<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 MDP06142

Description Mediator of RNA polymerase II transcription subunit 13 (Fragment)
SequenceLLCEMSHVNLNSTNGASLEDCHTNVFVLTELNGLKWCRWCCSNSSIVYSDIADDAVLCGYGRCVTQGFLCVWRRSPPVHSSNRVDLRLAVEKELWIFWYGDEPDWALLCTGLTKIEEGSWEKGVEYETRTMLFKALHNQIDRVLLNANFLRFGNWYVNPLNYPKTKNRSTRPKYVIAFSLSFFVHGENNVCVTVSVQRHVPVYRLCRQLLLANRRLPVLLSPWSLSAELISDPDKASEPGECQFQQQLWKDWCRFYASLDNGAESTTTGVGSGSPFKEANNVDRLPKMLDVFVCGVRLKVPTRFVCVVDPDHMASGQQQPGGLLAGFRQWLCEKTVENLICHQLRHSRPTSPSSGESESAFGLAGSWNIVDPGQRERCCCSLAQSTNYCGTGAAGSVRFTSKCKSSDSSPKRVGCFHRRVTTGRKLVTSSGLDGSTTATGDDDDQQHQSMVEEATTSVLLNSSTTTTTTTTATATASTTTAATPIASAVCGSASTSMTSSTMILDHCSADVVGCNAAVEPKLKMRRSVEQSQLLQQQQQQLASDPLVIPPKYTGLESVDVDQQLLTMKRRHNVSTNHDTDSELQLVKLAILKFDPQTFHHDCHPHQQDQRIHHLHVKQRQQQLQLQLQRQHQQQQQQQQQQQQQQQHNNQSGNFISKMSSSVEKFSKPMDRFTENFYHALANYSWCQTMETNRKRRSLFQNVLILFSEAMLNCRTIAPVGHRHFALSSARQVERIYGYKNKNKRKDNNNDRGDDHDQNDDVLVGDICKREEKACVKLETEFQTDDNSAIVHHQMLQEGPSPSSGISDCENEIHAFLSPPPSLGTEEERLNANEKIVAVKMEATNQNNEHGNSNNNNNNNNNNNNNNNNNNNNNSNNNSSSSSNNNNNNNTNTNNNSSSNSSVAGLSCQRSSASSAYLSSTQVPVAGAVVDHLGIIYPTPPSQEALQQLSPESHAGTSTTSTSTTTTASAVVGTQWTNLACSNGANGQGSTMKAASDASGCHDCKEAPEFRVVIPYVLASEFSAAMPASLRRSTVRFEKILCYKPSRLLPSVYHHHPHASAGHLTSLPTYGLGAIPHHSWSNYGLVGSGFGSSSVRLGSQASIGLDSSSSVAGRSIISAPASVRSVAEPSPVNNNPPSVSSPHFVRTPRTPGMELASPMSNASSAYAKNLSSIEHASSVLHPEGHSLVMMLLLSDTFVHLYRDSNFDSCPLCVCNMNIRGLEMGHYVNLRKCDDNMGVLYHSSARNTFTNKCTCGFSASRHRYLSYKSGVFYEDEDDATGAVWERLTASHLETVQFSREIVELVRHQSLLQDLTCSLMLFRTSPFSSCLNAGASAAIGSGSLSTSLLSVTSSSWSMLGDVEKSIHPGWPNAVYNAVELRDFTELCQLALEQSMLSLDCNNVALYVEQVPANKRSATASFINGWGYAKTVEPSNSLETMALLRSLLPLLQESLQKPRXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTSAVRNRYRNLSPFSVRLWDRMCLEPFTQPKDVAFIAVVPDTQHVVRKARGFFRELSRTYEGMRLGRHCPITRVLKDGIMRVGKTHAKQLDQKPVDPWFDRFESASDGRSIIGSKLKLYAQVCRHYLAPHIFSPVWSAFDRSIFREIGRECPASAATTTCTSSLSNADSVGTAVSSQSADFANTVTSASGASLVSAGATTTATTTTTTTTTTTTTTSTTTTTTTTTTTTAATTAIMATTTTTTATAVTTTTATVTTTVADSVSSTAVLYGLNMNSNNNNNNSNNNSANNSLNNMMNTTSSSNNSNDSRMSDSSNNGNDNGLLSPTSDGPNFPHVVVIYLVNPFNFGPDDQHVRDLNRLVTTGLFRCYLEILQEVPATFRSSMQLQIIPLQTVLDTSLLDDWELQQNGIVDEDRRLNPMPRTVVNSNCGASVGQQQQQQRVPLSSSTHLRSLALNVFMQIRSVAYSCLHSCLPKVMTGFGPAASRHELLRRKQNSAGFRLYSAPVVLAPVQDRTSCLNGTTGSIGSLGSSSSNSVSSFCGGSSEARDDHGQVLFLAYCLSAKQQWLLCTVTDQQGAVLDSCVINMMLNNRRNVVQRELIWSALRRLWDYVVGILASSCRPWRIVIGRLGRLGHEELKAWAHLLSKSQLRSTSRLLREQCAVCQPMPTIFETPAILSACLISTELDPNMRIFPDSFVHDDRFGQGAKQCPLSSPEDVSSSHIMVFPTSALIQISQCCIMTGGIPGADETDGDFESIWKDLMISPEGDGLESGLNDIFGSMSEANLMNDSTVGFDANSSHTRGLAISESSDESIQLQPLALGFLVSTAPTGPVPEWFWTVRPSARDLLPVHLRSALHIHTSGVQQSDDHLLPGGANRSSSATVHPLDSSLTTDVLRYVLETYNALSWLCLDFRTGDRVSCFPLHIQALSRLYRAMDALL
Length2421
PositionMiddle
OrganismTrichinella pseudospiralis (Parasitic roundworm)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Enoplea> Dorylaimia> Trichinellida> Trichinellidae> Trichinella.
Aromaticity0.07
Grand average of hydropathy-0.349
Instability index49.54
Isoelectric point6.67
Molecular weight262105.65
Publications









