<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 MDP06293

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMKFKANEMSSGMPLKSKPGIDYSRNNTMDTCSNQRTTVILRSSSVYPLTVALPSSTSSSGQIHLLDQSASATTIHQPLLIKTCESLILSLGRSVILNVKCIYNKENISCTGYYVERPAVADGTPAPEKPTLYVMERYIEKCKNEFNVKFLGTEKRSPLDAEDRVEVAKSYERLLQGLRVASAYELFGRLEDIATKMNLTFVRTPGTANNQSCFITADCFFLEISAEETGSVFLVNVTHEKQTSESVLLRDIINDKRWTELQRHLWGLCSAYIPCKDIDTKNQAFKFMQNLENILHIQSLQRINDNTLPVVEYLRTSDMYFFRRREVGDPPRLYFFCTPLSFWDSETGDFKQLFQNDIDNVMDVSKFKSIIYAELAMENVQGEQFLSISMQSVNALGQFHDIPLSMQIAAVFTLTFPEKLIISMDSVTKIEALTGFKPAFSNQSKILDLILGEILSSGFSVLRSFVLLEDQLHCYTVDLEGCLTEGVVLEKIYWTNLEVLHKILPILRTEALFKHIFTSFIRNITTTQKQFAQKIFRRDIHVIPSPDLSILECQVKLPREREFFYIVFRLAPINEISVKVGGVVDNADVNLNDVAYEVFSRVWSIPVTIRALVKQLLCLSERNVVVAAAGDGNSGNGDHQNDVVLMQIDCDRSLHLSTDSNCAAHSSVSIPDGNYNMSEYSVCNDDANGVAVADDADDDDADAVISVSGIAQSLIIEQQMQKLIVNVDKVLEELLLVCSGRLAGGPNLLDLFKKPKVWRELIPPRRCASRRGQRSRQQMAPPLAQQCCASAAGQLPAPVAAVAAAAPFGKVGPNLKSRHFSSTSETLTELDELCQLSSSCAEGNGHQSEHASACGDSAVADGGEQKSSIQDTIDSVLGSVRFPGSMAESLINISSCCINNNNNTNNSNPNSNNSNANTSNNNNYTNSNNNNNNNSMNALASIRKIELGYGQSSAGVAAPMSSSSSPALAAPMSRSSDSTGDVFDYETRSTTTAGMSIDQGGRSLSSSVCCADDLSIAAASASAPTLDVGFWPPEGGVERLDVRGALLNRGMRRRRRCRKAFANTGDRALDMVLKEMRKAERLVRGASSTRRPRRSRLATATASFTADMREVASKVTLKIRSSSAAALPGVQTAQESSSLAVASSSLSSADQGSSSGGKDEQKKSLKLAANASASGGAATLNTWTQPSSSVFRSLSDATGESCSSRSSSPPPQLVKPASKRKNSLDVVIGKLMDKVGTSPTKLDPSSDVPDSAGDKQRHLYGFCFSPTASQQQKSGTTAASVSASEFTIHKRGECSTTTTAMATSTGELSDAPEGGIKLVIKKGVIKLKSARHGRGAGAGRFVETGAPSARPRVSSPASAGDRLAASKFELLKQKMQARKIKRQSSTEKSRQRGPRSGALAAVSKTATNRSKLSTVGSSSSGVAELPSVFPGAEGLLFSKSLKGFKIPKIDDNSSKTTTATTAATVTAASASTSDSANTTTTVTVSTTTTATVVPAAASAAATMTTTTTTTNIVSATAAAAVVTSASTVAAGTTTSANATTTASVAVTPLTVVEKRMADGPPMALVVNDGRASPAGVVSGGGGGILRMKPPLLAVQQVPPPCVGGSSKPLIRRSRPVPLPLPPRSLVATGPHFAGPPAVELALPTGPAVPRYVRRTLLPNPPLQTASSPRPPPPQPLLELNKHHQQQMLVHSTTQQRPTKQELLNPMTNQMSPKSASPDPTGLVIDDNLNTTAAISSPQKNAEEVDVLSPGLRIAVDEGDETKGPTTHSSSTT
Length1771
PositionMiddle
OrganismTrichinella nativa
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Enoplea> Dorylaimia> Trichinellida> Trichinellidae> Trichinella.
Aromaticity0.05
Grand average of hydropathy-0.245
Instability index48.92
Isoelectric point8.69
Molecular weight189397.08
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

