<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 MDP00414

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMTSGQKFGSARGATPHHSISCPELIQHLRDKNFEEFSKHLKGLVNLYKLPGDNKLKTKMYLALQSLELDLTKMMHMFRLATNANTVETILHGSVGLLTARSGGHLVSLQCYVSPYDVFEERTGSQLNFTDTNGHLLFPRSLGVSVSVTVEGTSSIYKLPIAPLITGSHPVDNKGTPSFSSVTNSNCVDLPASFFLKMNLPMPFSLSFIQRMGNATGIPVFETPPTLSPLYELIVHNQLQEEGGNPLTAPTHAMRFYASLPDQQHCYFLNGDAPVQDGHSLQGTLVSKIPFRHPAQVPALLDVIRHQAAANTLIGSCVKRTFIKDDTPGLLQFEVCPLTDSSFSVSFQHPVNESLVCVVMEVIDSRQVSCKLYKGLSDALICTDDFITKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEIMVKKNLPPAGSPGYGMGTGVDPTNPMGLPGVGGGNTPTGNSGGGNFAGPITSLFGISRSQSQGGECTPQAGQQQQGGQSGDDFSKVTQNPILTSLLQITGATPPPTSSPATNTKNHPMLMNLLKDNPAQDFAALYGSSPLERQNSSSGSPRTDGMGGTCPGGMNKQQSGSMQPHHHQHQPTEDDFHRELFSMDVDASQNPIFDVNLPGDGLDTPHSITPAPSQCGTPPSGAGQQPPPGSSLPRMVRLSSSDSIGADINEILSDLPEQTGKGGSGSHGQHHLGSGEDGGPLGTPHRDSSSSGQGSAVFEADIFNTNSNENPFTNAADLIAEATATTPTSDSSSTNFFPDTVDFNPELLTSSHGFPQAYFDDSSPSADGDLDLVKGFGGSSQQNTPSGGGKPLLGQALDLGDSHSSHMGGGQSPLMMAMGGGSSDFKSGEAKAKQQQQGLMRAKDDNGGGSGRSSGMGMTGSSSIEGKQVKRSRTPSSEGKSKDKPPKRKKLDPDGKSPSHSTGGRPYTPPSGGSGSGGSIGGGSKSPGSSGRSQTPPGGATPPIPKITIQIPKGTLSGGKTSSHGGYTSSSSAGGGTGGAGSTSGSKSHHSHSSSSSGKIKSKEGTLGQGISSKPGSVGGGVGGGPPQMKSSSQGMGVGKPGSSPITKHGLSGSGSSGGGVGSGNKMKPQGGKPPGSLMNPNIKPNISPSHSRPSGSDKLSSTMKMQQSQVPGTPPSSKAKSPMGSGGGGLVGSKSSSGGGMGSQKQLGGGGSQSQYGSSGGGGGGKSPSRNKKPSLTAVIDKLKSGDPPVGGSGGTGVGGPGGGPPNLGPSKHGMSSQGGEYPIKREKSEKEGKSKVSVSVGASGDKKLIDPKTGGVSSTGVAKIIISKPDGGSPSIKAKVTLQKPGEGSGESMRPQLSGLKASPLFSGSTPKHDRSSPSHSRSPGYTPLNHDSESESGSSSVAEKSHQNSPSSDDDQSMRPRDKDREREKKKSSSIPVYMRNEDDDLMDSALTGNL
Length1433
PositionMiddle
OrganismOncorhynchus mykiss (Rainbow trout) (Salmo gairdneri)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Protacanthopterygii> Salmoniformes> Salmonidae> Salmoninae> Oncorhynchus.
Aromaticity0.04
Grand average of hydropathy-0.594
Instability index50.68
Isoelectric point8.83
Molecular weight147254.97
Publications
PubMed=24755649

Function

Annotated function Component of the Mediator complex, a coactivator involved in the 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

