<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 MDP06031

Description Mediator of RNA polymerase II transcription subunit 13 (Fragment)
SequenceLLCEMSHVNLNSTNGASLEDCHTNVFVLTELNGLKWCRWCCSNSSIVYADIPDDAVLCGYGRCVTQGFLCVWRRAPPVHSSNRVDLRLAVEKELWIFWYGDEPDWALLCTGLTKIEEGSWEKGVEYETRTMLFKALHNQIDRVLLNANFLRFGNWYVNPLNYPKTKNKSNRPKYVIAFSLSFFVHGENNVCVTVSVQRHVPVYRLCRQLMLANRKLPVLLSPWSLSGELVFDPDKASESGESQFQQQLWKDWCRFYASLDSGGAESTTGVGSGSPFKEANSSSSTTTTTTTDKLPKMMDVFVCGVRLKVPTRFVCVVDPENVASSPQQSGSLLAGFRQWLCEKTMENLICHQRRQSGPTSPSAGESDSFGLAGSWNIVDPGQRERCCCSVGQSTSCCGTGAAGSVRFTSKCKSSDVSPKRVGCFHRRVAASRKLMTSAGLDGSSTAAGDDDDQQHQTMVEEAGTSTTSALLNSTTTATATVTTTAASTASAAAAAAAAAPVASAVCSSASMTSSTMFLDHCSANMVGCNVAVEPKSKMRRSVEQSELLQQQQTPDPLVIPPKYTGLESIEVDQRLLSMKRRYNVSTNYDTDGDLQLMKLSFSRYHSHHQEQIHLLHIQQQQQQQQQQQLLQQQQQNQSNSFISRVSSSSVKNFGKPTDQFTEKFYRALTSYSWCQAMETNRKRRFFVQNVLLLFSEAVLNCRSIAPVGQRHLAQSNARQVEKIYGYKNKNKRKDITTNDHDRTDDVLSGDMCKREEEKACVKSDAEFHLTDDSSAIVHHQMMEEGPSPSSGISDCENEIHAFLSPPPSLGTEEERLNATEKIVAVKMDATNQNNEHANSSSSSNNNNNNNNNSSSTTTTNSNNVAVLSFAGAVVDHLGIIYPTPPSQEALQQLSPESHAGTGTTAVAGTQTSACSSGSYGQGSTMKAASYLSGYRDCKDAPEVQVVIPYVLASEFFGAVPASSRRSAVRFEKILCYKPSRLLPALYHHHHHHHHHHHHHHHHHQSASVGHLASLPTYGLGAISHHSWSNCGSFGSWFGSSSVRLGSQASIGLDSSSSATGRSIISAPASVRSVAEPSPVNNNPPSVSSPHFVRTPRTPGMELASPMSNASSAYAKNLSSIEPASSVLHPEGHSLVMMLLLSDTFVHLYRDSNFDSCPLCVCNMNIRGLEMGHYVNLRRCDDNMSVLYHSSARNTFTNKCTCGFSASRHRYLSYKSGVFYEDEDDATGAVWERLTASHLETVPFSREIVELVRHQSLLQDLTWAIGGGGGGGGGGGGGGGGGSLSTSLLSVTSSSWSMFDDVEKNIPLGLPNAVYNALALEQSMLSLDCNNVALYVEQVPAAKRSATSSYINGWGYAKTVEPSNSLETMALLRSLLPLLQESLQKPRGLWQAKHSVEGPLTWRQLHRKCTHRPGSNGREDLSGPEPIPELLVCSDRDWIQVSPFSIRLWDRMCLEPFTQPKDVAFIAVVPDTQYVVRKARGFFRELSRTYEGMRLGRHCPITRVLKDGIMRVGKTHAKQLDQKPVDPWFDRFESASDGRNIIGAKLKLYAQVCRHYLAPHIFSPVWNAFDRSIFREIGRECPASTPTTTCTSSSLSNVDSVGTAVSSQSAELANTTVSASGSGASCVSAGTTGMTTTTTTATAVTTSVADSSSSTAISYGLNNNNNNNTNNSSNNSMNMMNTSSSNNSNDSRMSESSANGNDNNGLLSPTSDGPNFPHVVVIYLVNPFNFGPDDQHVRDLNRLVTTGLFRCYLEILQEVPATFRSSMQLQIIPLQTVLDTSLLDDWELQHNGIVDEDRRLKSMPRAAVNSNSSSVGGGIGQQRVPLSSSTHLRSLALNVFMQIRSVAYSCLHSCLPKVMTGFGPAASRHELLRRKQNSAGFRLYSAPVVLAPIQDRTSCLNGTTGSNGSFGSSSSNSASSFCGGGSESRDDHGQVLFLAYCLSAKQQWLLCTVTDQQGAVLDSCVINMMLNNRHNVVKRELIWSALRRLWDYVVGILASSCRPWRIVIGRLGRLGHEELKAWAHLLSKSQLRSTSRLLREQCAVCQPMPTIFETPAILSACLISTELDPNMRIFPDSFVHDDRFGQGAKQCPLSSPEDVSSSHIMVFPTSALIQISQCCIMTGGLPGADETDGDFESIWKDLMISPEGDGLESGLNDIFGSMSEANLMNDSTVGFDANSSHTRGLAISESSDESIQLQPLALGFLVSTAPTGPVPEWFWTVRPSARDLLPVHLRSALHIHTSGVQQSDDHLLAGGANRSTSGTVHPLDSSLTTDVLRYVLETYNALSWLCLDFRTGDRVSCFPLHIQALSRLYRAMDALL
Length2319
PositionMiddle
OrganismTrichinella sp. T9
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Enoplea> Dorylaimia> Trichinellida> Trichinellidae> Trichinella> unclassified Trichinella.
Aromaticity0.07
Grand average of hydropathy-0.315
Instability index51.69
Isoelectric point6.66
Molecular weight253377.56
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

