<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 MDP06341

Description Mediator of RNA polymerase II transcription subunit 13 (Fragment)
SequenceLLCEMSHVNLNSTNGASLEDCHTNVFVLTELNGLKWCRWCCSNSSIVYADIPDDAVLCGYGRCVTQGFLCVWRRAPPVHSSNRVDLRLAVEKELWIFWYGDEPDWALLCTGLTKIEEGSWEKGVEYETRTMLFKALHNQIDRVLLNANFLRFGNWYVNPLNYPKTKNKSNRPKYVIAFSLSFFVHGENNVCVTVSVQRHVPVYRLCRQLMLANRKLPVLLSPWSLSGELVFDPDKASEPGESQFQQQLWKDWCRFYASLDSGGAESTTGVGSGSPFKEANSSSTTTTTTTDKLPKMMDVFVCGVRLKVPTRFVCVVDPDNVASSPQQPGSLLAGFRQWLCEKTMENLICHQRRQSGPTSPSAGESDSFGLAGSWNIVDPGQRERCCCSVGQSTSCCGTGAAGSVRFTSKCKSSDVSPKRVGCFHRRVAASRKLMTSAGLDGSSTAAGDDDDQQHQTMVEEAGTSTTSALLNSTTTATATVTATAASTASAAAAAAAPVASAVCSSASMTLSTMFLDHCSANVVGCNVAVEPKSKMRRSVEQSELLQQQQTPDPLVIPPKYTGLESIEVDQRLLSMKRRYNVSTNYDTDGDLQLMKLSFSRYHSHHQEQIHLLHIQQKQQQQQQQQQQQQNQSNSFISRVSSSSVKNFGKPTDQFTEKFYRALTSYSWCQAMETNRKRRFFVQNVLLLFSEAVLNCRSIAPVGQRHLAQSNARQVEKIYGYKNKNKRKDITTNDHDRTDDVLSGDMCKREEEKACVKSDAEFHLTDDSSAIVHHQMMEEGPSPSSGISDCENEIHAFLSPPPSLGTEEERSNATEKIVTVKMDATNQNNEHANSIAGAVVDHLGIIYPTPPSQEALQQLSPESHAGTGTTAVAGTQTGASSSGSYGQGSTMKAASYLSGYRDCKDAPEVQVVIPYVLASEFFGAVPASSRRSAARFEKILCYKPSRLLPAFVGHLASLPTYGLGAISHHSWSNCGSFGSWFGSSSVRLGSQASIGLDSSSSATGRSIISAPASVRSVAEPSPVNNNPPSVSSPHFVRTPRTPGMELASPMSNASSAYAKNLSSIEPASSVLHPEGHSLVMMLLLSDTFVHLYRDSNFDSCPLCVCNMNIRGLEMGHYVNLRRCDDNMSVLYHSSARNTFTNKCTCGFSASRHRYLSYKSGVFYEDEDDATGAVWERLTASHLETVPFSREIVELLALEQSMLSLDCNNVALYVEQVPAAKRSATSSYINGWGYAKTVEPSNSLETMALLRSLLPLLQESLQKPRGLWQAKHSVEGPLTWRQLHRKCTHRPGSNGREDLSGPEPIPELLVCSDRDWIQVSPFSIRLWDRMCLEPFTQPKDVAFIAVVPDTQYVVRKARGFFRELSRTYEGMRLGRHCPITRVLKDGIMRVGKTHAKQLDQKPVDPWFDRFESASDGRNIIGAKLKLYAQVCRHYLAPHIFSPVWNAFDRSIFREIGRECPASTPTATCTSSSLSNVDSVGTAVSSQSAELANTTVSASGSGASCVSAGTTGMTTTTTTATAVTTSVADSSSSTAISYESSANGNDNNGLLSPTSDGPNFPHVVVIYLVNPFNFGPDDQHVRDLNRLVTTGLFRCYLEILQEVPATFRSSMQLQIIPLQTVLDTSLLDDWELQHNGIVDEDRRLKSMPRAAVNSNSSSVGGGIGQQRVPLSSSTHLRSLALNVFMQIRSVAYSCLHSCLPKVMTGFGPAASRHELLRRKQNSAGFRLYSAPVVLAPIQDRTSCLNGTTGSNGSFGSSSSNSASSFCGGGSESRDDHGQVLFLSYCLSAKQQWLLCTVTDQQGAVLDSCVINMMLNNRHNVVKRELIWSALRRLWDYVVGILASSCRPWRIVIGRLGRLGHEELKAWAHLLSKSQLRSTSRLLREQCAVCQPMPTIFETPAILSACLISTELDPNMRIFPDSFVHDDRFGQGAKQCPLSSPEDVSSSHIMVFPTSALIQISQCCIMTGGLPGADETDGDFESIWKDLMISPEGDGLESGLNDIFGSMSEANLMNDSTVGFDANSSHTRGLAISESSDESIQLQPLALGFLVSTAPTGPVPEWFWTVRPSARDLLPVHLRSALHIHTSGVQQSDDHLLAGGANRSTSGTVHPLDSSLTTDVLRYVLETYNALSWLCLDFRTGDRVSCFPLHIQALSRLYRAMDALL
Length2161
PositionMiddle
OrganismTrichinella nativa
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Enoplea> Dorylaimia> Trichinellida> Trichinellidae> Trichinella.
Aromaticity0.07
Grand average of hydropathy-0.270
Instability index51.04
Isoelectric point6.66
Molecular weight236736.29
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

