<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 MDP22960

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSGKSKTSNGFIGMPYHVSQGPGCQLREQNCYVEITLGCPRSESDKELETNLQSTKNSSKNHIAESPAVRRGDQKVSPDHLSAYEKAFIYPVEAIVVPVLPKSFARSSLKRFWLQNWIGPSLPGSSFFMHCGGDTDFLEGSWIESNGLRMQHSYNSSSNSNSSSISSIISGSSDSDYKMTTGELEADGDSLSCRQSGLSSNDQMEIDDLKLGSKRPRTGMNEPYGQVGTVKNAPMQEFGSVEVNASAITGIANEQIGSRWDWDDDRGAGMDIQALLSEFGDFGDFFENDDLPFGEPPGTAESQALMFSGPDCGEVANTPIGVMDVVDQMLLPAAFPSFESFNPSPAVAIDESASKSQEATHGALALVPVNCTPPSSSGEFDYLIKAEALLTFAPEYGAVETPTSEFSSSIFRRPYCPKSRQVESSNPSSNKYAYGATPPPSPFFEGSNEKTGMQVNLKTGAGRNDTKKYYTLVESGKVHLDRRTFIFNESHPTSEVMVPSPLLTSNSSNTVQRKMSDCILGAENFLFSMKTVLATEVECIMFQASMCSMRHMLLSYGNPTPVNLSRLSGSTVLNQLHGDASTMTDSISARYEVKKKESIPVRIAGDMDGGLLDGHLNAPVGVWRSVGVPKLTKHTSSPNIEVSASLPHHSFSEEGILSYRQRQQPLQELLDGMALLVQQATSFVDVALDADCGDGPYGWLALQEHWRRGFSCGPSMVHAGCGGALAACHSLDIAGVELVDPLSADIHSSAVISLLQSEIKTALKSAFGNLDGPLCVTDWCKGRFQSGDGATTCDGLIGESTLSGCKDSSSIVTLPVGEPMSPALSCAAGSSSLKASSTLDGAKVDETSQRRSNQEIEPELRFRIKPTVFVLPSPAILVGYQDDWLKTSASSLQLWEKAPFEPYASPKPISYYVVCPDIDPLTSAAADFFQQLGTVYETCKLGTHSPQSLGNHMEMDAGKSLYTGFVLLDCPQSMKIESSNASLVGSISDYFLSLSNGWDLASYLKSLSKAVKALKIGPSLLTNPKEGSSSSCMVIYVVCPFPEPAAVLQTVIESSVAIGSIIPPADRERRSMLLGQVRKALSSLAAVDDASASNVLVLSGFSTPKLVLQIVTVDAIFRVTSPALNELIILKETAFTVYNKARRISKGSSNDVQSSSASSRSHSALTQMSSVPAMWNSLPREADIDSRLRAGTWDNSWQTMRTGSLTCDPNRNGDFSLQDEIHYMFEPLFILSEPGSLEHAVTPAVFGNLGSESLKMQSDDSSGSFMQSASSAGSVDTGSSSQHDGSEPTGFGSSHQKALPSLHCCYGWTEDWRWLVCIWTDARGELLDSHIFPFGGISSRQDTKGLQCLFVQVLQQGCQILQSCSSPDTGSVKPRDFVITRIGSFFELEYIEWQRAIYSVGGSEVKKWPLQLRRSMPDGMAASTNGASLQQQEMSLIQERTLPSSPSLLYSPLLKASGYMKGGLGQPSSRKQLMGGYTVVDNSRGMLQWVQSITLVTISVDHSLHLMFQADMPSPGGNGSSVGPSIYREGISPVKSLGSTSASYILIPSPSMRFLPPTPLQHPTCLTAESPPLAHLLHSKGSAIPLSTGFVVSKAVPSMRNDYRSDAREEWPSVLSVSLIDYYGDNNMTEDKMYRGIMKQGGRTLGTDGKDLEIGTQLILENIAAELQALSWMTVSPAYLERRTALPFHCDMVLRLRRLLHFADKELSSQPGRSQV
Length1717
PositionKinase
OrganismPopulus trichocarpa (Western balsam poplar) (Populus balsamifera subsp. trichocarpa)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> fabids> Malpighiales> Salicaceae> Saliceae> Populus.
Aromaticity0.07
Grand average of hydropathy-0.232
Instability index55.86
Isoelectric point5.30
Molecular weight185586.11
Publications
PubMed=16973872

