<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 MDP02768

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFRIGGLSQVSWFQFHPVESDLSSLPDKRIKVEQKDAATLLVISSHLQLQKEGFLSAWTNSFVGPWDPSQGLHNPDEKIKLWLFIPGRHASVVDSAQSAVSRLRVVASGLWLAPGDSEEVAAALSQALRNRIERALLGLSYMRFGDVFSRYHPPQIEESIRRAQPTIEFIFAATEESIFVHAIISSKHIRTLSTGDIEKVLEHSSNNTSYLLPVIISPHGMCGKLTGCCPNDLVKQVYFSNSGKIGLPHRTSQSSVCQLRGQNCYVKVSLGCSKSRGDKPLNPNPDYIRNLPKHQSTEAYAMGRVDQKGPLDLLSVHEKTFIYPPEAVLVPVLQTSFARSSLRRFWLQNWIGPSLAGSSFFRHCFCSDGNLDILEKSWAEFSGIHTQHCYNSSSNSNNSSISSLSSSSSDSVTTGARDLEADADSSCRQSGLSSNDQMETDCLKLGSKRPRIGMTESYGQAGVGNDQIGSNWDWDDDDRGIVMDIQSLLSEFGDFGDFFENDVLPFGEPPGTAESSAIMFGASDCGDVGSSPAGVMDTSDQMLLPVGLPSFDSFNPPLPLVTEEFLSKSQEVTNSAVTSGPSNQTPASSTGEFDHLMKAEALMTFAVEYGAVETPASDSSSVFRNPYLPKSRKVESSNSSQSNYKYAATPPSFPCFGGLDEKTGMPMNLKAHPGGHDSNSMLQLKKYYTHVETREERYGRRLLTHNDSNATNEMSGTSQFGNLYSIKSDKSASRKMTQGVFGGERILLSMKTVLGTEVECSMFQASMLRMRHILLSPTSPATINLSRPTASSVLNQLPDDPSTMADNLSSRYEVKKESIPFKSAGDIDGVMLDGHLNAPVGVWRTVGAPKVSKLATSSIEASPSLTHNLYNEESMLSYGQSQPLQELLDGIPLLVQQATSFVDLALDADGGDCPYSWLALQEHWRRGFCCGPSMVHAGCGGTLASCHSLDIAGVELVDPLSANIHASSVISLLHSDIKSALKSAFGSLDGPLSVTDWCRGRGQSGDVGASADGSSTESNISECRDSSSTVTLSVGEAVSPSQTSVGGSSYLKDGGKVDETSQRRLNQETSGSELEQQQSSRLRSTLFVLPSPALLVGYQDDWLKTSGNSLQLWEKAPLEPYALPKPINYSVICPDIDPLTSAAADFFQQLGIVYETCKLGTHSPQSLGNQMEIDSGKWFSSGFVLLDCPQSMKIESSNASLLGSISDFFLSLSNGWDMTCYLKSLSKALKALKIGQFLFTNQKEGISSPCLVIYVVCPFPEPTAVLKTVIESSIAVGSIILPSDRDKRSLLHSQIGKALSSSAAADEASVSNIPVVSGFSVPKVVVQIVTVDAIFRVTSPPFNELIILKEMAFTVYNKARRISRGSMNDLALSSSLSRSHSVLTPMTSIPTMWKDSVGSRIPGSSIPREGEIDSSLRGGAWENSWQTRTGGLSCDPNRNGDFFYPDEVRYMFEPLFILAESGSLEHGVSPTAFGNSTSETSKIVSDESGGGFMQAANSVGSTDPGSGSQHVGLEPDGLDSSNQKIPSLHCCYGWTEDWRWLVCIWTDARGELLDCNIFPFGGISSRQDTKGLQCLFVQVLQQGCHILQACTSSDTGVVKPRDFVITRIGSFYELEYLEWQKAIYSVGGSEVKKWPLQLRRSVPDGMPANTNGTSLDQQEMSLIQERTLPSSPSPLYSSHTKASFMKGGLGQPAARKQLLSGQTLVDNSRGLLQWVQSISFVSVSVDHSLHLVLQADSPSSGTHSGTGPGQSSYIEGFTPVKSLGSTSASYMLIPSPSMRFLPPTPLHLPTCLTAESPPLAHLLHSKGFAIPLSTGFVVSKAVPSMRKDYRNHPKEEWPSVLSISLIDYYGGNKVTQDKVIRGTAKQAGRTPSSESRDSEIDNHLILASIAAELHALSWMTVSPGFLDRRTALPFHTDMVLRLRRLLHFAEKELSGQPDKSQV
Length1946
PositionKinase
OrganismGossypium raimondii (New World cotton)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> malvids> Malvales> Malvaceae> Malvoideae> Gossypium.
Aromaticity0.08
Grand average of hydropathy-0.246
Instability index50.85
Isoelectric point5.70
Molecular weight211162.30
Publications
PubMed=23257886

