<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 MDP28926

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMSLLLRLHAKHNASRPWQETCKVVQETHDIYIFFFSVSSLSSMTDRLESIARQNMLGSHLSPTGTECYITSDMFYVEVQLDSNGQLVDVKVAHQGENPTSCPELIQHLREKKFEEFSKHLKGLVDLYKLPGDNKLKTKMYIALQSLELDLAKMMHMFRLATNANTVETILHGSVGLLTPRSGGNLVTLQCYVSPYDIFQEGSGTQLNLTDSNVPRSLGVSVSVTIEGTSAVYKLPIAPLITGSHPVDNKGTPAFSTVTNSNCVDLPACFFLKMNRPMPFSTAFIKRMSNTAPSLSPLYQLIVQSQLQLLEEGSSLPAPSHNMHFYSILPDQQHCYFLNGNAPIQDSHSLQGAMVSKIPFRHPAHVPLLLDIIRHQAAYNTLIGSCVRQKSIKEDSAALLQFEVCPLTDSSFGVSFQHPVNESLVCVVMEVIDSRQVSCKLYKGQSDALICTDDFITKVVQRCMSIPVTMRAIRRKAETIQADTPALMLIAQTVETMVKNNLQSSGSPTYNMACPTSGAASQQQLLQQQGQGHTDNYNKVTQNPILTGLLQITGNVGSSPSSQNAPPPHQTPPPTSSPASNTKNHPMLMNLLKDNPTQDFAALYGSGTIERQNSSSCSPRTDSMAGASGSCGGSGGLSMKSQQSSMPQQQQHHPVSHEDDFHRELFSMDVDASQNSIFDVNLAGDGLDTPHSITPAPSQCGTPPPGSNMPYSQSHIQPQQPPGTVPPRMVRLSSSDSIGPDITEILQDLPEQPGKGSSESHGQHPMGSGGDDVGPLGTPIRDSSSSGQGSAVFDSGDIFNTNSNENPFTDTDLIPTPPDPIQDSDCSSSSFFHDPPDFSPEHSFTQNFFENCSESPDGVMDMVKGFGSQQNTPSGTPQNPTPHGQNTPEPSLKDPFDMGIVFGGNSGSGKPLLGHAPDLGDTHGGGSQSPLMMGLGAACSDFKSAEPKVKQQQGLVRAKEDNGASGGSNSGMGMGTSSTEGKQVKRSRTPSSEGKSKEKPPKRKKVDPDGKSPSHSSGGRPYTPPSGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTITGGKTSSHSGYTSSSSATSSSGGTGSTSSKSHHSHSSSSGKIKSKESSLSQGNNSKPGGAVGGSGQSQSKGSSQGVGKPGSSPITKHGFSGPGGAGSGNKIKPQGGKPPGSLINPNVKPNISPSHSRSSGSGDKLSSPMKMQQSQVPGTPPSSKAKSPMGSGGSSSGGSKSSSGGGQSSQKPIGGSSSSTASSSSSSSSSSSGSMSFSGGSQSQYVGGGGGSGGAGGSGGGTGQNNSNNPNAKGKSPSRNKKPSLTAVIDKLKSVGGGGVGEDGCDVGPPVGGAGSGAPPGGSGNVSSGPSNVGSTKHTSSSQNVEYKREKSDKEAKAKVSVSGGNSGEKKTMDSKAGGVGGTTLAKIIISKPDGGSPSIKAKVTLQKAGEGSSDSIRPQISSLKASPLFSGSTPKHDRSSPSHSRSPAYTPLNPDSESESGSSSVAEKSHQNSPSSDDDQTMRPLPPQDYMSSIPLGSGEKHKKHKKEKKKQKEKERERDRDRERDREKEKKKSSLSMGLSSHPMKADSWSRSPISASDSSLSMLSSDRPSRSSPMYMRNEEDELMDSALTGKFDPN
Length1627
PositionMiddle
OrganismOryzias latipes (Japanese rice fish) (Japanese killifish)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Ovalentaria> Atherinomorphae> Beloniformes> Adrianichthyidae> Oryziinae> Oryzias.
Aromaticity0.04
Grand average of hydropathy-0.673
Instability index59.05
Isoelectric point8.65
Molecular weight170263.91
Publications
PubMed=17554307

