<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 MDP12008

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMAAVSMQGCSPNPARELALSTQSGGNQALADRVKAEEGTEAEKQSRVNALLERLHAKHNASRPWQETSKVVRQAMEKRGQMNAAGHQLLLTCLETLQKALKVSSLPSMTDRLESIARQNMLGSHLSPSGTECYITSDMFYVEVQLDTAGQLVDVKVAHHGENPASCPELIQHLRDKNFEEFSKHLKGLVNLYKLPGDNKLKTKMYLALQSLELDLTKMMHMFRLATNANTVETILHGSVGLLTARSGGHLVSLQCYVSPYDVFEERTGSQLNFTDTNVPRSLGVSVSVTVEGTSSIYKLPIAPLITGSHPVDNKGTPSFSSVTNSNCVDLPASFFLKMNLPMPFSLSFIQRMGNATGIPVFETPPTLSPLYELIVQSQLQEEVGNPLTTPTHAMRFYASLPDQQHCYFLNGDAPVQDGHSLQGTLVSKIPFRHPAQVPALLDVIRHQAAANTLIGSCVKRTFIKDDTPGLLQFEVCPLTDSSFSVSFQHPVNESLVCVVMEVIDSRQVSCKLYKGLSDALICTDDFITKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEIMVKKNLPPAGSPGYGMGTGVDPTNPMGLPGVGGGNTPTGNSGGGNFAGPITSLFGINRSQSQGGECTPQGGAAGQQQQQQGGQSGDDFSKVTQNPILTSLLQITGAVGTSPTPQNSSSGSQPHQTPPPTSSPATNTKNHPMLMNLLKDNPAQDFAALYGSSPLERQNSSSGSPRTDGMGGTCPGSGTKGKKKRPRGMEKGGVPGAGGGGMGGMNKQQSGSMQPHHHQHQPTEDDFHRELFSMDVDASQNPIFDVNLPGDGLDTPHSITPAPSQCGTPPSGAGVSYHSQSHVQSQQQQQPPPGSSLPRMVRLSSSDSIGADINEILSDLPEQTGKGGSGSHGQHHLGSGEDGGPLGTPHRDSSSSGQGSAVFEADIFNTNSNENPFTNAADLIAEATATTPTSDSSSTNFFPDTVDFNPELLTSSHGFPQAYFDDSSPSADGDLDLVKGFGGSSQQNTPSGTPQNPTPHGQSTPDPSLKDPFDMSGMVFGGSSGGGKPLLGQALDLGDSHSSHMGGGQSPLMMAMGGGSSDFKSGEAKAKQQQQQGLMRTKDDNGGGSGRSSGMGMTGSSSTEGKQVKRSRTPSSEGKSKDKPPKRKKLDPDGKSPSHSTGGRPYTPPSGGSGSGGSIGGGSKSPGSSGRSQTPPGGATPPIPKITIQIPKGTLSGGKTSSHGGYTSSSSAGGGTGGAGSTSGSKSHHSHSSSSSGKIKSKEGTLGQAISSKPGSVGGGVGGGPPQMKSSSQGMGVGKPGSSPITKHGLSGSGSSGGGVGSGNKMKPQGGKPPGSLMNPNIKPNISPSHSRPSGSDKLSSTMKMQQSQVPGTPPSSKAKSPMGSGGGGLVGSKSSSGGGMGSQKQLGGGGSSSGSSSSTSSSSSSSSGSMPFSGGSQSQYGSSGGGGGGCGGGQGNNANNPNAKGKSPSRNKKPSLTAVIDKLKSVGGGGGPEDEGEPPVGGSGGGGPGGGPPNLGPSSKHGMSSQGGEYPIKREKSEKEGKSKVSVSVGASGDKKLIDPKTGGVSSTGVAKIIISKPDGGSPSIKAKVTLQKPGEGSGESMRPQLSGLKASPLFSGSTPKHDRSSPSHSRSPGYTPLNHDSESESGSSSVAEKSHQNSPSSDDDQAMRPVPPQDYMSSMPLSSGEKHKKHKKEKKKQKERERERDKDREREKKKLSSMSTGNVSHGPMKADSWSRSPILASDTSLSMMGSDRPSRPSPVYMRNEDDDLMDSALTGNL
Length1794
PositionMiddle
OrganismSalmo salar (Atlantic salmon)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Protacanthopterygii> Salmoniformes> Salmonidae> Salmoninae> Salmo.
Aromaticity0.04
Grand average of hydropathy-0.659
Instability index54.37
Isoelectric point8.89
Molecular weight185119.40
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

