<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 MDP01937

Description Mediator of RNA polymerase II transcription subunit 1
SequenceTRQQKDTKEAEKQSRMAALLERLHAKHNASRPWEGTINVVRQAMEKRSVMNEAGHQLLLNCLETLQRALKVSSLPSMTDRLESIARQNMLGSHLSTTKTECYITSDMFYVEVQLDTGGQLVDVKVAHQGENPTSCSELIQHLSEKNFEAFSKHLKGLVDLYRLPGDNKLKTKMYIALQSLELDLTKMMTMFRLATNANTVETILHGSVGWLTPRSGGNLVSLQCYVSPYDIFEVETGSQLSLPDNNVPRSLGVSVSVTIEGTSAVYKLPIAPLITGSHPVDNKGTPSFSTVSNSNSVDLPACFFLKMNRPMPFSLSFIQRLGSATSIPVFETPPPLSLLYQLIVQSQLQLLEEGSATPATLNNMHFYSILPDQHHCYFLNGDAPVQDGHSLQGAMVSKIPFRHPAHVPLLLDIIRHQAAYNTLIGSCVKRTSVKEDSAGLLQFEVCPLTDSSFSVSFQHPVNESLVCVVMEVIDSRQVSCHLYKGPSDALICTDEFITKVVTRCMSIPVTMRAIRRKAETIQADTPALSLIAQTVETMVKNNPPPSGSPPYKMVGGDGTNPMGLPGLTGGNTPTGGGPPGGPNFAGPITSLFGMPRAERQAQEQQVHSDDYSKVTQNPILTSLLQITGNVGSSPSSQNAPQPHQTPPPTSSPASNTKSHPMLMNLLKDNPTQDFAALYSSSPLERQNSSSGSPRTDSMGGACPSGNTKGSSMPQHLQHHSVSHEDDFHRKLLSMDVDASQNSIFDVNLAGDSLDTHHSITPTLSQCGTPPPGSGMAYSQSHVQTQQQQPGSVPPRIVRLPSSDSIGPDITEILQELPEQTGKGSGGSHGQPEDGGPLGTPIRDSSSSGQGSAVFDSADIFNTNSNENPFTDAADLIAEAAATAATPNSDSSSTNFFPDASDFNPDLLTSGHGFSQSYFDDSSPSADGDMDLVKGFGGGSQQNTPSGTPQNPQHGQSTPEPSLKDPFDMGIVFGGNSGGGKPLLGQAPDLIDTHSGGSQSPLMMGLGGACSDFKTTDPKIKTGLIRPKDENGGNGGSGSGMGSSSAEGKQIKRSRTPSSEGKSKDKPPKRKKLDPDGKSPSHSSGGRPYTPPSGGSGSGGSISGGGSKSPGSSGRSQTPPGGATPPIPKITIQIPKGTITGGKTSSHSGYTSSSSATSSTGGVGGTSSSSKSHHSHSSSSGKIKSKEGSMTQSSSSKPGGSGGGGGQSQMKGSSQGMGVAKSGSSPITKHGLSGPGGAGGGMGSGSKIKPQGGKPPGSLMNPNIKPNISPSHSRSSSSGDKLSSPMKMQQSQVPGTPPSSKAKSPIGSGSGSSGGSKSSSGGSSQKPGGGGSSGSTSSSSTSSSGSMSFSGGSQSQYGSGAGQNNSNNPNSKGKSPSRNKKPSLTAVIDKLKSVGSGGVGEDGCEVGTPVGGPGSTSTPCGPGNVPSGPPNVGSSKHSSSSQSGDYKREKSDKDGKAKVMVTGGGSGDKKMMDPKTSGSGGTTLAKIIISKPDGGSPSIKAKVTLQKPGEGSGESIRQQISGLKASPLFSGSTPKHDRSSPSHSRSPGYTPLNQDSESESGSSSVAEKSHQNSPSSDDDQTVRPLPPQDYMSSIPLSSGEKHKKHKKEKKKLKDKERERDRDRDRDRDKEKKKSSMSMGSSSHSTKADSWSRSPISASDSSLSMLGSDRPSRSSPMYMRNEDDDLMDSALTGD
Length1692
PositionMiddle
OrganismPoecilia formosa (Amazon molly) (Limia formosa)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Ovalentaria> Atherinomorphae> Cyprinodontiformes> Poeciliidae> Poeciliinae> Poecilia.
Aromaticity0.04
Grand average of hydropathy-0.659
Instability index54.11
Isoelectric point8.70
Molecular weight176081.21
Publications









