<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 MDP25466

Description Mediator of RNA polymerase II transcription subunit 1 (Fragment)
SequenceXIATNANTVETILHGSVGLLTSRSGGHLVSLQCYVSPNDIFEEEKAAHLNTDVNIPHTLGVSVSVTVEGTTSVYKLPIAPLITGSHPVDNKGTPSFSSITNSNCVDLPACFFLKMNCLMPFSLSYIKKMGSTTGIPVFETAPTLSPLYDLIIKSQLREEGGASPPSAQSMRFYASLPGQQHCYFLNGDAPVQDGRSLQGALVSKIPFRHPAQVPALLDIIRHQAAYNTLIGSCVKKACIKEDTPGLLQFEVCPLTDSSFSVSFQHPVNESLVCVVMEVIDSMQVACKLYKGLSDALICTDDFITKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEIMVKKNLPPTGSPGYMGMGTGPDGSNPMGLPLNSGNNSVVCVGGNGSFQGPITSMFNMGRTGQGSSCIDTMGQVGGQQQAMQQQHQQSQSHGSDDFNKVTQNPILTSLLQITGSVGSSPTPQQPQPHQTPPTTTSPASNTKNHPMLMNLLKDNPSQDFAALYSSSPLERQNSSGSPRTDNQGQPCSGTKGKKKRLRGSDKGVMGAAGGMSMKQSQQQVVDMTQHHHLTSHSEDDFHRELFSMDVDASQNPIFDVSLPGDGLDTPHSITPAPSQCGTPPPGPGMQYHPQCHVQPQIQVQSQSQGSIPRMVRLSSSDSIGPDINDILSDIPDQANKGSNIGHGQHLMTSEDGGSLGTPVRDSSSSGQGSTVFEADLFNTNSNENPFTDAADLIAEAATATTPNSDTSSTNFFPDTDFNPELLSGQGSFSQTYFEDSSPSPDPDLELVKSFSGGSQQNTPTGTPQNPASHGQNTPETSLKDPFEIGIFGGNGGGGKPLMAPASDIADSHHAHTGGGQSPLIGIVVAGNDFKNVDAKAKQQQMRTKEDHVGGSSGQGMVSACSSEMKQVKRSRTPSSEGKSKDKPAKRKKLEPDAKSPSHSAGGRPYTPPCGSATSVGLVSTGGSKSPGSVGRSQTPPGGATPPIPKITIQIPRALTGGKTSSHGGYTSSSSTSGGTGNTIGTSNSKSHHSSSSGKIKSSKLESSVGQGNIAKQSSAAGTGSGIPSQSKVSSMGMGTGKPSSSPITKHGLSSSGGGGSSGSGSGIKNKPQGGKPPGSLMNPNIKPNISPSHSRSGGSDKLSSPMKQGQVPGTPPSSKAKSPIGSGSGSGGNKCSSGGGVGSKSLSSSSSNSASTSCASSTGSSSSGSMPFSSNGQSQYGSSGGNCSGGGGGGGCGNNPNAKGKSPSRNKKPSLTAVIDKLKSVGSGGNGGEEIESCGGSSGVGQQNTVPTSSKHSMSSQGGEFLSKRDKIDKDGKSKMSGSGGNSSDKKMIDAKSNTMTGTGVAKIIISKPEGGSPSIKSKVTLQKPGEGSGDGGIRSQHSGHKASPLFSGSTPKHDRSSPSHSRSPGCTPMNPDSESESGSSSVAEKSHQNSPSSDDDQTMRLHQPIQDYMSSISISQSEKHKKHKKEKKKQKDRERDKERDKEKEKKKSMSCGPSHTVKTDNWSRSPISSETSVSLLSSERSSRPSPVYMHTEDDDLMDSALTGNLEPFK
Length1550
PositionMiddle
OrganismDanio rerio (Zebrafish) (Brachydanio rerio)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Ostariophysi> Cypriniformes> Danionidae> Danioninae> Danio.
Aromaticity0.03
Grand average of hydropathy-0.643
Instability index54.82
Isoelectric point8.69
Molecular weight160565.17
Publications
PubMed=23594743