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

>MDP02768
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|    1963.34|     585|     632|     393|    1021|       1
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   99-  721 (799.77/519.12)	.......SAQSAVSRLRVVASGLWlapGdSEEVAAAL.......SQALRNRIERALLGLSYMRFGDVF.SRYHPPQIEESirraQPTIEFIFAATEESIFVHA.IISS...KH......IRTLSTGDIE.KV.LEHSSNNTSYLLPVIISPHgmCGKL...TG...CC.P..NdLVKQVYFSNSgkiGLPHRTSQSSVCQLRGQNCY......VK.....VSLGCSKSRG..DK...P...LNPNPDYIRNL.PKHQS.TEAYAMGRVDQKGPLDLLSVHektFIYPPEA......VLVPVLQTSFaRSSLRRFW........LQNW...........IGPSLAGSSFFrhcfcsdgnldilekswaefsgihtqhCYNSSSnSNNSSISSLSSSSSDSVTTGA..RD.LEADADSSCRQSGLSSNDQMEtdclKLGSKRPRIGMTESYGQA...GVGNDqigsnWD.........WDD............DDRGIVMDIQSLLSEFGDF....GDFFENDVLPFGEPPGTAESSAImfgasDCGDVGSSPAGVMDTsdqmllPVGLpSFDSFNPP.LPLVTEEFLSKSQEVTNSAVTSGPSNQTPASSTGEFDHLMKAEA.....LMTFAV....EYGAVETPASDSSSVFRNPYLPKSRKVESSNSSQsnykyaaTPPSFPCFGGLDEKTgmPMNLKAHPGghdsnsmLQLKKYYTHVETREERYGRRLLTHNDSNATNEMSGT
  722- 1358 (913.85/525.04)	SQfGNLYSIKSDKSASRKMTQGVF...G.GERILLSM.......KTVLGTEVECSMFQASMLRMRHILLSPTSPATINLS....RPTASSVLNQLPDDPSTMADNLSS...RYEVKKESIPFKSAGDID.GVMLDGHLNAPVGVWRTVGAPK..VSKL..ATSSIEAS.P..S.LTHNLYNEES...MLSYGQSQPLQELLDGIPLL......VQQATSFVDLALDADGG..DC...PYSWLALQEHWRRGF.CCGPSMVHAGCGGTLASCHSLDIAGVE...LVDPLSANI.HASSVISLLHSDI.KSALKSAFGSldgplSVTDWC.RGRGQSGD.VGASADGSSTE......................sniseCRDSSS.TVTLSVGEAVSPSQTSVGGSSylKDgGKVDETSQRRLNQETSGSELE....QQQSSRLRSTLFVLPSPAllvGYQDD.....WLktsgnslqlWEKaplepyalpkpiNYSVICPDIDPLTSAAADFfqqlGIVYETCKLGTHSPQSLGNQMEI.....DSGKWFSSGFVLLDC......PQSM.KIESSNASlLGSISDFFLSLSNGWDMTCYLKSLSKALKALKIGQFLFTNQKEGisspcLVIYVVcpfpEPTAVLKTVIESSIAVGSIILPSDRDKRSLLHSQ.......IGKALSSSAAADEAS..VSNIPVVSG.......FSVPKVVVQIVTVDAIFRVTSPPFNELIILKEMAFT
 1367- 1658 (249.72/124.53)	SR.GSMNDLALSSSLSR............SHSVLTPMtsiptmwKDSVGSRIPGS....SIPREGEIDSSLRGGAWEN.S....WQTRTGGLSC...DPNRNGDFFYPdevRYMFEPLFILAES.GSLEhGVSPTAFGNSTSETSKIVSDES..GGGFmqAANSVGSTdPgsG.SQHVGLEPDG...LDSSNQK.........IPSLhccygwTEDWRWLVCIWTDARGEllDCnifPFGGISSRQD.TKGLqCLFVQVLQQGC.HILQACTSSD.TGV.....VKPRDFVItRIGSFYELEYLEW.QKAIYSVGGS.....EVKKWPlQLRRSVPDgMPANTNGTS...............................................................................................................................................................................................................................................................................................................................................................................................................
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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 MDP02768 with Med13 domain of Kingdom Viridiplantae
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