<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.
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

>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

Intrinsically Disordered Regions

IDR SequenceStartStop
1) ADADSLTCNDDHPKLGSKRPRTGMAESFGQ
2) ALPFGEPPGTAESHSLILPSDSADVGSSPMDTM
3) GGLGSESSKPIPEDGGRGSGLGVNSMEGTSSQGDAS
424
497
1425
453
529
1460

Molecular Recognition Features

MoRF SequenceStartStop
1) MDIQALLSEFGDFGDFFEND
477
496