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. 
ECO:0000256	RuleBase:RU364059
GO - Cellular Component
mediator complex	GO:0016592	IBA:GO_Central
GO - Biological Function
retinoic acid receptor binding	GO:0042974	IBA:GO_Central
thyroid hormone receptor binding	GO:0046966	IBA:GO_Central
transcription coregulator activity	GO:0003712	IBA:GO_Central
vitamin D receptor binding	GO:0042809	IBA:GO_Central
GO - Biological Process
cellular response to thyroid hormone stimulus	GO:0097067	IBA:GO_Central
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central

Interaction

Binary Interactions











Repeat regions





Repeats

>MDP25466
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             8|    1287.16|     168|     169|     941|    1108|       1
---------------------------------------------------------------------------
  350-  455 (113.32/22.81)	......PPTGS.........................PGYMGMG.TG......PDGSNP.........MGLP..LNSGNNSvvCVGG.......................................NGSFQG.PITSMFNMGRTGQGS..........scIDTMGQVGGQQQAMQ....Q................QHQ.Q...SQSHGSddfN.......KV.TQ..NP.I.LTS.LLQITG..........................
  456-  607 (162.04/35.85)	............................SVGSSP.TPQQPQPHQTP......P.TTTS...PASN.TKNHPMLMNLLKDN..PSQDFAALYSSSPlERQNS.............SGSPRTDNQ..GQPCSGtKGKKKRLRGS.DKGV............M....GAAGGMSMKQ....S................QQQVV...DMTQHH...H.......LT.SH..SE.D.DFHrELFSMDV...DASqnpifdvSLPGDGL.DTPH
  624-  807 (186.85/42.48)	GMQ.YHPQCHVQPQI..QV........QSQSQGS.IPRMVRLSSSD......SIG..P...DINDILSDIPDQANKGSNI..GHGQHLMTSEDGG.SLGTP.............V.......R..DSSSSG.Q.GSTVFEADLFNTNsnenpftdaadlIAEAATATTPNSDTS....StnffpdtdfnpellsgQGSFS...QTYFED...S.......SP.SP..DP.D.LEL..VKSFSG...GSQ.......QNTPTGTPQNPA
  808-  941 (153.80/33.64)	SHGQNTPE......................TSLK.DPFEIGIFGGN......GGGGKPlmaPASDIA.DSHHAHTGGGQS..PLIGIVVA........GND.............FKNVDAKAK..QQQM...RTKEDHVGGSSGQGM............VSACSS......EM.....K................QVKRS...RTPSSE...G.......KS.KD..KP.A.KRK.KLEPDAK...SPS.......HSAG........
  942- 1108 (282.18/67.99)	.GRPYTPPCGSATSV..GL........VSTGGSK.SPGSVGRSQTP......PGGATP...PIPKITIQIPRALTGGKTS..SHGGYTSSSSTSG.GTGNT.............IGTSNSKSH..HSSSSG.KIKSSKLESSVGQGN............IAKQSSAAGTGSGIP....S................QSKVS...SMGMGT...G.......KP.SS..SP.I.TKH.GLSSSGG...GGS.......SGSGSGIKNKPQ
