<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 MDP08562

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMSAVGARKHSLEDFFDLLPTLRSKFEDYPACLRRTAFCARFATLRNQLDRIALQCDMKINQTGPITTALGQPAGIAWRLSSECFAVVVSAVPIEGYSLPPGTTPPQDDLASVSAVHFEFNQEKPILCEELVDELRKRNYNALLAHITNLLALYNVPGDRSHRCRAFLCLQVLEEDLSVLSAAATVDSEGVAVNPPPVTLSPRNVSEVATLVQSINFSAIGQIEPRSGGRFAALTYFVSPAQEAIARSRILKQAPSHPNLRGLLKGFFAFVGLRATADKIQHNLPFIPLVNLQKDESGLNIAQFATADSIKCGPIAAEFVLFLHPPLIISTEATADVEKITGIPLVCTQNCSPEPVHTLILRRHNQEALRLVDVHMLLPNRSQHVYHLRPEYSNRLQGYCVTEIAFTSPSQLPTLVSLLRRHAAWLSFVESFALHPRNPVSKDEALSFRFDISMSSMDELGVSFAHPCALERKVQVQPKLANHCLSVVQKFIHAMARLSAVCIQFGNFGVKLTRVSGCNLSERLERSTGATTTPPDPTRVLARSHNLPVAMTWLLILLGCPVNRSLSCIFPGATSITPSSCTSTTVASTAASSDAERHFRATFLARARRALQFSDDCDADGLLSGADQISQENLQHLDLLTQPPPPSPTQFDVFVTPVSSSAASCVSSLSLPGVDAFRPVGSPNTMTTTVPIGGSAALRSNAFLASAPLPPGVLVTTPPSCLLDGASAVKPMSMEETITSTSGCFPPPPLVGIGNGGVGNRSALAFSTPLIPGTISVSTAMFASPSSSASASPSPLKTPLFSTPVPTPPLGSRQSCPNIATTTSSSATSSVSAGSMLVSLLDEDIPPQSVHLPTLNTASLQPSRVISSMLPQPQLPQQQTSVHKPSSSDVLNHLLTSGQSEKDSALLRGKNKAPMLSTVSSPSLKTNLPSLSSRSTPSSMGSVGGGISGAYSGQAFTTTTTTTKRQRKRREASPVAAVEPIQFISVLPTRSSVAEATLAGKQSRFSAEAVSASLSTSTSEGGKLMTSTTAASAVSTVVSSEKHKSGRPSSGSSGGGGGVNQPTRHTPSSASSYSYAGATSSLVSKSVYDFEDLPMSLSSTTSLSKQPPSSASGIGAISATIGPYVPTTTNGNVITSCATLATATVSTTKSELRITIRPNWTAASSTSVGGTGPSSGIPNTSTASAKPRVVVDGKPSSFLKQMLHSSPATNSGDVSTDRTLQPSFMTGAVKPKKERKRRASSKSGKSLPLSNSAAVSNMSEISSALNRKVLTGSTSTVASAAMTGTTTGSYKPSHGLTASSSGPFPTSFSSVKPVKGRKKASSMSTFSSSVVFTPSEPVGAAATSVAALKPTTTSGGPTKKIKLSGDDATRSLEVVEPTISATSKGNGLMKGYKIPKKKAASPVQPSPQTSAAATAQPLIRTSPSLSSEVDGAEASIQSSPGAPPLRDQISVSVADTDTLQPKPASLLSVSETTPASADSAWTALPEMLTPQQRLPFPQSSGLQPQVSRKLPKNLTDIVEQLRAKSTREHTIPPGCGGSGPIPGNEDGSVNSSGWQQSETSAFTSLETTAVQEDEKMQEKEVEEEEEAEEKNKKRTTDTIASNGSGRQSRPGCTISPSLASDDTSSSTTAKVATAATVHRQHTVAGAGRVSTGEDQSSALFEGSRSRRGSISQELAFDATVASTETSGESGARTSIRAGQLSDVGVGALIEGPAHMSSRGTAQPGPITRTPGITKAGDVEEPSPSGSTDQLLNTQYTLGRWRCLV
Length1763
PositionMiddle
OrganismSchistocephalus solidus (Tapeworm)
KingdomMetazoa
LineageEukaryota> Metazoa> Spiralia> Lophotrochozoa> Platyhelminthes> Cestoda> Eucestoda> Diphyllobothriidea> Diphyllobothriidae> Schistocephalus.
Aromaticity0.04
Grand average of hydropathy-0.188
Instability index56.80
Isoelectric point9.03
Molecular weight184381.78
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