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

>MDP22960
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|    1745.03|     544|     635|     393|    1022|       1
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  115-  708 (616.84/479.12)	..........................................................LQNWIGPSLPgSSFfmhcGG.DTDFLE.GSWIESnglRMQhSYNSSSNSN...SSSISSIISGSSDSDYKMTTGELEADGDSLSCrQSGLSS.NDQMEIDDLKLGSKRPRT........................GMNE..................PYGQVGTVKNAPMQEFGSV..EVNASA.ITGIANEQIGS.RWdwdddrGAGMDIQALLSEFGDF....GDFFENDDLPFGEPPGTAESQALmfsgpDCGEV..ANTPIGVMDVVDQMllpaafpSFE.SFNP.....SPAV.AIDESAsksqeathgaLALvpvnctppsSSGeFD.........Y...LIKA.......EALL..................tFaPEYGAVETPTsefsssifrrpycpksrqVESSNpssnkyAYGATPPPSPFFEGSNEKTGMQVNLKTGAGRNDTKKYYTLVESG....KVHLDRRTF..IFNESHPT.SEVMV..........PSPLLTSNSSNTVQRkmSDCILGAENFLFSMKTVLAteveciMFQasmcsmrhmllSYGNPTPVNlSRLSGSTVLN..QL............HGDAStMTDSISARYEVKKKESIPvriagdmdgGLLDgHLNAPvGVWRSVGVP..KLTKHTSSPNIEVSASlpHHSFSEEGILSYRQRQQPlqelldgmallvqqaTSFVDV...ALDA.DCGdgpYGWlalQEHWR
  709- 1314 (864.82/498.46)	RGFSCG.PSMVHAGCgGALAACHSLDIAGVELVDPLSADIHS..........SAVISLLQSEIKTALK.SAF....GNlDGPLCV.TDWCKG...RFQ.SGDGATTCD...GLIGESTLSGCKDSSSIVTLPVGEPMSPALSC.AAGSSSLKASSTLDGAKVDETSQRR........................SNQEIEPELRFRIKPTvfvLPSPAILVGYQDDWLKTSASSL..QLWEKApFEPYASPKPIS.YY......VVCPDIDPLTSAAADFFQQLGTVYETCKLGTHSPQSLGNHMEM.....DAGKS..LYTGFVLLDCPQSM.......KIE.SSNA.....SLVG.SISDYF..........LSL.........SNG.WD......LASYLKSLSKAVKALKIGPSLLtnpkegsssscmviyvvcpF.PEPAAVLQTV..................IESSV......AIGSIIPPADRERRSMLLGQVRKALSSLAAVDDASASNVLVLSGfstpKLVLQIVTVdaIFRVTSPAlNELIIlketaftvynKARRISKGSSNDVQS..SSASSRSHSALTQMSSVPA......MWN...........SLPREADID.SRLRAGTWDNswQTmrtgsltcdpnrNGDFS.LQDEIHYMFEPLFILSEP.........GSLE.HAVTP.AVFGNLGSEslKMQSDDSSGSFMQSAS..SAGSVDTGSSSQHDGSEP...............TGFGSShqkALPSlHCC...YGW...TEDWR
 1345- 1660 (263.37/122.10)	KGLQCLfVQVLQQGC.QILQSCSSPDTGSVKPRDFVITRIGSffeleyiewqRAIYSVGGSEVK...............KWPLQLrRSMPDG...MAA.STNGASLQQqemSLIQERT............LP....SSPSL....LYSPLLKASGYMKGG.LGQPSSRKqlmggytvvdnsrgmlqwvqsitlVTISVDHSLHLMFQAD...MPSPG...G........NGSSVgpSIYREG.ISPVKSLGSTSaSY......ILIP......SPSMRFLPPTPLQHPTC.LTAESP.PLA.HLLH.....SKGSAipLSTGFVVSKAVPSM.......RNDyRSDAreewpSVLSvSLIDYY..........GDN.........NMT.EDkmyrgiMKQGGRTLGTDGKDLEIGTQLI....................................................................................................................................................................................................................................................................................................................................................................................
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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 MDP22960 with Med13 domain of Kingdom Viridiplantae
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