<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 MDP12598

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKIGGLHQISWFQFLPHESDVSSLVDKSVKLDKKDAATWLVLSSHLQLQKEGFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFLPGQHSSVVEKAQSAVSKLRVLASGLWVAPGDSEEVAAALSQALRNCMERKLRGLSYVRYGDVFTRHHPFSQNEELFRKGQPVVEFIFSATEEAIFVHVIISAKHIRALSSGDIDKISEDTSNVSGERLPVIVSPHGMRGRLTGCCPADLVKQVYLSSCKFSASNGIVGLPCNVSRSGYQLKGQNCYVEVSLGCTTPGNNNIKESSRMLIYPPEAILVPVVQTACARSSLKRFWLQNWIGPSLSFTSSFMHCFDFNSDAKVNSTDGSWLDANITRSNRHYNSSSNSNSSSVSSVSTSSSDSDYKISGAGDLEADADSLMCRPSGLSSVDQSQNDNLKAGFKRSRTGISESFSQAGAVINPSTSDYASMEVNNSAITGGNDQTGLQWGWDDDDRGVGMDIQALLSEFGDFGDFFENDVLPFGEPPGTAESQALMFPAADSADVGSSPCPSMMDVQDQMLLPVGFPSFDSFNQPPPPASLDDSLGKQQEVIKSTAVTNQVNNASAAIAGEFDHLIKAEALMTFAPEYGAVETPTGEKPHSIFRNPYLPKSREVDTSNSSSNSYVYSATPPLSPCFDACEEKSGVTVNLKTGAGKRDTSSIIQSKRYYTHIESGKQKNDGKLCGSDHSCATREAQVAQSPFYGFNSTNSVKSIHNKTQKANEVLLKADSFGQSMKTVLATEVECLMCQAFMCKIRHTLLSSSSYLPVGASRMSGSTIINQPQGEAVVTVDNLSSKSEMKKKEIIPVRIAGDIDGGLLDGTLNAPVGVWRSVGVSKGMKQPSSALEACHSVQHNSFIEESMLAYGLRQPLQELLDGMALLVQQATSLVDVALDADNNDGPYGWLALQEQWRRGFSCGPSMVHAGCGGVLASCHSLDIAGVELIDPLSADVQASFTLTLLQNDIKTAMKSAFGTMEGPLSVVDWCKGRSQSNDGGISGDGFSAESTASASECRDSSSTISFSVGEPISPSQSSAGGSSLKDGIRVDEASERRLSQDTCLSESEQLPGSRLRPTLSAVPYPAILVGYQDDWLKTSPSSLQLWEKAPFEPYAMPKHMSYYVVCPDINALTTAATDFFQQLGTVYETCKLGTHSPQCMGNEMEIDSGKNVSSGFVLIDCPQSMKIDSSSTSMLGSISDYFLSLSNGWDLESYLKSLSKVLRNLKLSSCMTMNPKEGSTGPCTVIYVVCPFPEPLAVLQTVVESSIAVGSVVLSSDKERRSTLQNQVGKALSYSAAVDESLSNVLTLSGFCIPKLVLQIVTVDAIFRVTSPALSELLVLKEIAFTVYNKARRISRGSSSDMVQSSSMSGRSHPVLMQMTSPVPGMWKDCVGPRSIGTSLQREAELDASLRSGSWDNWQTSRGGSLGCDPNRIGDFSIQDEVRYLFEPLYILAEPGSLDRGLSFPMSGGGDTGPNTQSETSEPDGSGSAHQKSLPSLHCCYGWTEDWRWLVCIWTDSRGELLDNYIYPFGGISSRQDTKGLQSLFVQILQQGCQILQACPPESAIAKPRDFVIARIGSFFELECQEWQKALYAIGGSEVKKWSLQLRRSVPDGMSASSNGASLQQQEIGLIQERALPSSPSPLYSPHSKVSSFMKGGMGQPSTRKQLIGGQGMVDNSRGLLQWVQSISFVSVSIDHSLQLMFQADIVSHGTSQSSGVVSQPGYLEGYTPVKSLGSTSTSYILIPSPNMRFLPPVGLQLRTCLTAESPPLAHLLHSKGCAIPLSTGFVVSKAVPTMRRDARGISKEEWPSVLSVGLVDYYGGSNIIQEKFLKGVGKVGGRGASSETRDVEVETHLILENIAAELHALSWMTVSPAYLERRSALPFHCDMVLRLRRLLHFADKEVSRQPEKTQV
Length1930
PositionKinase
OrganismNicotiana sylvestris (Wood tobacco) (South American tobacco)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> asterids> lamiids> Solanales> Solanaceae> Nicotianoideae> Nicotianeae> Nicotiana.
Aromaticity0.07
Grand average of hydropathy-0.218
Instability index53.85
Isoelectric point5.54
Molecular weight208866.21
Publications
PubMed=23773524

