<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 MDP29642

Description Mediator of RNA polymerase II transcription subunit 1
SequenceGQEEYLEAEKQSRMAALLERLHAKHNASRPWQETCKVVRQAMEKRGVMNAAGHQLLLNCLETLQRALKVSSLPSMTDRLESIARQNMLGSHLSPSGTECYITMDMFYVEVQLDTSGQLVDVKVAHQGESPTSCPELFQHLREKNFEEFSKHLKGLVDLYKLPGDNKLKTKMYIALQSLELDLTKMMHMFRLATNANTVETILHGSVGLLTARSGGHLVSLQCYVSPYDIFEEGTGTQLNLMDNNVPRSLGVSVSVTIEGTSSVYKLPIAPLITGSHPVDNKGTPSFSTVTNSNCVDLPACFFLKMNQPMPFSLSFIQRMGNATSIPVFETPPTLSPLYQLIVQSQLQRLEEGSSPPPPPHNMHFYSVLPDQQHCYFLNGDAPVQDGRSLQGALVSKIPFRHPAQVPFLLDIIRHQAAYNTLIGSCVKRTSIKEDSAGLLQFEVCPLTDSSFSVSFQHPVNESLVCVVMEVIDSRQVSCKLYKGVSDALICTDEFITKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAQTVETMVKNNLPPSGSPTYNMVTADGSNPMGLPGLTGGNTPTGGGPNFTGPITSLYGMSRTDRQAQQGQGHSDDYSKVTQNPILTSLLQITGSVGSSPSSQNAPQPHQTPPPTSSPASNTKNHPMLMNLLKDNPTQDFASLYGSSPLERQNSSGSPRTEGMGGTCPGGMKSQQSSSMPQHHQHHQVTHEDDFHRELLSMDVDASQNSIYDVNLTSDGLDTPHSITPAPSQCGTPPSGPSMPYSQSHVQSQQQQPPGTVPPRMVRLSSSDSIGPDITEILSDLPEQTGKGSGGSHGQHPMGSGGEDGGALGTPIRDSSSSGQGSAVFDSADIFNTNSNENPFTDPADLIAEAAGTVTTPTSDSSSTNFFPDAADFNPDLLTSGHGFSQSYFDDSSPSADGDIDLVKGFGGSSQQNTPSGTPQNPTPHGQSTPEPSLKDPFDIGMVFGGNSGSGKPLLGQAPDLGDTHGGGSQSPLLSMGLGGTSSEPKVKQQQGLMRPKDENGGSGGSSSGMGMGSSSTEGKQVKRSRTPSSEGKSKDKPPKRKKLDPDGKSPSHSSGGRPYTPPSGGSGSGSSISGGGSKSPGSSGRSQTPPGGATPPIPKITIQIPKGTITGGKTSSHSGYTSSSSATSSTGGTGGTSSSKSHHSHSSSSGKIKSKEGSMTQGNSSKPGSGGGGPSQSKGSSQGMGVGKPGSSPITKHGLSGPGGTGGGIGSGNKVKPQGGKPPGSLMNPNIKPNISPSHSRSSSSGEKLSSPMKMQQSQVPGTPPSSKAKSPMGSGGGSSGGSKSSSGGGMSSQKPAGGSSSSGSSSSSSSSSSSSSSGSVGFSGGSQSQYGSGGGNAKGKSPSRNKKPSLIAVIDKLKSVGGGGVGEDGCEGGSGNVPSGPSNMAPSKHASSSQSGDYKREKSDKEAKAKVSVSGGSSGDKKLMDPKTGGVGSTALAKIIISKPDGGSPSIKAKVTLQKAGEGSGDNMRPQISSLKASPLFSGSTPKHDRSSPSHSRSPGYTPLNQDSESESGSSSVAEKSHQNSPSSDDDQTMRPLPPQDYMSSIPLSSGEKHKKHKKEKKKQKERERERDRDRERDRDKEKKKSMSMGPSSHPLKSDSWSRSPISASESSLSMLSSDRPSRPSPMYMRNEDDDLMDSALTGN
Length1677
PositionMiddle
OrganismOreochromis niloticus (Nile tilapia) (Tilapia nilotica)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Ovalentaria> Cichlomorphae> Cichliformes> Cichlidae> African cichlids> Pseudocrenilabrinae> Oreochromini> Oreochromis.
Aromaticity0.04
Grand average of hydropathy-0.686
Instability index58.39
Isoelectric point8.62
Molecular weight175033.09
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

