<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 MDP15727

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMASAAAAAALRSGSPAREAVLDRVKVEEGTEAEKQSRVSALLERLHSKHNASRPWQETSKVVRTAMEKRGVMNSAGHQLLLNCLETLQRALKVSSLASMTDRLESIARQNMLGSHLSPSETECYITSDMFYVEVQLDSVGQLIDVKVAHHGENPASCPELIQHLREKNFEEFSKHLKGLVNLYKLPGDNKLKTKMYLALQSLELDLTKMMHMFRIATKANTVETILHGGVGLLTPRSGGHLLSLQCYVSPYDIFEEGNGAQLNFTDTTFPRSLGVGVSVTVEGTSSVYKLPIAPLITGSHPVDNKGTPTFSPASNSNCVDLPACFFLKMKRPMPFSLSFIHKMGNVTGIPVFESVPALSPLYDLIVKSQLSEEDCGNAPASTRSMRFYASLPGQQHCYFLNGDAPVQDGKSLQGALVSKIPFRHPAHVPTLLDIIRHQAAYNTLIGSCVKKTYIKEDAPGLLQFEVCPLTDSSFSVSFQHPVNESLVCVVMEVIDSRQVACKLYKGLSDALICTDEFITKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEIMVKKNLPPTGSPGYMGMGAGPDGSNTVGMPGVGGATTPTGSSSGGNLGPFPGVISSLFNMSHQGSSVVDTMGQIGSQQQLQQQLPLQHSHGSDDFNKVTQNPILTSLLKITGSVGSSPTPQGSAGSQPHLTPPPTTSPASNTKNHPMLMNLLKDNPSQDFAALYGSSPLERQNSSGSPRTDSQGQQCPGGGTKGKKKRPRGTDKGVMGVGGGMGMKQQSQQQQLGNISHQHHHTHQPTEDDFHRELFSMDVDASQNPIFDVNLPGDGLDTPHSITPAPSQCGTPPSGPGMSYHPQSHGQSQTQAQSQPSGSIPRMARLSSSESIGPDINDILSDIPDPATKGSGGSHGQHHMGGEEGGSLDTPLRDSSSSGQGSAVFEADLFNANSNENTYTDPADLIAEATTAATPNSDASSSNFFPDTDFNPELLPGQGTFPHTSYFDSSPSPEPDLDLVKNFSGGSQQNTPSGTPQNPMSHGRNTPDASLKDPFDVSMVFSGNSGGGKPLLGPGPDLGDSHSHGGGGQSPLMMGMAGLSSDFKSSEVKVKQQQMRPKEDNGGGNSGMLMGGTGSSEAKQLKRSRTPSSEGKSKEKPPKRKKLDPEGKSPSHSSGGRPYTPPSGSVSSGGSMSGGGSKSPGSSGRSQTPPGGATPPIPKITIQIPKTLTGGKTSSHSGYTSSSSAAVSTGGAGGTSSSKGHHSHSSSSSGKIKTSKMEGSMGQSNSSKPPSTGGSGSGMPPQSKSSSLGMGSGKPGSSPITKHGMSGSGSSGSSGAVSGNKMRPQGGKPPGSLINPSIKANISPSHSRSGSSDKLSSPMKLQQGQVPGTPPSSKAKSPIGSGSGSSGGSKSSSGGGMSSQKQLGSGSSSGSSTSCTTSSSSGSMSFSSGGQSQYGGSGGGGGGGSGGGGGGGGGGNNPNAKGKSPSRNKKPSLTAVIDKLKSVGSGGIGGEECEGGGGGGGSTTGSGGGGVPPNVGPPKRDKVEKEGKSKGSLSTGNSGDKKMMDPKGSGVCSTGVAKIIISKPDGGSPSIKSKVTLQKPGDGSAEGSMRPQHSGLKASPLFSGSTPKHDRSSPSHSRSPGYTPLFPDSESESGSSSVAEKSHQNSPSSDDDQSMRPLQPPQDYMSVSIGEKHKKHKKEKKKQKERERERDRDRDRDKEKKKSTMSCGPSSHPLKADSWSRSPLSSSEPSISLLSSERASRPSPVYMHTEDDDLMDSALTGSNLEPFK
Length1778
PositionMiddle
OrganismIctalurus punctatus (Channel catfish) (Silurus punctatus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Ostariophysi> Siluriformes> Ictaluridae> Ictalurus.
Aromaticity0.04
Grand average of hydropathy-0.640
Instability index59.18
Isoelectric point8.95
Molecular weight184395.09
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