>MDP08562
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             8|     586.77|     100|     102|     561|     662|       1
---------------------------------------------------------------------------
  561-  651 (136.10/60.63)	................VNRS...LSCIFPGATSITP..SSCTSTT...VASTAA.SSDAERHFRATFLARARRA....LQFS.......DDCDADGLLSGA......DQISQENLQH...LDLLT.......Q...PPPP............SPTQFD
  654-  766 (96.36/42.49)	VTPVSSSAA.....scVS.S...LS..LPGVDAFRPvgSPNTMTTtvpIGGSAAlRSNA...F....LASAPLPpgvlVTTP.......PSC....LLDGA......SAVKPMSMEE...TITST.......SgcfPPPPlvgignggvgnrSALAFS
  866-  942 (66.45/24.51)	........................SSMLPQPQLPQQ..Q....TS...VHKP.S.SSDVLNHL...............LTSG.......QSEKDSALLRGKnkapmlSTVSSPSLK........TnlpslssR...STPS............SMGSV.
 1006- 1073 (70.14/26.43)	..............................AEAVSA..SLSTSTS...EGGKLM.TSTTA........ASAVST....VVSSekhksgrPSSGSSG...GG......GGVNQ....P.......T.......R...HTPS............SASSYS
 1141- 1201 (68.89/25.78)	...................................................TAT.VSTTKSELRITI..RPNWT....AASS.......TSVGGTGPSSGI......PNTSTASAKP...R.VVV.......D...GKPS............SFLKQM
 1275- 1326 (50.04/16.00)	............................................T...VASAAM.TGTTTGSYK.........................PSHGLTASSSGP......FPTSFSSVKPvkgR...............KKAS............SMSTFS
 1431- 1469 (31.52/ 6.40)	......................................................................AEAS....IQSS.......P..GAPPL...R......DQIS.VSVAD...TDTL........Q...PKPA............SLLSVS
 1471- 1542 (67.26/22.86)	TTPASADSAwtalpemL.TPqqrLP..FPQSSGLQP..Q..VSRK...LPKNLT...DIVEQLR....AKSTRE....HTIP.......PGCGGSGPIPG..........................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     186.91|      35|      55|    1604|    1638|       2
---------------------------------------------------------------------------
 1355- 1383 (31.97/10.69)	......GPTK.KIKLSGDDATRSL.EVVEPTISATSK
 1384- 1419 (48.20/19.97)	GNGLMKGYKIpKKKAASPVQPSPQ.TSAAATAQPLIR
 1604- 1638 (59.25/26.29)	GRQSRPGCTI.SPSLASDDTSSST.TAKVATAATVHR
 1661- 1695 (47.50/19.57)	GSRSRRG.SI.SQELAFDATVASTeTSGESGARTSIR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     198.27|      63|     225|     103|     168|       3
---------------------------------------------------------------------------
  103-  168 (101.85/93.60)	TPPQDDLASVSAVHFEFNQE.KPILCEELVdeLRKRNYNAL.LAHITNLLA.....LYNVPGDRSHRCRAFlC
  330-  399 (96.42/76.06)	TEATADVEKITGIPLVCTQNcSPEPVHTLI..LRRHNQEALrLVDVHMLLPnrsqhVYHLRPEYSNRLQGY.C
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.86|      22|     232|    1107|    1130|       4
---------------------------------------------------------------------------
 1107- 1130 (35.51/23.51)	PSSAsgIGAISATIGPYVPTTTNG
 1333- 1354 (38.35/19.29)	PSEP..VGAAATSVAALKPTTTSG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     173.95|      45|     491|    1202|    1250|       9
---------------------------------------------------------------------------
  783-  811 (48.47/17.67)	SP.SSSASASPSPLKTPLFSTPVPTP................PLGS
  944-  982 (55.64/24.24)	......GGISGAYSGQ.AFTTTTTTTKRQRKRREASPVAAVEPIQF
 1205- 1250 (69.84/40.00)	SPaTNSGDVSTDRTLQPSFMTGAVKPKKERKRRASSKSGKSLPLSN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.13|      14|      15|    1711|    1724|      11
---------------------------------------------------------------------------
 1711- 1724 (26.38/15.68)	PAHMSSRGTAQPGP
 1729- 1742 (24.74/14.12)	PGITKAGDVEEPSP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     114.64|      35|      56|     405|     460|      14
---------------------------------------------------------------------------
  405-  440 (58.00/65.95)	FTSPSQLPTLVSLLRRHAAW.LSFVESFaLHPRNPVS
  463-  498 (56.64/24.78)	FAHPCALERKVQVQPKLANHcLSVVQKF.IHAMARLS
---------------------------------------------------------------------------




































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 MDP08562 with Med1 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AATSVAALKPTTTSGGPTKKIKLSGDDATRSLEVVEPTISATSKGNGL
2) ELRITIRPNWTAASSTSVGGTGPSSGIPNTSTASAKPRVVVDGKPSSFLKQMLHSSPATNSGDVSTDRTLQPSFMTGAVKPKKERKRRASSKSGKSLPLSNSAAVSNM
3) GSTSTVASAAMTGTTTGSYKPSHGLTASSSGPFPTSFSSVKPVKGRKKA
4) KGYKIPKKKAASPVQPSPQTSAAATAQPLIRTSPSLSSEVDGAEASIQSSPGAPPLRDQISVSVADTDTLQPKPASLLSVSETTPASADSAWTALPEMLTPQQRLPFPQSSGLQPQVSRKLPKNLTDIVEQLRAKSTREHTIPPGCGGSGPIPGNEDGSVNSSGWQQSETSAFTSLETTAVQEDEKMQEKEVEEEEEAEEKNKKRTTDTIASNGSGRQSRPGCTISPSLASDDTSSSTTAKVATAATVHRQHTVAGAGRVSTGEDQSSALFEGSRSRRGSISQELAFDATVASTETSGESGARTSIRAGQLSDVGVGALIEGPAHMSSRGTAQPGPITRTPGITKAGDVEEPSPSGSTDQLL
5) LQPSRVISSMLPQPQLPQQQTSVHKPSSSDVLNHLLTSGQSEKDSALLRGKNKAPMLSTVSSPSLKTNLPSLSSRSTPSSMGSVGGGISGAYSGQAFTTTTTTTKRQRKRREASPVAAVEPI
6) SPSPLKTPLFSTPVPTPPLGSRQSCPNIATTTSSSAT
7) TSTSEGGKLMTSTTAASAVSTVVSSEKHKSGRPSSGSSGGGGGVNQPTRHTPSSASS
1340
1150
1271
1389
859
791
1015
1387
1257
1319
1750
980
827
1071










Molecular Recognition Features






MoRF SequenceStartStop




1) DQLLNTQYTLGRWR
2) GLMKGYKIPKKKAASPVQ
3) TKKIKLS
1747
1386
1357
1760
1403
1363