<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 MDP01162

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFRIGGLHHVSWFQFLPSEAELNPTSDTSSRAEQNDVATYLVLSSHLRLHKEGFLSTWTNSFVGPWDPSQGLYNPDEKIKLWLFLPGRHSSITDKAQAAVSKLRVVASGIWVAPGDSEEISVAFSQSLRNCIERALSGLSYMRFGDVFSKVSPQNEEYLRRGRLTVEFIFAATEEAVFVHVIVSAKNVRTLSSGDAERLSRSSLKNSSYRLPVIVSPHGMRGSLTGFCPNDLVKQVYFSSGNLRSSSGYIGLPPHAGSASRLINGDHCYVEVTLGCCQNINDNTSQTNSTFAVNVPQTSVGSKDHRKGHPDILSMCEKRFIYPAEAVLVPILQSAFAKFSLKRFWLQNWIGPSLAGSSLFMHWAGDFDFFGASGNKSDGFYEKNGYNSSGSSGNSSISSTSSASSGSGWRMTSRTGDLDADADSLTCKDDHPKLGSKRPRTGMAESFGQVGTANDQFGWDWDDDDDDDRGVGMDIQALLSEFGDFGDFFENDALPFGEPPGTAESHSLILPSDSADVGSSPMDMVDVSDQIVLPVGFSSFESFNPAPPIIDEGLIKSQEVINNSVTSASAPSNQMSSSSNSEFDHLMKAEAMMTFAPEYGAVEAPMSELSSTSFKSPYLPKSHKVESSNSRTSNYVYGPTPPATDSNGAADKILLGSKAYIGNNDGRTLYTKVEGRKDQYDKLPTLISDNNSKKKGVFQLKYSNYNAASAVKTVQGKKTDGISAVVSTLLSSKTLLATDVGSVMFQAFMYRMRHKAISSKHSSPVSLSGLSGNFFLNQVPNGPSSLTDNVSARNEIYKKEVPTRIAGDFDGGMLDSHMSAPVGVWRTVSVPKTAKPASSPNIEAGSSLPHSSFSENSLLSYGQKQPLQELLDGIALLVQQATSFVDLALDSDCGDGPYGWLALEELWRRELSCGPSAGHAGCGGTLASCHSLDIAGVKLVDPLSAEVFPSSVITLLQSDIKTALKSAFGQSDGPLYVTDWCKGRNQSMDGVSISEGSTAESVLSEVSNAIDGGKGEESAQSQDIYSSELLRPTLFVLPSPSILVGYQDDWLKVSTNSLPHWEKAPFEPYALPKNMNYTVVCPDIDPLTSAAVDFFQQLGTVYETCRLGTHLPTILGNQMETDAGRLSSSGFVLLDCPQSMKIESNNTSLLGSLSDYFLSLSNGWNVNSYLKSLSKALKGLKLGSGLYTNQKEGSASPCMVVYIVCPFPDPSAVLRTVVESSIALGSGIQPDRDRRSLLNSQVARAFGSSAAVDEASISHIPVLSGFSVPKLVLQVVSVDSIFRITSPSFNELVILKDTAFSVYNKARRISRGMPNDAFLSSSSLSSRSSSALASVNSISGIWKDCVSSRMTGSTHPRDGDIDGSIRTSSWDSSWQITRSGGLSCDSNRNGDFYINDAIFYLFEPLFILSEPGSVDRGVSPTFGGLGSESSKPIPEDGGRGSGLGVNSMEGTSSHGDASQVEGKAVPSLHCCYGWTEDWRWLVSIWTDARGELLDTHIFPFGGISSRQDTKGLQCLFVQVLQQGCQILQACSSPENGSFKPRDFVITRIGSFFELEYLEWQKAIYTAGGPEIKKWPIQLRRSAPSGVATNSNGPSLQQHDLSLIQERASSTSTLYGAHSKPSTFVKGGMGHSGGRKQTMGGQTISGTPRGLFQWVHSISFASISLDHSLHFVLPAELVSPGGGQSSTGMSSANYIEGFTPVKSLGSTAFAYMMIPSPNMRFLHPSPLQLPTCLTAESPPLAHLLHSKGCAIPLSTGFVVSKAVPSMRKDSRINVKEEWPSVLSVSLIDYYGGYDNAHDKVLQGIMKQGGGRTKETRDFEVESHLILESIAAELHALSWMTVSPAYLDRRTALPSHCDVVLRLSRLLHFADKERSRLPDKSGV
Length1885
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-0.234
Instability index46.07
Isoelectric point5.81
Molecular weight203487.87
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