>MDP29642
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     330.92|      55|      56|    1016|    1070|       1
---------------------------------------------------------------------------
  606-  654 (43.62/ 6.53)	SKVTQNPILTSLL...Q.I.....TGSVGS..S......PSSQNAPQPHQTPPPTSSPASntKNH.......P.
  888-  946 (48.95/ 8.37)	PTSDSSSTNFFPDaaDF.NpdlltSGHGFS..QSYFDDSSPSADG.DIDLVKGFG..GSS..QQN.......TP
 1017- 1070 (94.49/24.04)	.KVKQQQGLMRPK..DE.N.....GGSGGS..SSGMGMGSSSTEGKQVKRSRTPSSEGKS..KDK.......PP
 1130- 1181 (47.18/ 7.76)	PKITIQI....PK..GTiT.....GGKTSS..HSGYTSSSSAT.......SSTGGTGGTS..SSKshhshssSS
 1226- 1255 (46.67/ 7.58)	...ITKHGLSGP............GGTGG.....GIG..S....GNKVK....P..QG.....GK.......PP
 1261- 1304 (50.01/ 8.73)	PNIKPN...ISPS..HS.R.....SSSSGEklSSPMKM..........QQSQVPGTPPSS..KAK.......SP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     468.51|      97|     103|    1349|    1451|       2
---------------------------------------------------------------------------
  762-  848 (101.28/20.98)	...........................GTP........PSGPS......MPYSQSHVQ..S.QQQ....QPPGTVP.................PRMVRLSSSDSIGPDiteilsdlpeQTGK.G.S...........GGSHG........QHpmGSGGedG.GAL.............G.TPIRDS.SS
 1083- 1127 (49.29/ 6.29)	S........HSSGGRPYTPPS.GGSGSGSS........ISGGG.........SKSPGS..SgRSQ....TPPGGAT.................P...............................................................................................
 1318- 1381 (112.59/25.05)	S...........SGGGMSSQK.PAGGSSS..........SGSSS......SSSSSSSS..S.........................................................SSGSVGFS...........GGSQS........QY..GSGG..G.NAK.............GKSPSRNK.KP
 1382- 1526 (119.76/31.50)	SliavidKLKSVGGGGVGEDG.CEGGSGNV........PSGPSN.....MAPSKHASS..S.QSG....DYKREKS.................DKEAKAKVSVSGGSS..gdkklmdpKTGGVGSTalakiiiskpdGGSPSikakvtlqKA..GEGS..GdNMRpqisslkasplfsGSTPKHDRsSP
 1527- 1657 (85.59/17.05)	S......HSRSPGYTPLNQDSeSESGSSSVaekshqnsPSSDDDqtmrpLPPQDYMSSipL.SSGekhkKHKKEKKkqkerererdrdrerdrDKEKKKSMSM.GPSS.hplksdswsRS.PISAS...........ESSLS........ML..SSD..........................RPS.RP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.18|      21|     103|     573|     597|       4
---------------------------------------------------------------------------
  576-  596 (36.07/19.11)	PNFTGPITSLYGMSRTDRQAQ
  662-  682 (34.11/ 8.67)	DNPTQDFASLYGSSPLERQNS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.79|      22|      29|     311|     338|       5
---------------------------------------------------------------------------
  314-  338 (36.26/28.32)	SFIQRMGNATSIPvfeTPPTLSPLY
  344-  365 (44.53/19.15)	SQLQRLEEGSSPP...PPPHNMHFY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.66|      13|      71|     296|     308|       6
---------------------------------------------------------------------------
  296-  308 (26.47/16.97)	DLPACFFLKMNQP
  370-  382 (27.18/17.62)	DQQHCYFLNGDAP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.85|      13|     240|     972|     990|       7
---------------------------------------------------------------------------
  972-  986 (22.54/ 8.31)	GMVFGGnsGSGKPLL
  993- 1005 (25.31/10.91)	GDTHGG..GSQSPLL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.21|      19|      29|     219|     240|       9
---------------------------------------------------------------------------
  219-  240 (29.13/24.39)	SLQCYVSpydIFEEGTGTQLNL
  248-  266 (31.09/16.38)	SLGVSVS...VTIEGTSSVYKL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.46|      14|      28|     452|     465|      10
---------------------------------------------------------------------------
  452-  465 (25.33/17.96)	SVSFQHPVNESLVC
  477-  490 (25.12/17.74)	SCKLYKGVSDALIC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.76|      18|      29|     152|     169|      12
---------------------------------------------------------------------------
  152-  169 (29.33/19.58)	LKGLVDLYKLPGD.NKLKT
  182-  200 (26.43/16.89)	LTKMMHMFRLATNaNTVET
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.72|      12|     124|     561|     575|      18
---------------------------------------------------------------------------
  561-  575 (17.32/12.52)	GLP...GLtGGNTPtgGG
  684-  698 (23.41/ 7.04)	GSPrteGM.GGTCP..GG
---------------------------------------------------------------------------




































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 MDP29642 with Med1 domain of Kingdom Metazoa
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