<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 MDP12917

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFRIGGLSQVSWFQFHPVESDLSSLPDKRIKVEQKDAATLLVISSHLQLQKEGFLSAWTNSFVGPWDPSQGLHNPDEKIKLWLFIPGRHASVVDSAQSAVSRLRVVASGLWLAPGDSEEVAAALSQALRNRIERALLGLSYMRFGDVFSRYHPPQIEESIRRAQPTIEFIFAATEESIFVHAIISSKHIRTLSTGDIEKVLEHSSNNTSYLLPVIISPHGMCGKLTGCCPNDLVKQVYFSNSGKIGLPHRTSQSSVCQLRGQNCYVKVSLGCSKSRGDKPLNPNPDYIRNLPKHQSTEAYAMGRVDQKGPLDLLSVHEKTFIYPPEAVLVPVLQTSFARSSLRRFWLQNWIGPSLAGSSFFRHCFCSDGNLDILEKSWAEFSGIHTQHCYNSSSNSNNSSISSLSSSSSDSVTTGARDLEADADSSCRQSGLSSNDQMETDCLKLGSKRPRIGMTESYGQAGTVTNAPTEDVYKSNIRSMEVNRSVITGVGNDQIGSNWDWDDDDRGIVMDIQSLLSEFGDFGDFFENDVLPFGEPPGTAESSAIMFGASDCGDVGSSPAGVMDTSDQMLLPVGLPSFDSFNPPLPLVTEEFLSKSQEVTNSAVTSGPSNQTPASSTGEFDHLMKAEALMTFAVEYGAVETPASDSSSVFRNPYLPKSRKVESSNSIQSNYKYAATPPSFPCFGGLDEKTGMPMNLKAHPGGHDSNSMLQLKKYYTHVETREERYGRRLLTHNDSNATNEMSGTSQFGNLYSIKSDKSAGRKMTQGVFGGERILLSMKTVLGTEVECSMFQASMLRMRHILLSPTSPATISLSRPTASSVLNQLPDDPSTMADNLSSRYEVKKESIPFKGAGDIDGVMLDGHLNAPVGVWRTVGAPKVSKLATSSIEASPSLTHNLYNEESMLSYGQSQPLQELLDGIPLLVQQATSFVDLALDADGGDCPYSWLALQEHWRRGFCCGPSMVHAGCGGTLASCHSLDIAGVELVDPLSANIHASSVISLLHSDIKSALKSAFGSLDGPLSVTDWCRGRGQSGDVGASADGSSTEXXXXNISECRDSSSTVTLSVGEAVSPSQTSVGGSSYLKDGGKVDETCQRRLNQETSGSELEQQQSSRLRSTLFVLPSPALLVGYQDDWLKTSGNSLQLWEKAPLEPYALPKPINYSVICPDIDPLTSAAADFFQQLGIVYETCKLGTHSPQSLGNQMEIDSGKWFSSGFVLLDCPQSMKIESSNASLLGSISDFFLSLSNGWDMTCYLKSLSKALKALKIGQFLFTNQKEGISSPCLVIYVVCPFPEPTAVLKTVIESSIAVGSIILPSDRDKRSLLHSQIGKALSSSAAADEASVSNIPVVSGFSVPKVVVQIVTVDAIFRVTSPPFNELVILKEMAFTVYNKARRISRGSMNDLALSSSLSRSHSVLTPMTSIPTIWKDSVGSRIPGSSIPREGEIDSSLRGGAWENSWQTRTGGLSCDPNRNGDFFYPDEVRYMFEPLFILAESGSLEHGVSPTAFGNSTSEISKIVLDESGGGFMQAANSVGSTDPGSGSQHVGLEPDGLDSSNQKIPSLHCCYGWTEDWRWLVCIWTDARGELLDCNIFPFGGISSRQDTKGLQCLFVQVLQQGCQILQACTSSDTGIVKPRDFVITRIGSFYELEYLEWQKAIYSVGGSEVKKWPLQLRRSVPDGMPANTNGTSLDQQEMSLIQERTLPSSPSPLYSSHTKASFMKGGLGQPAARKQLLSGQTSVDNSRGLLQWVQSISFVSVSVDHSLHLVLQADSPSSGTHSGTGPGQSSYIEGFTPVKSLGSTSASYMLIPSPSMRFLPPTPLHLPTCLTAESPPLAHLLHSKGSAIPLSTGFVVSKAVPSMRKDYRNHPKEEWPSVLSISLIDYYGGNKVTQDKVIRGTAKQAGRTPSSESRDSEIDNHLILASIAAELHALSWMTVSPGFLDRRTTLPFHTDMVLRLRRLLHFAEKELSGQPDKSQV
Length1976
PositionKinase
OrganismGossypium hirsutum (Upland cotton) (Gossypium mexicanum)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> malvids> Malvales> Malvaceae> Malvoideae> Gossypium.
Aromaticity0.07
Grand average of hydropathy-0.242
Instability index50.00
Isoelectric point5.69
Molecular weight213949.50
Publications
PubMed=25893780