>MDP12008
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             8|    1385.64|     169|     170|    1196|    1364|       1
---------------------------------------------------------------------------
  580-  737 (186.28/38.13)	GYGMG.............TGVD...PTNP.........M...GLPG...........V....G..GGNTPTGNSGGGN..FAG..PITSLF........GINRS..............qsqGGEC..T.P..qgGAAG..QQQQQ..QGG..qSGDDFSKVT.QNP....................ILTSLLQITG..AVGTSptpqNSSSGSQPH.QTPPP.TSSPA...TNTKNH...PmLMNL..LKDNP.AQDF.AALYGSSPlerQN..SSS
  742-  880 (173.05/34.81)	TDGMG.............GTCP...GSGTkgkkkrprgMEKGGVPG...........A....G..GGGMGGMNKQQ.S..GS........MQP..........H.................HHQH..Q.P....TEDDfhRELFS..MDV...DASQNPIFDVNLPGDGLD........TPHS...ITPAPSQCGT..PPSGA....GVSYHSQSH.....V.QS...................QQ..QQQPP.P.......GSSLP...RMvrLSS
  881- 1026 (150.69/29.20)	SDSIGadineilsdlpeqTGKG...GSGS.........HGQHHL.G...........S....GEDGGPLGTPHRDSSS..SGQ..GSAVFEADifNTNSNENPF.................TNAA..D.L....IAEA..TATTPtsDSS...STNFFPD.TVDFNPELL........TSSHGfpqAYFDDSS.................P......................SADG...D.L.DL..VK..........GFGGSSQ...QN..TPS
 1027- 1172 (164.00/32.54)	...................GTP....QNP..........TPHGQSTpdpslkdpfdmS....GMVFGG.SSG........GGK..P...LLGQ..AL..DLGDS............hsshmGGGQ..S.PlmmaMGGG..SSDFK..SGE...A.....KAKQQQQQGLM.......RTKDDN...GGGSGRSSGM..GMTGS....SSTEGKQVK.RSRTP.SSEG.....KSKD...............KP.PK.R.KKLD...P...DG..KSP
 1173- 1306 (235.74/50.54)	SHSTG..............GRP...YTPP............SGGSG..................SGGSIGGGSK......................................................sP....GSSG..RSQTP..PGG...ATPPIPKITIQIPKGTLSGG....KTSSHG...GYTSSSSAGG..GTGGA....GSTSGSKSH.HSHSS.SSSGK...IKSKEG...T.LGQA..ISSKP.GSVG.GGVGGGPP...QM..KSS
 1307- 1469 (230.82/49.30)	SQGMG.............VGKP...GSSP.........ITKHGLSG...........S....GSSGGGVGSGNKMKPQ..GGK..PPGSLMNP..NIKPNISPS............hsrpsGSDKlsS.T....MKMQ..QSQV...PG.....TPPSSK..AKSPMGSGGGGlvgsKSSSGG...GMGSQKQLGG..G........GSSSGSSSStSSSSS.SSSGS...MPFSGG...S.QSQY..GSSGG.G..G.GGCGGG............
 1470- 1604 (132.08/24.52)	.QGNN.............ANNPnakGKSP.......srNKKPSLTA...........VidklKSVGGGGGPEDEGEP........PVGG............SGG.................G...............G.........PGG...GPP..............NLG....PSSKHG.......MSSQGGeyPIKRE....KSEKEGKSK.VSVSV.GASGDkklIDPKTGgvsS.TGVAkiIISKP.........DGGSP...SI..KAK
 1605- 1748 (112.97/19.73)	...VT.............LQKP....................G.EG...........S....GES.........MRPQlsGLKasPLFSGSTP..K.HDRSSPShsrspgytplnhdseseSGSS..S.V....AEKS..HQNSP..SSDddqAMRPVPP...Q......................DYMSSMPLS...............SGEK.H.KKHKKeKKKQK...ERERER...D.KDRE..REKKKlSSMStGNVSHGP.....M..KAD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.47|      17|      19|    1751|    1767|       7
---------------------------------------------------------------------------
 1751- 1767 (29.43/16.89)	SR.SPILASDTSLSMMGS
 1771- 1788 (27.05/14.89)	SRpSPVYMRNEDDDLMDS
---------------------------------------------------------------------------




































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 MDP12008 with Med1 domain of Kingdom Metazoa
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