSKTLLA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.97|      15|      74|     886|     900|       4
---------------------------------------------------------------------------
  886-  900 (29.75/17.93)	SFVDLALDSDCG..DGP
  961-  977 (23.22/12.17)	SDIKTALKSAFGqsDGP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     113.53|      35|     439|     807|     857|       6
---------------------------------------------------------------------------
  822-  857 (56.46/31.19)	SAPVGVWRTVSVPKTAKpASSPNIEAGSSLPHSSFS
 1270- 1304 (57.08/45.69)	SVPKLVLQVVSVDSIFR.ITSPSFNELVILKDTAFS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.37|      25|     198|     791|     815|       8
---------------------------------------------------------------------------
  791-  815 (42.72/28.07)	DNVSGRNEIYKKEVPTRIAGDFDGG
  992- 1016 (37.65/23.70)	DGVSISEGSTAESVLSEVSNAIDGG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.22|      20|      23|     496|     515|      10
---------------------------------------------------------------------------
  496-  515 (37.16/19.20)	DALPFGEPP.GTAE.SHSLILP
  517-  538 (27.06/11.90)	DSADVGSSPmDTMDvSDQIVLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.37|      19|     122|    1070|    1089|      11
---------------------------------------------------------------------------
 1070- 1089 (35.13/29.70)	EPYALPKNMNYtVVCPDIDP
 1195- 1213 (40.23/28.79)	EGSATPCMVVY.IVCPFPDP
---------------------------------------------------------------------------




































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 MDP01143 with Med13 domain of Kingdom Viridiplantae
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