<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 MDP16738

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMCELFVCRRRYDLRKALEVQKGGLHHVSWFQFLPNESDLNALPDKSVKVDQKDAATFLVLSSHLQLQKEGFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFLPGRHSSVETAQAAVSRLRVVASGLWVAPGDSEEVAAALSQALRNCIERALNGLSYLRFGDVFSKYQPSQSEESFRKGHPTIEFIFAATEEAIFIHALVSAKHIHSLSGGDMEKGFKHSSSSSSSLRLPVIVSPHGMRGRLTGYCPTDLVKQVYFRTSNGCVGLPHVSQGSGCQLNGQNCYVEVTMGCPRSGSDKASHINSNSLRNLHKHNVSESPSVGGGDPKGSPDNMSAYEKTFIYPAEAVLVPVLQTSFSRSSLRSFGNMDSLEGSWIETNGIHAQRGYNSSSNSNNSSISSISGSSSDSDYQMNARTGDLEADADSLTCRQSGLSSNDQLENEGPKLGSKRPRTGMIESFGQMGTGTNASTDFGSVENTSAITGVANDQIGPHWDWDDDDDRGMGMDIQALLSEFGDFGDFFENENLPFGETLWDGSVRRCVMWCFIIIVAQTHHYLSWALGACGRTPPGTAESQSFMFSAPDCGDVGSSPVVAMDVSDQMLMPNFSSFESFNPLPTMAVEECMGKSQEVTNNTLTSGQANQSQASSTGEFDHLMKAEALMTFAPEYGAVETPTSELSSSIFRSPYLPKSYRVESSNSSSNNYVYGATPPGSPCFDGSDEKNGTPVSKACSGKHDSSALLHSKKYYSHVESSKEQNDRKSVTHKDSNAKSDGLVLSPFSNLSSTNAIKSLPRKMTEGTLGVEHIFLSKKTVLATEVECLMFQASMCRIRHVLLYSSNPSPISLSRFTGSTVLNQLPGDLSSMTESTSGRYELKKKESIPVRIAGDFDGGLLDGHLNAPVGVWRSVGVAKVSKPTNSSSIEVSPSMPHGSFTEEGMISYGQRQPLQELLDGLPLLVQQATSFVDVALDADCGDGPYGWLALQEHWRQEFSCGPSMVHAGCGGTLASCHSLDIAGVELVDPLSADIHASSVISLLQSEIRTALKSAFGSLDGPLSVTDWCKGRGQSVDAAALGDGSTESISECRDSSSTITVGEALSPSQSSGGGSSSLKVAMDGTKLDETGQRRLNQDIGSSESDHQLCARLKPTLFVLPSPAILVGYQDDWLKTSATSLQFWEKAPLEPYALPKPITYNVICPDIDPLTSAAADFFQQLGAVYETCKLGTHSPQNLGNQMEIDSGKSPSSGFVLLDCPQSMKIESNNASLVGSISDYFLSLSNGWDLTSYLKSLSKALKTMKLGPCSSTQQKEGNSGPCTVIYVVCPFPEPLAILQTVIESSASLGSVAISSDRERALLHSQVGKALSCPAAVDETSISNVLAISGFSIPKLVLQILTVDEIFRVTSPAINELVLLKETAFTVYNKARRISRGSSGDVVHSSSLSSRSHSVMNQMASIPGMWKDCVGSRMTGPSLSREGEIDASLRPGTWDNSWQATRSGGLNCDPNRNGDFLIQDEIRFMFEPLFVLAEPGSLDHGVSSTFNGNSTSDDSTGGFMMSGSTAGSADTGSSSQLDRSEQDGFGSGHHKSVPSLHCCYGWTEDWRWLVCIWTDARGELLDSHIFPFGGISSRQDTKGLQCLFVQILQQGCQILQTCCSPDSGVAKPRDFVITRIGSFYELEYLEWQKAIYSVGGSEMKQWPLQLRRSVPDGMPSSTNGASLQQQQEISLIQERALPSSPSPLYSPHSKASGFMKGGLGQPVGRKQLIGGHTMVDNSRGLLQWVQSISFVAISIDHSLHLVHQADSPSSGGTQGGNGVGPSGYLEGFTPVKSLGATPASYILIPSPSMRFLPPAPLQLPTCLTAESPPLAHLLHSKGSAIPLSTGFVVSKSVPSMRKDHKNKLKDEWPSVLSVNLIDYYGGNNISQDKVTRVIIKQGGRTASSEPKDFEVETHLILESIASELHALSWMTASPAYLNRRTALPFHCDMVLRLRRLLHFADRELSQQADNPQS
Length1995
PositionKinase
OrganismCitrus unshiu (Satsuma mandarin) (Citrus nobilis var. unshiu)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> malvids> Sapindales> Rutaceae> Aurantioideae> Citrus.
Aromaticity0.07
Grand average of hydropathy-0.282
Instability index51.40
Isoelectric point5.59
Molecular weight215232.91
Publications
PubMed=29259619