>MDP15727
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     398.01|      57|      58|    1435|    1491|       1
---------------------------------------------------------------------------
  888-  941 (51.49/ 9.51)	DI....LS...DIPD...PATKGSGGSHG.....qhhmGGEEGGSLDTP.LRDS.S..SSGQGSAVFEA..DLFN
 1161- 1215 (70.62/16.63)	SHSSGGRP....YTP...P...SGSVSSG.........GSMSGGGSKSPGSSGR.SqtPPGGATPPIPKITIQIP
 1306- 1366 (42.26/ 6.08)	.....GSSpitKHGM...SGSGSSGSSGAvsgnkmrpqGGKPPGSLINPSIKANiS..PSHSRSGSS....DKLS
 1380- 1433 (71.67/17.02)	PPSSKAKS...PI.G...SGSGSSGGSKS.........SSGGGMSSQKQLGSGS.S..SGSS..TSCTTSSSSGS
 1435- 1491 (101.67/28.18)	SFSSGGQS...QYGG...SGGGGGGGSGG.........GGGGGGGGNNPNAKGK.S..PSRNKKPSLTAVIDKLK
 1492- 1538 (60.31/12.79)	SVGSGG......IGGeecEGGGGGGGSTT.........GSGGGGVP..PNV.G..P..PKRDK......VEKEGK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     382.22|      56|      80|     595|     650|       2
---------------------------------------------------------------------------
  595-  650 (98.89/32.30)	TPTGSS...SGGNLGP........FPGVI....SSLFNMS....HQG....SSV..VDTMGQI.......GSQQ..QLQQQ....LPL....QH..SH....GS
  677-  735 (65.06/18.27)	TPQGSA..gSQPHLTP.........PPTT....SPASNTK....NH.....PML..MNLLKDN.......PSQDfaALYGS....SPL..erQN..SS....GS
  745-  797 (57.57/15.17)	CPGGGT...KGKKKRP.........RG............T....DKG......V..MGVGGGM.......GMKQ..QSQQQqlgnISH....QH..HHthqpTE
  964- 1034 (61.79/16.92)	TPNSDA...SSSNFFPdtdfnpelLPGQGtfphTSYFDSS....PSP....EPD..LDLVKNF.....sgGSQQ..NTPSG....TP.....QNpmSH....GR
 1231- 1280 (54.87/14.05)	..SSSS...AAVSTGG........AGGTS....SSKGHHS....HSS....SSSgkIKTSKME.......GSMG..QSNSS....KP................P
 1574- 1645 (44.03/ 9.55)	.PDGGSpsiKSKVTLQ........KPGDG....SAEG..SmrpqHSGlkasPL.....FSGSTpkhdrssPSHS..RSPGY....TPLfpdsES..ES....GS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     165.61|      59|      76|     229|     301|       3
---------------------------------------------------------------------------
  184-  288 (72.04/47.28)	KLPgdnklktkmylalqsleldltkmmhmfriatkantvetilhgGVGLLTPRSGGHLLSL.QCYvspYDIFEEGNGAQLNFTDtTFPRSLGVGVSVTVEGTSSVY
  289-  362 (93.57/64.83)	KLP............................iaplitgshpvdnkGTPTFSPASNSNCVDLpACF...FLKMKRPMPFSLSFIH.KMGNVTGIPVFESVPALSPLY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.36|      18|      18|    1716|    1733|       4
---------------------------------------------------------------------------
 1716- 1733 (36.79/21.26)	SCGPSSHPLKADSWSR.SP
 1736- 1754 (26.57/12.69)	SSEPSISLLSSERASRpSP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      74.53|      19|      35|    1076|    1094|       6
---------------------------------------------------------------------------
 1060- 1080 (24.16/ 7.08)	PLL....GPGPDLG...........dshshgGGGQS
 1081- 1116 (27.63/ 9.43)	PLMMGMAGLSSDFKssevkvkqqqmrpkednGGGNS
 1117- 1143 (22.74/ 6.12)	GMLMGGTG.SSEAK........qlkrsrtpsSEGKS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.31|      12|      17|    1681|    1692|       7
---------------------------------------------------------------------------
 1681- 1692 (20.62/14.67)	EKHKKHKKEKKK
 1701- 1712 (20.68/14.73)	DRDRDRDKEKKK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     102.98|      23|     275|     565|     588|       8
---------------------------------------------------------------------------
  565-  588 (42.56/17.13)	PPTGSPG..YMGMGAGPDGSNTVGmP
  842-  864 (31.23/ 7.97)	PPSG.PGmsYHPQSHGQSQTQAQS..
  866-  884 (29.18/ 7.15)	.PSGSIP..RM...ARLSSSESIG.P
---------------------------------------------------------------------------




































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 MDP15727 with Med1 domain of Kingdom Metazoa
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