>MDP06293
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     148.77|      26|      26|    1455|    1480|       1
---------------------------------------------------------------------------
 1273- 1304 (28.05/12.71)	..SGTTAASVSASEftihkrgeCSTTTTAMATST
 1455- 1480 (42.82/23.90)	TTTATTAATVTAAS........ASTSDSANTTTT
 1482- 1507 (40.26/21.96)	TVSTTTTATVVPAA........ASAAATMTTTTT
 1515- 1540 (37.64/19.98)	TAAAAVVTSASTVA........AGTTTSANATTT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.07|      17|      18|     899|     916|       2
---------------------------------------------------------------------------
  899-  915 (35.04/18.60)	NNNN.TNNSNPNSNNS.NA
  919-  937 (26.03/ 8.21)	NNNNyTNSNNNNNNNSmNA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     135.29|      24|      24|    1576|    1599|       3
---------------------------------------------------------------------------
 1576- 1599 (42.63/24.35)	VSGGGGGILRMKPPL.LAVQQVP...P..P
 1601- 1621 (24.71/10.50)	VGGSSKPLIRRSRP.......VPlplP..P
 1622- 1645 (30.88/15.27)	RSLVATGPHFAGPP...AVELAL...PtgP
 1647- 1671 (37.08/20.07)	VPRYVRRTLLPNPPLqTASSPRP...P..P
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|      83.75|      13|      17|    1144|    1156|       4
---------------------------------------------------------------------------
 1144- 1156 (22.64/10.86)	SLSSADQGSSSGG
 1163- 1175 (18.73/ 7.39)	SLKLAANASASGG
 1178- 1190 (21.38/ 9.74)	TLNTWTQPSSSVF
 1192- 1204 (21.01/ 9.41)	SLSDATGESCSSR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      94.39|      29|      41|    1037|    1073|       5
---------------------------------------------------------------------------
 1037- 1070 (41.72/42.94)	ERLdVRGAllnRGMRRRRRCRKAFAnTGDRALDM
 1079- 1107 (52.67/27.06)	ERL.VRGA...SSTRRPRRSRLATA.TASFTADM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      74.69|      15|      15|     778|     792|       6
---------------------------------------------------------------------------
  760-  771 (22.46/11.26)	LIPP...RRCASRRG
  778-  792 (29.13/17.10)	MAPPLAQQCCASAAG
  794-  808 (23.10/11.82)	LPAPVAAVAAAAPFG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     172.95|      43|     286|     651|     713|       8
---------------------------------------------------------------------------
  651-  693 (76.32/35.28)	RSLHL....STDSNCAAHSSVSIPDGNYNMSEYSVCNDDANGVAVAD
  942-  983 (54.96/20.82)	RKIELgygqSSAGVAAPMSSSSSPALAAPMSRSS....DSTG.DVFD
  985- 1018 (41.67/14.52)	...........ETRSTTTAGMSIDQGGRSLSS.SVCCADDLSIAAA.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.59|      20|     286|     232|     251|      10
---------------------------------------------------------------------------
  232-  251 (33.57/25.94)	FLVNVTH.EKQTSESVLLRDI
  519-  539 (31.02/23.34)	FIRNITTtQKQFAQKIFRRDI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.92|      15|      46|    1690|    1704|      11
---------------------------------------------------------------------------
 1690- 1704 (25.72/13.82)	STTQQRPTKQELLNP
 1734- 1748 (23.21/11.69)	SSPQKNAEEVDVLSP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.40|      24|      46|     356|     379|      12
---------------------------------------------------------------------------
  356-  379 (39.30/29.57)	DIDNVMDVSKFKSIIYAE...LAMENV
  400-  426 (35.10/25.53)	DIPLSMQIAAVFTLTFPEkliISMDSV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.67|      14|      19|     828|     846|      13
---------------------------------------------------------------------------
  828-  842 (20.97/ 8.31)	ELDELCQlSSSCAEG
  848-  861 (23.70/13.47)	EHASACG.DSAVADG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     112.97|      37|      46|    1308|    1351|      15
---------------------------------------------------------------------------
 1308- 1344 (61.59/27.66)	SDAPEGGIKLV...............IKKGVIKLKSARHGRGAGAGRFVETG
 1353- 1404 (51.39/31.59)	SSPASAGDRLAaskfellkqkmqarkIKRQSSTEKSRQRGPRSGALAAVSKT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.78|      12|     923|     327|     338|      19
---------------------------------------------------------------------------
  327-  338 (28.15/19.01)	GDPPR.LYFFC.TP
 1252- 1265 (17.63/ 8.83)	GDKQRhLYGFCfSP
---------------------------------------------------------------------------




































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 MDP06293 with Med1 domain of Kingdom Metazoa
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