>MDP00414
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     206.26|      38|      38|    1033|    1070|       1
---------------------------------------------------------------------------
  914-  950 (40.43/ 6.46)	GKSKDKPPkrkKLDPDGKS.PSHSTGGRPYTPP...SGGSG
 1033- 1070 (71.95/17.83)	GKIKSKEG...TLGQGISSKPGSVGGGVGGGPPQMKSSSQG
 1074- 1106 (47.25/ 8.92)	GKPGSSPI...T.KHGLSG.SGSSGGGVGSG.NKMKP..QG
 1178- 1207 (46.63/ 8.70)	G...SQKQ...LGGGGSQSQYGSSGGG.GGG....KSPSRN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             9|     658.66|      81|     281|     952|    1032|       2
---------------------------------------------------------------------------
  450-  539 (84.82/15.32)	NPmglpgvgGGN..TP..........................TGNSGG...GNFAGP.....ITSLF.G...IS..RSQ.SQGGEC.................................TPQAGqQQQGGQS.........GDDFSKVT......................................Q.................................npiltsL......................................LQI.............T.GAT..P...PP..........TS..SPATN..T
  540-  652 (64.89/10.03)	K..........N..HPM....................L.MNLLKDNPAqdfAALYGSsplerQNSSS.G...SP..RTD.GMGGTC.................................PGGMNkQQSGSMQ.........PHHHQHQP......................................T..............................eddfhrelfS......................................MDVdasqnpifdvnlpG.DGL..D...TP..........HSitPAPSQcgT
  653-  754 (79.35/13.87)	PP.......SGAgqQPPpgsslprmvrlsssdsigadI.NEILSDLPE...QTGKGG......SGSH.G...QH..HLG.SGEDGG.................................PLGTP.................HRDSSSSG......................................Q.......................................G......................................SAV......feadifnT.NSN..E...NP..........FT..NAADL..I
  755-  860 (67.04/10.60)	AE.......ATA..TTP...........tsdssstnfF.PD.TVDFNP...ELL.........TSSH.GfpqAYfdDSS.PSADGD.................................LDLVK.GFGGSSQ.........QNTPSGGG......................................K....................................pllG.............................qaldlgdshSSH.............M.GGG..Q...SP......lmmaMG..GGSSD..F
  861-  970 (78.15/13.55)	KS.......GEA..KAK...........................QQQQ...GLMR.A.....KDDNG.G...G....SG.RSSGMG.................................MTGSS.SIEGKQV.........KRSRTPSSegkskdkppkrkkldpdgkspshstggrpytppsggsgS.......................................G......................................GSI.............G.GGS..K...SP..........GS..SGRSQ..T
  971- 1138 (92.96/17.48)	PP.......GGA..TPP....................I.PKITIQIPK...GTLSGG.....KTSSH.G...GY..TSS.SSAGGG.................................TGGAG.STSGSKS.........HHSHSSSS......................................SgkikskegtlgqgisskpgsvgggvgggppqmksssqgmGvgkpgsspitkhglsgsgssgggvgsgnkmkpqggkppGSL.............M.NPN..I...KPnispshsrpsGS..DKLSS..T
 1146- 1236 (56.58/ 7.83)	VP.......G....TPP....................S.SKA..KSPM...G..SGG...........G...GL..VGSkSSSGGGmgsqkqlggggsqsqygssggggggkspsrnkkPSLTA.VID..................KLK......................................S.......................................G......................................DPP.............V.GGS..G...GT..........GV..GG......
 1237- 1296 (55.75/ 7.61)	.P.......GGG..PPN....................LgP........................SKH.G.........M.SSQGGE.........................................YPIKR.........EKSEKEGK......................................S.....................................kvS......................................VSV.............GaSGD..KkliDP..........KT..GGVSS..T
 1306- 1397 (79.11/13.81)	PD.......GGS...PS....................IkAKVTLQKP....GEGSGE.....SMRPQlS...GL..KAS.PLFSGS.................................TPKHD.RSSPSHSrspgytplnHDSESESG......................................S..............................................................................SSV.............A.EKShqN...SP..........SS.dDDQSM..R
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.16|      21|     223|     196|     225|       4
---------------------------------------------------------------------------
  196-  225 (30.62/25.85)	KMNLPMPFSLSFiqrmGNATGIpvfetPPT
  429-  449 (42.54/16.50)	KKNLPPAGSPGY....GMGTGV.....DPT
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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 MDP00414 with Med1 domain of Kingdom Metazoa
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