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

>MDP01937
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
            12|     992.91|     105|     106|    1177|    1281|       2
---------------------------------------------------------------------------
  546-  606 (48.52/ 6.31)	..........................................................................................................S...G...S.PP.Y................KMVGG.......DGtnP....MGL..PGLTGG....NT.......P..T..G...GG..PPG....G...PNFAGPI......TslfgmPR.AERQAQE.Q....QV
  609-  693 (80.36/16.22)	DDYSKV...TQNPilTSLLQ...............................I.......TGNV.G..SS....PSS.....Q......NA..PQ.....PHQTP.PP...T...S.SP.A...............................................S....NTKSH....P..M...............LMNllkDNPTQDFaalyssS.....PL.ERQNSSSGS....P.
  785-  853 (60.51/10.04)	..........................................................................QQ.....QQ...P.GSvpPR.....IVRLP.SS...D...SiGPdI................TEILQ.......EL..P....EQT..GKGSG.....GSHGQ....P..E..D...GG..PLG.T......P.IR..................DSSSSGQGS....AV
  854-  956 (76.45/15.00)	FDSADIfntNSNE..NPFTDAadliaeaaataatpnsdS......SST...N.......FFPD.A..SD....FNP.....DL...L.TS.........GHGFS.QSyfdD...S.SP.S................ADGDM.......DL..V....KGF..GGG................S..Q..Q...NT..PSG.TPQN...PQ....................HGQS...........
  957- 1088 (58.72/ 9.48)	..................TPE.................P......SLK..dPfdmgivfGGNS.G..GGkpllGQApdlidTH...S.GG..SQsplmmGLGGA.CS...DfktT.DP.K................IKTGLirpkdenGG..N....GGS..GSGMGSssaeGKQIKrsrtPssE..GkskDK..PPKrKKLD...PDGK.........S.....PS.H...SSGGR....PY
 1089- 1176 (104.54/23.75)	TPP.................S.................G......GSG...S.......GGSI.S..GG....G.S.....KS...P.GS..SG.....RSQTP.PG...G...AtPP.I................PKITI.......QI..P....KGTitGGKTSS....HS.................GY..TSS.SSAT...SS.TGGV......G.....GT.SSSSKSHHS....HS
 1177- 1281 (198.47/53.00)	SSSGKI...KSKE..GSMTQS.................S......SSK...P.......GGSG.G..GG....GQS.....QM...K.GS..SQ.....GMGVA.KS...G...S.SP.I................TKHGL.......SG..P....GGA..GGGMGS....GSKIK....P..Q..G...GK..PPG.SLMN...PNIKPNI......S.....PS.HSRSSSSGD....KL
 1282- 1376 (76.16/14.91)	SSPMK............MQQS.................QvpgtppSSKaksP.......IGSGsGssGG....SKS.....SS...G.GS..SQ...kpGGG.G.SS...G...S.TS.S................SSTSS.......SG..SmsfsGGS..QSQYGS....GA.................GQ..NNS.N..N...PNSKGK.......S.....PS................
 1377- 1450 (84.83/17.61)	.........RNKK..PSLTAV................iD......KLK...S.......VGSG.G..VG....ED.............GC..EV.....GTPV....................................G.........G..P.............GS....TST......P..C..G........PG.NV.....PSGPPNV......G.....SSkHSSSSQSGDykreKS
 1451- 1547 (73.47/14.07)	D..........KD..G......................K.......AK...V.......MVTG.G..GS....GDK.....KMmdpK.TS.........G......S...G...G.TT.LakiiiskpdggspsikAKVTL.......QK..P....GE.......GS....GESIR....Q..QisG...LKasPLF.SGST...PK.HDRS......S.....PS.HSRS..PG.......
 1550- 1601 (49.04/ 6.47)	................PLNQD.................S......ESE...S.......GSSS.......................................VAeKS..hQ...N.SP.S................SDD.................................DQTVR....P..L..........PPQ.DYM........SSI......P.....LS.......SGE....KH
 1606- 1692 (81.84/16.68)	KEKKKL...KDKE.....RER.................D......RDR...D.......RDRD.K..EK....KKS.....SM...SmGS..SS.....HSTKA.DS...W...SrSP.I......................................SA.......S....DSSLS....M..L..G...SD..RP..SRSS...PMYMRNE......D.....DD.LMDSALTGD......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.73|      21|      23|     445|     467|       4
---------------------------------------------------------------------------
  445-  467 (30.96/25.23)	VCPLTDSSfSVS...FQHPvNESLVC
  469-  492 (32.76/17.10)	VMEVIDSR.QVSchlYKGP.SDALIC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.40|      12|      28|     368|     379|       5
---------------------------------------------------------------------------
  368-  379 (24.99/13.05)	SILPDQH..HCYFL
  397-  410 (18.42/ 7.83)	SKIPFRHpaHVPLL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.26|      22|     509|     219|     240|       6
---------------------------------------------------------------------------
  219-  240 (39.44/22.14)	LVSLQCYVSPYDIFEVE.TGSQL
  731-  753 (32.82/17.31)	LLSMDVDASQNSIFDVNlAGDSL
---------------------------------------------------------------------------




































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 MDP01937 with Med1 domain of Kingdom Metazoa
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