Function






Annotated function

Component of the Mediator complex, a coactivator involved in
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:RU364134

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

>MDP06142
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      95.14|      15|      15|     865|     879|       1
---------------------------------------------------------------------------
  865-  879 (35.39/19.19)	NNNNNNNNNSNNNSS
  883-  897 (32.79/17.21)	NNNNNNNTNTNNNSS
 1759- 1772 (26.96/12.77)	.NSNNNNNNSNNNSA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|      97.75|      14|      15|    1688|    1701|       2
---------------------------------------------------------------------------
  453-  473 (21.67/ 9.56)	EATTsvllnssTTTTTTTTAT
 1688- 1701 (30.12/15.97)	TTTT.......TTTTTTTTTT
 1704- 1717 (28.36/14.64)	TTTT.......TTTTTTTAAT
 1721- 1733 (17.59/ 6.46)	MATT.......TTTTATAVT.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.96|      22|     228|    1784|    1805|       3
---------------------------------------------------------------------------
 1774- 1795 (36.64/18.40)	NSLNNMMNTTSSSNNSNDSRMS
 1796- 1817 (39.32/20.34)	DSSNNGNDNGLLSPTSDGPNFP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.12|      20|      20|    1100|    1119|       4
---------------------------------------------------------------------------
 1083- 1102 (29.17/16.19)	GLVGSGFGSSSVRLGSQASI
 1103- 1122 (29.95/16.88)	GLDSSSSVAGRSIISAPASV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     278.44|      82|     229|      54|     178|       6
---------------------------------------------------------------------------
   54-  159 (132.79/155.56)	DAVLCGYGRCVTQGFLCVWRRSPPVHSSNRVDLRLAVEKElwifWYGDEPDWALLCTGLTKIEEGSWEKGvEYEtrtmlfkalhnqidrvllnANFLRFGNW.YVNP
  290-  372 (145.65/84.72)	DVFVCGVRLKVPTRFVCVVDPDHMASGQQQPGGLLAGFRQ....WLCEKTVENLICHQLRHSRPTSPSSG.ESE...................SAFGLAGSWnIVDP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     133.11|      43|     309|    1525|    1583|       7
---------------------------------------------------------------------------
 1525- 1583 (69.66/80.13)	PDTQHVVRKAR....GFFR.......ELSRTYE.GMRLgRHCPITRVLkdgimrvgkthakqlDQKPVDPW
 1832- 1886 (63.45/41.06)	PDDQHVRDLNRlvttGLFRcyleilqEVPATFRsSMQL.QIIPLQTVL...............DTSLLDDW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.57|      24|      26|    1635|    1658|       9
---------------------------------------------------------------------------
 1635- 1658 (41.84/24.37)	ECPASAATTTCTS..SLSNADSVGTA
 1662- 1687 (33.73/17.94)	QSADFANTVTSASgaSLVSAGATTTA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.78|      17|      29|     518|     534|      11
---------------------------------------------------------------------------
  518-  534 (28.77/19.05)	VEPKLKMRRSVE.QSQLL
  548-  565 (26.02/16.46)	IPPKYTGLESVDvDQQLL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.22|      11|      20|    1044|    1054|      12
---------------------------------------------------------------------------
 1044- 1054 (21.72/12.17)	PSRLLPSVYHH
 1067- 1077 (22.50/12.88)	PTYGLGAIPHH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.49|      18|      29|     676|     696|      13
---------------------------------------------------------------------------
  676-  696 (28.50/23.39)	FYHALANyswCQTMETNRKRR
  706-  723 (33.99/17.73)	FSEAMLN...CRTIAPVGHRH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      50.81|      11|      24|     962|     972|      14
---------------------------------------------------------------------------
  962-  972 (16.60/ 7.75)	STTTTASAVVG
  979-  988 (16.77/ 7.91)	ACSNGANG.QG
  989-  999 (17.44/ 8.56)	STMKAASDASG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      68.61|      14|      26|    1312|    1325|      15
---------------------------------------------------------------------------
 1285- 1296 (20.16/11.09)	LTASHL..ETVQFS
 1312- 1325 (26.16/17.23)	LTCSLMLFRTSPFS
 1341- 1354 (22.29/13.26)	LSTSLLSVTSSSWS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.79|      21|     101|     740|     760|      20
---------------------------------------------------------------------------
  740-  760 (37.11/25.47)	NKNKRKDNNNDRGDDHDQNDD
  765-  785 (35.68/24.18)	DICKREEKACVKLETEFQTDD
---------------------------------------------------------------------------




































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 MDP06142 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AVLYGLNMNSNNNNNNSNNNSANNSLNNMMNTTSSSNNSNDSRMSDSSNNGNDNGLLSPTS
2) AVVDHLGIIYPTPPSQEALQQLSPESHAGTSTTSTSTTTTAS
3) DNSAIVHHQMLQEGPSPSSGISDCENEIHAFLSPPPSLGTEEERLNANEKIVAVKMEATNQNNEHGNSNNNNNNNNNNNNNNNNNNNNNSNNNSSSSSNNNNNNNTNTNNNSSSNSSVAGL
4) LVTSSGLDGSTTATGDDDDQQHQSMVEEATTSVLLNSSTTTTTTTTATATAST
5) QLQLQLQRQHQQQQQQQQQQQQQQQHNNQSGNFISKMSS
6) RXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
7) TTTATTTTTTTTTTTTTTSTTTTTTTTTTTTAATTAIMATTTTTTATAVTTTTATVTT
8) VAEPSPVNNNPPSVSSPHFVRTPRTPGMELASP
1751
927
785
426
622
1455
1684
1125
1811
968
905
478
660
1484
1741
1157










Molecular Recognition Features






MoRF SequenceStartStop




NANANA