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

>MDP12917
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     376.26|     163|     937|     373|     587|       1
---------------------------------------------------------------------------
  373-  511 (83.97/118.54)	........................................................................................GNLdILEKSWAEFSGIHTQ..HCYNSSSNSNNSSISSLSSSSSDSVttgardleadadsscrqsglssndqmetdclklgskrprigmtesYGQAGTVTNAPTEDVYKSNirSMEVNRSVIT......GVGNDQIGS......................nwdWDDDDRG
  512-  587 (90.53/36.15)	IVMDIQSLLSEFGDF....GDFFENDVLPFGEP.PGTAESSAIMFGASDCGDVGSSPAG....VMDTSDQMLLPVGlPSFDSFNP............................................................................................................................................................................
 1166- 1239 (64.98/17.49)	ICPDIDPLTSAAADFfqqlGIVYETCKLGTHSP.QSLGNQMEI.....DSGKWFSSGFV....LLDCPQSM.......KIESSNAsllGSI......................................................................................................................................................................
 1311- 1465 (71.39/33.14)	........................................................................................GSI.ILPSDRDKRSLLHSQigKALSSSAAADEASVSNIPVVSGFSV...........pkvvvqivtvdaifrvtsppfnelvilkemaftvYNKARRISRGSMNDLALSS..SLSRSHSVLTpmtsipTIWKDSVGSripgssipregeidsslrggawensWQTRTGG
 1466- 1538 (65.39/17.73)	LSCDP....NRNGDF......FYPDEVRYMFEPlFILAESGSLEHGVSPTA.FGNSTSEiskiVLDESGGGFMQAA.NSVGSTDP............................................................................................................................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     143.14|      47|     937|     854|     933|       2
---------------------------------------------------------------------------
  854-  905 (69.98/50.60)	GAGDIDGVMLDGHlnAPVgvwRTVGAPKVS.................KLATSSIEASPSLTHNLYNEES
 1779- 1842 (73.15/24.34)	GTGPGQSSYIEGF..TPV...KSLGSTSASymlipspsmrflpptplHLPTCLTAESPPLAHLLHSKGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     162.91|      49|     511|    1031|    1165|       5
---------------------------------------------------------------------------
 1078- 1126 (84.61/111.48)	SVGGSSYLKDGGKVDETCQRRLNQETSGSELEQQQSSRLR.STLFVLPSP
 1659- 1708 (78.31/11.99)	SVGGSEVKKWPLQLRRSVPDGMPANTNGTSLDQQEMSLIQeRTLPSSPSP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.66|      15|     511|     422|     436|       6
---------------------------------------------------------------------------
  422-  436 (27.95/14.20)	DLEADAD.SSCRQSGL
  934-  949 (26.72/13.25)	DLALDADgGDCPYSWL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     205.27|      65|      69|     695|     762|       7
---------------------------------------------------------------------------
  695-  762 (105.69/85.54)	GMPMNLKAHpGGHdsNSMLQLKKYY.THVETREERYG....RRLLTHNDSNATNEMSGTSQFGNLYSIKSDKS
  764-  833 (99.59/68.65)	GRKMTQGVF.GGE..RILLSMKTVLgTEVECSMFQASmlrmRHILLSPTSPATISLSRPTASSVLNQLPDDPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      85.02|      26|      42|     231|     257|       8
---------------------------------------------------------------------------
  231-  257 (44.40/27.66)	GCCPNDLVKQVYfSNSGKI.GLP.HRTSQ
  275-  302 (40.61/20.51)	GCSKSRGDKPLN.PNPDYIrNLPkHQSTE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.95|      19|    1391|     338|     364|       9
---------------------------------------------------------------------------
  338-  364 (20.35/34.91)	QTSFARSslrRFWLQnWIgPSLagsSF
 1736- 1754 (36.61/20.97)	QTSVDNS...RGLLQ.WV.QSI...SF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.39|      13|     505|    1031|    1044|      11
---------------------------------------------------------------------------
 1031- 1044 (20.33/13.25)	GRGqSGDVGASADG
 1539- 1551 (26.07/12.87)	GSG.SQHVGLEPDG
---------------------------------------------------------------------------




































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 MDP12917 with Med13 domain of Kingdom Viridiplantae
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