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	IEA:InterPro

GO - Biological Function
transcription coregulator activity	GO:0003712	IEA:InterPro

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IEA:InterPro









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP12598
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     235.68|      62|      78|     831|     907|       1
---------------------------------------------------------------------------
  253-  305 (78.87/44.48)	............NGIVG..LPCNVSRSGYQLKGQNCYVEVSLGCTTPGNNNIKESSrMLIY....PPEAIL
  831-  898 (99.43/95.15)	VRIAGDIDGGllDGTLN..APVGVWRSVGVSKGMKQPSSALEACHSVQHNSFIEES.MLAYglrqPLQELL
  912-  952 (57.38/30.44)	VDVALDADNN..DGPYGwlALQEQWRR.GFSCG...PSMVHAGCGGV........................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.29|      20|      78|    1223|    1246|       2
---------------------------------------------------------------------------
  110-  134 (25.08/ 7.48)	LASGlWvapgDSEEVAAALSQALRN
 1223- 1242 (36.21/25.05)	LSNG.W....DLESYLKSLSKVLRN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     399.31|     112|     588|    1053|    1220|       5
---------------------------------------------------------------------------
  483-  557 (90.59/31.01)	.............................................VGMDIQALLSEFGDF....GDFFENDVLPFGE....PPGTAESQALmfpaaDSA.DVGSS....PCPSMMDVQDQMLLPVGFPSfDSF
  561-  655 (120.72/46.48)	PPPASLddsLGKQQEVIKSTAVTNQVNNASA....AIAGEFDHLI...KAEALMTFAPEY....GAVETPTGEKPHSifrnPY.LPKSREV.....DTSNSSSNSYVYSATP.....................
 1101- 1220 (188.00/160.34)	PYPAIL...VGYQDDWLKTSPSSLQLWEKAPfepyAMPKHMSYYVVCPDINALTTAATDFfqqlGTVYETCKLGTHS....PQCMGNEMEI.....DSGKNVSSGFVLIDCPQSMKIDSSSTSMLGSIS.DYF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     251.54|      77|     382|    1010|    1091|       7
---------------------------------------------------------------------------
  386-  436 (57.76/23.94)	SSDSDYKISGAG.DLEADADSLMCRPSGlSSVDQSQNDNLKAgfKRSRTGIS....................................
 1012- 1091 (121.65/79.29)	SQSNDGGISGDGfSAESTASASECRDSS.STISFSVGEPISP..SQSSAGGSSLKDGIRVDEASERrlSQDTCLSESEQL.....PGS
 1368- 1403 (37.25/13.87)	........................................KA..RRISRGSSS..DMVQSSSMSGR..SHPVLMQMTSPV.....PG.
 1437- 1475 (34.87/12.39)	.............................................QTSRGGSLGCDPNRIGDFS....IQDEVRYLFEPLyilaePGS
---------------------------------------------------------------------------




































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 MDP12598 with Med13 domain of Kingdom Viridiplantae
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