>MDP06031
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     118.79|      40|     212|    1565|    1615|       1
---------------------------------------------------------------------------
 1565- 1614 (61.77/51.05)	WNafdrsifreiGRECPASTPT.....................TTCTSSSLSNVDSVGTAVSS.QSAELANT
 1620- 1681 (57.01/26.46)	GS..........GASCVSAGTTgmttttttatavttsvadsssSTAISYGLNNNNNNNTNNSSnNSMNMMNT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      85.15|      23|     218|    1890|    1927|       4
---------------------------------------------------------------------------
  901-  923 (38.35/ 6.58)	TGTTAVAGTQTSACSSGSYGQGS
 1903- 1925 (46.80/23.70)	TGSNGSFGSSSSNSASSFCGGGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     183.38|      44|     218|     754|     810|       5
---------------------------------------------------------------------------
  754-  798 (74.52/59.89)	R...EEEKACVKSD....AEFHLTDDSSAiVHHQMMEEGPSPSSGISDCENE
  815-  850 (48.22/17.40)	RlnaTEKIVAVKMD....ATN............QNNEHANSSSSSNNNNNNN
  969- 1009 (60.64/28.09)	R...FEKILCYKPSrllpALYHHHHHHHH.HHHHHHHHHQSASVG.......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.36|      18|      20|    1049|    1067|       7
---------------------------------------------------------------------------
 1049- 1067 (24.91/15.59)	SIGLDSSSSATGRSiISAP
 1072- 1089 (32.45/16.76)	SVAEPSPVNNNPPS.VSSP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.44|      18|     242|      51|     109|      10
---------------------------------------------------------------------------
   59-   80 (23.96/27.47)	GYGRcVTQGflcVWRRAPPVHS
  111-  128 (28.48/60.69)	GLTK.IEEG...SWEKGVEYET
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.69|      14|      15|    1705|    1718|      14
---------------------------------------------------------------------------
 1705- 1718 (27.55/17.66)	LLSPTSDGPNFPHV
 1723- 1736 (28.15/18.25)	LVNPFNFGPDDQHV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.64|      19|     491|    1518|    1561|      15
---------------------------------------------------------------------------
 1491- 1509 (35.15/46.20)	GMRLGRHCPITR.VLKDGIM
 1542- 1561 (29.49/ 8.82)	GAKLKLYAQVCRhYLAPHIF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     106.74|      29|    1007|     246|     274|      17
---------------------------------------------------------------------------
  246-  274 (55.95/21.89)	QQLWKD..WCRFYASLDSGGAESTTGVGSGS
 1254- 1284 (50.78/19.32)	QSLLQDltWAIGGGGGGGGGGGGGGGGGSLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.95|      11|      50|      48|      58|      28
---------------------------------------------------------------------------
   48-   58 (22.85/14.34)	YADIPDDAVLC
   99-  109 (25.11/16.58)	YGDEPDWALLC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      37.43|      15|     784|    1298|    1313|      29
---------------------------------------------------------------------------
 1298- 1313 (21.21/19.14)	FD..DVEKNIpLGLP.NAV
 1314- 1331 (16.22/ 7.45)	YNalALEQSM.LSLDcNNV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.41|      16|    1160|     474|     490|      31
---------------------------------------------------------------------------
  474-  490 (23.38/17.92)	TTTATAtVTTTAASTAS
 1637- 1652 (28.03/16.66)	TTTATA.VTTSVADSSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.01|      15|      15|     595|     609|      37
---------------------------------------------------------------------------
  595-  609 (25.95/20.31)	QLMKLSFSRYHSHHQ
  611-  625 (23.05/16.94)	QIHLLHIQQQQQQQQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     161.52|      51|     261|    1796|    1860|      39
---------------------------------------------------------------------------
 1796- 1860 (69.85/67.49)	DRRLKSMPRAAVNSNSSsvggGIGQQRVPLS.....SSTHLRSLALNVFMQIRsvaySClhsClpkVMTG
 2067- 2122 (91.67/50.86)	DPNMRIFPDSFVHDDRF....GQGAKQCPLSspedvSSSHIMVFPTSALIQIS....QC...C...IMTG
---------------------------------------------------------------------------




































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 MDP06031 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) DDSSAIVHHQMMEEGPSPSSGISDCENEIHAFLSPPPSLGTEEERLNATEKIVAVKMDATNQNNEHANSSSSSNNNNNNNNNSSSTTTTNSN
2) GLDGSSTAAGDDDDQQHQTMVEEAGTSTTSALLNST
3) PPSQEALQQLSPESHAGTGTTAVAGTQTSACSSGS
4) SVRSVAEPSPVNNNPPSVSSPHFVRTPRTPGMELASP
5) TAISYGLNNNNNNNTNNSSNNSMNMMNTSSSNNSNDSRMSESSANGNDNNGLLSPTS
6) VEPKSKMRRSVEQSELLQQQQTPDPLVIPPKY
771
439
884
1069
1654
532
862
474
918
1105
1710
563










Molecular Recognition Features






MoRF SequenceStartStop




NANANA