>MDP06341
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     352.85|     139|     240|     922|    1070|       1
---------------------------------------------------------------------------
  922-  998 (78.23/46.58)	........................................................................................GavPASSR.RSAARF.EKIL..CYkpSRLLPAFVGHLASlpTYGLGAISHHSWSNCGSFGSW.FGSSSV.....RLGSQASIGLDSS
  999- 1070 (75.91/38.12)	SSATGRSIISAPASVRSVAEPS.........PVNNN......PPSVSSPHFVRTPRTPGMELASPMSNASsayaKNLSSIEPASSVL........................................................................................
 1258- 1307 (45.36/15.23)	................SLQKPR.........GLWQA......KHSVEGPLTWRQLHRKCTH..RPGSNGR....EDLSGPEPIPELL........................................................................................
 1507- 1652 (153.34/73.47)	TTGMTTTTTTATAVTTSVADSSsstaisyesSANGNdnngllSPTSDGPNF...PHVVVIYLVNPFN....................fG..PDDQHvRDLNRLvTTGLfrCY..LEILQEVPATFRS..SMQLQIIPLQTVLDTSLLDDWeLQHNGIvdedrRLKSMPRAAVNSN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     237.36|      56|     241|      51|     118|       2
---------------------------------------------------------------------------
   51-  109 (97.39/71.48)	IPD..DAVLCGYGRCVTQGFL..CVWRRAPPVHSSNRVDL...RLAVEKELwifWYGDEPDWALLC
  293-  349 (91.32/56.45)	LPKmmDVFVCGVRLKVPTRFV..CVVDPDNVASSPQQPGS...LLAGFRQ....WLCEKTMENLIC
  389-  433 (48.66/29.90)	VGQ..STSCCGTGAAGSVRFTskC...KSSDV.SPKRVGCfhrRVAASRKL...............
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     152.81|      48|     332|     829|     887|       3
---------------------------------------------------------------------------
  769-  818 (79.50/45.22)	AIVHH.QMMEegPSPSS..GISDCENEIHAFLSPPPSLGTEEERSNATEKIVT
  837-  887 (73.31/41.69)	AVVDHlGIIY..PTPPSqeALQQLSPESHAGTGTTAVAGTQTGASSSGSYGQG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.38|      24|     240|    1475|    1506|       7
---------------------------------------------------------------------------
  483-  506 (39.45/15.92)	TAASTASAAAAAAAPVAS...AVCSSA
 1479- 1505 (34.93/22.59)	TAVSSQSAELANTTVSASgsgASCVSA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     164.01|      51|     332|     176|     227|       9
---------------------------------------------------------------------------
  176-  227 (86.40/56.93)	IAFSLSFFVHGENNV..CvTVSVQRHVPVYRLCRQ.LMLANRKLP.VLLSPWSLSG
  508-  562 (77.60/46.62)	MTLSTMFLDHCSANVvgC.NVAVEPKSKMRRSVEQsELLQQQQTPdPLVIPPKYTG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      82.60|      27|     104|    1709|    1740|      11
---------------------------------------------------------------------------
 1709- 1740 (42.77/33.30)	RHELLRRKQN.SAGFRLYSAPV.VLApiqdrTSC
 1814- 1842 (39.83/20.42)	RHNVVKRELIwSALRRLWDYVVgILA.....SSC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     133.19|      42|    1726|     239|     284|      13
---------------------------------------------------------------------------
  239-  284 (66.45/53.31)	PGESQFQ...QQLWKDwcrFYASLDSGGAESTTGVGSGSpFKEAN..SSST
 1967- 2013 (66.74/38.74)	PGADETDgdfESIWKD...LMISPEGDGLESGLNDIFGS.MSEANlmNDST
---------------------------------------------------------------------------




































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 MDP06341 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) DDSSAIVHHQMMEEGPSPSSGISDCENEIHAFLSPPPSLGTEEERSNATEKIVTVKMDATNQNNEHANS
2) GLDGSSTAAGDDDDQQHQTMVEEAGTSTTSALL
3) PPSQEALQQLSPESHAGTGTTAVAGTQTGASSSGSY
4) VEPKSKMRRSVEQSELLQQQQTPDPLVIPPKY
765
438
849
529
833
470
884
560










Molecular Recognition Features






MoRF SequenceStartStop




NANANA