 1109- 1237 (152.01/33.16)	GGKP...P.GS.......LmnpnikpnISPSHSR.SGGS.DKLSSPmkqgqvPG..TP...P.............SSKAK..SPIG..SGSGSGG.NKC............................SSGG.GVGSKSLSSS..SSN............SASTSCASSTGS.........................S..S...SGSM..............PfSS..NG.Q.SQY.G..SSGGncsGGG.......GGGGCG..NNPN
 1246- 1379 (129.66/27.18)	NKKP......SLTAVidKL........KSVG....SGGN...................................GGEEIE..SCGG......SSGvGQQNT.............VPTS.SK.H..SMSSQG.....GEFLSK..RDK............IDKDGKSKMSGSGGN....S..........sdkkmiDAKSN...TM.TGT...GvakiiisKPeGG..SPsIkSKV.TLQKPGE...G.........SGDG.GIRSQHS
 1380- 1531 (107.29/21.19)	.........GHKAS...PL........FSGSTPKhDRSSPSHSRSP........GCTP...MNPD.......SESESGSS..SVAEKSHQNSPSS.DDDQTmrlhqpiqdymssISISQSEKHkkHKKEKK.KQKDRERDKERDKEK............EKKKSMSCGPSHTVKtdnwS................RSPISsetSVSLLS...S.......ER.SSrpSP.V.YMH.................................
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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 MDP25466 with Med1 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) ASQNPIFDVSLPGDGLDTPHSITPAPSQCGTPPPGPGMQYHPQCHVQPQIQVQSQSQGSIPRMVRLSSSDSIGPDINDILSDIPDQANKGSNIGHGQHLMTSEDGGSLGTPVRDSSSSGQGSTVFEADLFNTNSNENPFTDAADLIAEAATATTPNSDTSSTNFFPDTDFNPELLSGQGSFSQTYFEDSSPSPDPDLELVKSFSGGSQQNTPTGTPQNPASHGQNTPETSLKDPFEIGIFGGNGGGGKPLMAPASDIADSHHAHTGGGQSPLIGIVVAGNDFKNVDAKAKQQQMRTKEDHVGGSSGQGMVSACSSEMKQVKRSRTPSSEGKSKDKPAKRKKLEPDAKSPSHSAGGRPYTPPCGSATSVGLVSTGGSKSPGSVGRSQTPPGGATPPIPKITIQIPRALTGGKTSSHGGYTSSSSTSGGTGNTIGTSNSKSHHSSSSGKIKSSKLESSVGQGNIAKQSSAAGTGSGIPSQSKVSSMGMGTGKPSSSPITKHGLSSSGGGGSSGSGSGIKNKPQGGKPPGSLMNPNIKPNISPSHSRSGGSDKLSSPMKQGQVPGTPPSSKAKSPIGSGSGSGGNKCSSGGGVGSKSLSSSSSNSASTSCASSTGSSSSGSMPFSSNGQSQYGSSGGNCSGGGGGGGCGNNPNAKGKSPSRNKKPSLTAVIDKLKSVGSGGNGGEEIESCGGSSGVGQQNTVPTSSKHSMSSQGGEFLSKRDKIDKDGKSKMSGSGGNSSDKKMIDAKSNTMTGTGVAKIIISKPEGGSPSIKSKVTLQKPGEGSGDGGIRSQHSGHKASPLFSGSTPKHDRSSPSHSRSPGCTPMNPDSESESGSSSVAEKSHQNSPSSDDDQTMRLHQPIQDYMSSISISQSEKHKKHKKEKKKQKDRERDKERDKEKEKKKSMSCGPSHTVKTDNWSRSPISSETSVSLLSSERSSRPSPVYMHTEDDDLMDSALTGNLEPFK
2) PITSMFNMGRTGQGSSCIDTMGQVGGQQQAMQQQHQQSQSHGSDDFNKVTQNPILTSLLQITGSVGSSPTPQQPQPHQTPPTTTSPASNTKNHPMLMNLLKDNPSQDFAALYSSSPLERQNSSGSPRTDNQGQPCSGTKGKKKRLRGSDKGVMGAAGGMSMKQSQQQVVDMTQHHHLTSHSEDDFHRELFSMDV
588
393
1550
586










Molecular Recognition Features






MoRF SequenceStartStop




1) SDSDHKKKKKKKDDDPDRKKKKKDKKKKKNRHSPDHPGMT
210
249