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

>MDP16738
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|    1056.37|     238|     240|     510|     747|       1
---------------------------------------------------------------------------
  130-  302 (160.19/72.07)	......................................................................PGDSEEVAAA...LSQAlrNCI...............................EralNGLSYLRFGDVFS..KY.QPS...QSEESF..rKGHPT..IEFIFAATEEaIFIHALVS..AKHIHSL.S.....GGDME......KGFKH.................SSSSSSSLRLPVIvsPH..GMRGRLTGYCPTDlvkQVYFRTSNgcvglphvsqGSGCqLNG..QNCY..VEVTMGCprSGS.DKA.........SHINS
  311-  506 (234.43/109.02)	.......................................................HNVSESPSV.GGGDPKGSPDNMSAYektFIYP....A...............................E...AVLVPV...........LQTSFsrSSLRSFgnmDSLEGSWIETNGIHAQR.GYNSSSNSNNSSISSISgS.....SSDSD......YQMNART.GDLEADADSLTCRQSGLSSNDQLENEG..PKlgSKRPRTGMIESFG...QM.GTGTN..........ASTD.F.GSVENTSaiTGVANDQ..IGPHWDWDDDDDRGMGMDIQA
  510-  747 (413.32/198.05)	EFGDFGDFF......ENENL...PFG.....ETLWDGSVRRCVMWCFIIIVAQTHHYLSWALGA.CGRTPPGTAESQSFM...FSAP..DCG...............................D...VGSSPVVAMDVSD..QMLMPNF..SSFESF...NPLPTMAVEECMGKSQE.VTNNTLTSGQANQSQAS.S.....TGEFD......HLMKAEALMTFAPEYGAVETPTSELSSSIFRSPYL..PK..SYRVESSNSSSNN...YVYGATPP..........GSPC.FDGSDEKNG..TPVSKAC..SGKHDSSALLHSKKYYSHVES
  750-  922 (172.55/78.23)	EQNDRKSVThkdsnaKSDGLvlsPFS.....NLSSTNAIKSLPRKMTEGTLGVEHIFLS.......KKTVLAT.EVECLM...FQAS..MC................................R...IRHVLLYSSNPS...PISLSRF..TGSTVL...NQLP........GDLSS.MTES..TSGRYELKKKE.SipvriAGDFDgglldgHL.NAPVGVWRSVGVAKVSKPTN..SSSIEVSPSM..P...................................................................................
  924- 1069 (75.88/30.11)	.....GSFT......EEGMI...SYGqrqplQELLDG.........LPLLVQQATSFVDVALDAdCGDGPYGWLALQEHW...RQEF..SCGpsmvhagcggtlaschsldiagvelvdplsaD...IHASSVISLLQSEirTALKSAF..GSLDG.....PLSVT..DWCKGRGQS.VDAAALGDG...................................................................................................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     135.54|      41|     629|    1211|    1253|       6
---------------------------------------------------------------------------
 1211- 1253 (66.83/43.57)	TCkLGTHSPQnLGNQMEIDSGKSP.SSGFVLLDCPQSMKIESNN
 1843- 1884 (68.71/36.81)	TC.LTAESPP.LAHLLHSKGSAIPlSTGFVVSKSVPSMRKDHKN
---------------------------------------------------------------------------




































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 MDP16738 with Med13 domain of Kingdom Viridiplantae
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