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

>MDP28926
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             7|    1159.80|     149|     163|     962|    1124|       2
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  503-  658 (154.34/30.40)	..SSGSPT.......yNMACPTSG.............A..............ASQQ......QLLQQQGQ..GHTDN...YNKVTQN.........PiltgllqiTGN..............VGS.SPSSQN...ApppH.Q..TP........PPT....SSPasntknhpmlmnllkdnPT..........QDFA..AL.....YGSGTIERQNSSSCS...................PRTDSmAGASGSC.....GGSGGL...S............MKSQQSSMPQQQ.......QHHP...VSHED
  668-  795 (145.59/28.26)	DVDASQNS........IFDVNLAG............................DGLDTPH..SITP.APSQ..CGTPP...P..........................................GSNMPYSQS.hiQ...P.Q..QP........PGT....VPP.................RMvrlsssdsigPDITeiLQ....dLPE...QPGKGSSES..................hGQHPM.GSGGDDV.....GPLGTPI.......RDSSSSGQ.......................GSAVFDSG
  799-  960 (175.20/35.50)	NTNSNENP........FTDTDLIP.............T..............PPDPIQD..SDC.SSSSF..FHDPPdfsPEHSFTQnffencsesP........DG........vmdmvkgFGSQQNTPSG...T...P.QnpTP........HGQ....NTP.................E...........PSLK..DP.....FDMGIVFGGNSGSGK...................PLLGH.APDLGDT.....HGGGSQSP.LM..MGLGAACSDFKSAEPKVKQ...........QQGLVRAKED
  962- 1124 (247.00/53.04)	GASGGSNS........GMGMGTSS.............T..............EGKQVKR..SRTPSSEGK..SKEKP...PKRKKVD.........P........DGKspshssggrpytppSGSKSPGSSG...R...S.Q..TP........PGV....ATP.................PI..........PKIT..IQ.....IPKGTITGGKTSSHS...................GYTSS.SSATSSS.....GGTGSTSSKSH..HSHSSSSGKIKSKESSLSQGN.......NSKPGGAVGGSG
 1126- 1282 (166.89/33.47)	SQSKGSSQ........GVGKPGSSpitkhgfsgpggaG..............SGNKIKPqgGKPPGSLIN..PNVKP.......NIS.........P.........................SHSRSSGSGD...K...L.S..SPmkmqqsqvPG......TP.................PS..........SKAK..SP.....MGSGG......SSSG...................GSKSS.SGGGQSSqkpigGSSSSTASSSS..SSSSSSSGSM.....SFSGGS.......QSQYVGGGGGSG
 1285- 1413 (148.88/29.07)	GGSGG...........GTGQN.....................................N..SNNPNAKGKspSRNKK...PSLTAVI.........D........K..................LKSVGGGG...V...G.E..DG........CDV....G.P.................PV..........................GGAGSGAPPGGS...................G..NV.SSGPSNV.....GSTKHTSSSQNveYKREKSDKEAKAK.VSVSGGNsgekktmDSKAGG.VGGTT
 1421- 1600 (121.91/22.48)	KPDGGSPSikakvtlqKAGEGSSD.............SirpqisslkasplfSGSTPKH..DRSSPSHSR..SPAYT...P....LN.........P........D................SESES.GSSSvaeK...ShQ..NS........PSSdddqTMR.................PL..........P.....PQdymssIPLG..SGEKHKKHKkekkkqkekererdrdrerDREKE.KKKSSLS.....MG...LSSHPM..KADSWSRSPISASDSSLSMLS.......SDRP........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     124.54|      33|      63|     264|     296|       7
---------------------------------------------------------------------------
  264-  296 (61.61/40.39)	DLPACFFLKMNRPMPFSTAFIKRMSNTAPSLSP
  330-  362 (62.93/41.44)	DQQHCYFLNGNAPIQDSHSLQGAMVSKIPFRHP
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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 MDP28926 with Med1 domain of Kingdom Metazoa
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