<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 MDP18087

Description Mediator of RNA polymerase II transcription subunit 13 (Fragment)
SequenceRYQDDWLKASANCLQHWEKAPLEPYALQKPITYHVVCPDIDPLTSAAADFFQQLGTVYEMCKLGTHSPLILGNQMEIESAKSSSCGFVLLDCPQSMKIESSNASLVGSVSDYFLSLSNGWDLTSYLKSLSKALRALNLSSCFSANPAEGSNSSCLVIYVVCPFPDPSAILQTVTESSVAIGSVIQQSDRERRSSLHNQVVKALSGLAAVDEASASNIPVLSGFSIPKLVLQIVTVDAIFRVTSPSVSELVILKETAFTVYSKARRVSRGISSDSSQLAFSSRSQSVLPQMPSPISGMWKDCVGPRMAGHSLPRESDIDTSLRPGTWDNSWQPTRSGVLNCDPSRTGDIFPHDEIRYMFEPLFILAEPGSPEHGISVIGSPSSEASKALADDSSGNHVQSASTAGSVDSASSIDGSGSDQKTHPSLHCCYGWTEDWRWLVCIWTDSKGELLDSNIFPFGGISSRQDTKGLQCLFVQVLQQGCVILQSCDPSLAKPRDFVIARIGGFYELEYLEHGPDIGIESPRIHDLEGLYMLKWQKAIYSAGGSEMKRWPLQLRKSLSDGVSSTSNGSSLQQSDMSLMPERTLPSSPSPLYSPHPKPTGFIKGGLGQSASRKQIMGGHSMVDSSRGLLHWAQSISFVAISMDHTLQPVIPADSSSPGYVEGFTPVKSLGSTSSAYILIPSPSMRFLPPTSLQLPTCLTADSPPLAHLLHSKGSALPLSTGFVVSKAVPSMRKDYRSNLKEEWPSVLSVSLIDYYGGSNIPQEKIVRGINKQGGRGLSWEAKDFETESHLILESLAAELHALSWMTVSPSYLERRTALPFHCDMVLRLRRLLHFADKELSKQSEKS
Length846
PositionKinase
OrganismTrifolium pratense (Red clover)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> fabids> Fabales> Fabaceae> Papilionoideae> 50 kb inversion clade> NPAAA clade> Hologalegina> IRL clade> Trifolieae> Trifolium.
Aromaticity0.07
Grand average of hydropathy-0.168
Instability index62.98
Isoelectric point6.08
Molecular weight92022.33
Publications
PubMed=24500806
PubMed=28382043

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

>MDP18087
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     924.23|     270|     296|     181|     469|       1
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   29-  170 (110.24/47.16)	..........................................................................................................................................................................KPITYHV.V.CpdiDPltSAAADFF..QQLG..TV..YE.MCKLG.THSPlilGNQMEIESAKS....SSCGFVLLDCPQSMKIESsnASLVGSVsDYFLSL.SNGWDLTSYlKSL........SKALRALnlsSC..FSANPAEGSNSSCLV....IYVVCPFPDPSAiL
  181-  469 (429.44/263.99)	GSVIQQSDRERRSSLHNQVVKALSGLAAVDEASASniPVLsGFSIPKL..VLQIVTVDAIFRVTSPSVSElviLKETAFTVYskaRRVSRGISSDS..SQLAFSSRS...QSVLPQMPSPI.......SGMWKDCVGPR......MAGHSLpresdIDTSlRpGTWdnSWQPTRSGV.LNC...DP..SRTGDIFPHDEIR..YM..FEPLFILAePGSP...EHGISVIGSPS....SEASKALADDSSGNHVQS..ASTAGSV.DSASSIDGSGSDQKTH.PSLHCCY..GWTEDWRWL...VCI.WTDSKGELLDSNIFP....FGGISSRQDTKG.L
  480-  777 (384.55/198.22)	GCVILQSCDPSLAKPRDFVIARIGGFYELEYLEHG..PDI.GIESPRIhdLEGLYMLKWQKAIYSAGGSE...MKRWPLQLR...KSLSDGVSSTSngSSLQQSDMSlmpERTLPSSPSPLysphpkpTGFIKGGLGQSasrkqiMGGHSM.....VDSS.R.GLL..HWAQSISFVaISM...DH..T.LQPVIPADSSSpgYVegFTPVKSL...GST...SSAYILIPSPSmrflPPTSLQLPTCLTADSPPL..AHLLHSK.GSALPLSTGFVVSKAV.PSMRKDYrsNLKEEWPSV...LSVsLIDYYG...GSNI.PqekiVRGI.NKQGGRG.L
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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 MDP18087 with Med13 domain of Kingdom Viridiplantae
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