<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. 


ECO:0000256	RuleBase:RU364059

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


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) KMQARKIKRQSSTEKSRQRGPRSGALAAVSKTATNRSKLSTVGS
2) KSGTTAASVSASEFTIHKRGECSTTTTAMATSTGELSDAPE
3) KTTTATTAATVTAASASTSDSANTTTTVTVSTTT
4) NNTNNSNPNSNNSNANTSNNNNYTNSNNNNNNNSMN
5) QQVPPPCVGGSSKPLIRRSRPVPLPLPPRSLVATGPHFAGPPAVELALPTG
6) RHGRGAGAGRFVETGAPSARPRVSSPASAG
7) SAGVAAPMSSSSSPALAAPMSRSSDSTGDVFDYETRSTTTAGMSID
8) SSSLAVASSSLSSADQGSSSGGKDEQKKSLKLAANA
9) VPRYVRRTLLPNPPLQTASSPRPPPPQPLLELNKHHQQQMLVHSTTQQRPTKQELLNPMTNQMSPKSASPDPTGLVIDDNLNTTAAISSPQKNAEEVDVLSPGLRIAVDEGDETKGPTTHSSSTT
1373
1272
1454
901
1594
1330
952
1135
1647
1416
1312
1487
936
1644
1359
997
1170
1771










Molecular Recognition Features






MoRF SequenceStartStop




1) KKSLKLA
2) LRIAVD
3) RLAASKFELLKQKMQARKI
4) VIKKGVIKLKSARHG
1161
1750
1361
1318
1167
1755
1379
1332