>MDP01162
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     497.09|     132|     149|    1345|    1477|       1
---------------------------------------------------------------------------
 1204- 1275 (55.76/24.86)	.............................................................VVYIVCP...FPDPSAVLRTVVESSIALGS.....GIQPDRDRrsllnsqvarafGSSAAVD..EASISH..IPVLSGFSVPKL.....
 1345- 1477 (237.48/138.36)	IWKDCVSSRMTGSTHPRdGDIDGSIRTSSWDSSW.QITRSGG...LSCDSNRNGDFYINDAIFYLFEPLFILSEPGSVDRGVSPTFGGLGSESSK.PIPEDGGR............GSGLGVNSMEGTSSHGDASQVEGKAVPSLHCCYG
 1488- 1619 (203.85/114.26)	IWTDARGELLDTHIFPF.GGISSRQDTKGLQCLFvQVLQQGCqilQACSSPENGSFKPRDFVITRIGSFFEL.EYLEWQKAIY.TAG..GPEIKKwPIQLRRSA............PSGVATNSNGPSLQQHDLSLIQERA.SSTSTLYG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.56|      10|      16|     340|     349|       2
---------------------------------------------------------------------------
  340-  349 (19.61/10.84)	FAKFSLKRFW
  358-  367 (19.95/11.16)	LAGSSLFMHW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     143.55|      43|     149|     223|     312|       3
---------------------------------------------------------------------------
  267-  312 (68.41/21.26)	INGDHCYVEVTLGcCQNINDNTSQTNSTFAVNVPQTSVGskDHRKG
  774-  816 (75.14/22.98)	LSGNFFLNQVPNG.PSSLTDNVSARNEIYKKEVPTRIAG..DFDGG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.10|      16|     149|     172|     189|       4
---------------------------------------------------------------------------
  172-  189 (23.67/25.03)	FIFAAteEAVFVHVIVSA
  324-  339 (29.42/22.55)	FIYPA..EAVLVPILQSA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     184.26|      62|      74|     848|     920|       5
---------------------------------------------------------------------------
  843-  911 (94.62/67.63)	SPNIEAGSSLPHSSF.SENSLLSYGQK..QPLQ.ELL.DGIALLVQqatSFVDLALDSDCG..DGPygwLALEElW
  916-  984 (89.63/52.89)	SCGPSAGHAGCGGTLaSCHSLDIAGVKlvDPLSaEVFpSSVITLLQ...SDIKTALKSAFGqsDGP...LYVTD.W
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      37.83|      11|      16|     614|     624|       6
---------------------------------------------------------------------------
  614-  624 (21.57/14.04)	SSTSFKSPYL..P
  631-  643 (16.26/ 8.19)	SSNSRTSNYVygP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      97.30|      32|     516|     474|     538|       8
---------------------------------------------------------------------------
  424-  460 (42.95/56.06)	ADADSLTCKDDHPKLGSKrPrTGMAESFGQVGTandQ
  507-  538 (54.35/15.93)	AESHSLILPSDSADVGSS.P.MDMVDVSDQIVL...P
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     208.39|      65|     926|     199|     264|      11
---------------------------------------------------------------------------
  199-  264 (110.06/80.66)	DAERLSRSS..LKNSSYRLPVIVSPHGMRGSLT........GFCPNDLVKQVYFSSGNLRSSSGyIGLPPHAGSAS
 1126- 1200 (98.32/66.17)	DAGRLSSSGfvLLDCPQSMKIESNNTSLLGSLSdyflslsnGWNVNSYLKSLSKALKGLKLGSG.LYTNQKEGSAS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     166.92|      53|     175|    1620|    1677|      12
---------------------------------------------------------------------------
 1620- 1677 (88.50/64.49)	AHSKpstFVKGGMGHSGGR.KQTMGGQTISGTP.RGLFQWVHSISFASIS...LDHslHFVLP
 1799- 1856 (78.42/44.88)	AHDK...VLQGIMKQGGGRtKETRDFEVESHLIlESIAAELHALSWMTVSpayLDR..RTALP
---------------------------------------------------------------------------




































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 MDP01162 with Med13 domain of Kingdom Viridiplantae
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