<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 MDP06032

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMLKIFSMRMRSFTELNGLKWCRWCCSNSSIVYADIPDDAVLCGYGRCVTQGFLCVWRRAPPVHSSNRVDLRLAVEKELWIFWYGDEPDWALLCTGLTKIEEGSWEKGVEYETRTMLFKALHNQIDRVLLNANFLRFGNWYVNPLNYPKTKNKSNRPKYVIAFSLSFFVHGENNVCVTVSVQRHVPVYRLCRQLMLANRKLPVLLSPWSLSGELVFDPDKASESGESQFQQQLWKDWCRFYASLDSGGAESTTGVGSGSPFKEANSSSSTTTTTTTDKLPKMMDVFVCGVRLKVPTRFVCVVDPENVASSPQQSGSLLAGFRQWLCEKTMENLICHQRRQSGPTSPSAGESDSFGLAGSWNIVDPGQRERCCCSVGQSTSCCGTGAAGSVRFTSKCKSSDVSPKRVGCFHRRVAASRKLMTSAGLDGSSTAAGDDDDQQHQTMVEEAGTSTTSALLNSTTTATATVTTTAASTASAAAAAAAAAPVASAVCSSASMTSSTMFLDHCSANMVGCNVAVEPKSKMRRSVEQSELLQQQQTPDPLVIPPKYTGLESIEVDQRLLSMKRRYNVSTNYDTDGDLQLMKLSFSRYHSHHQEQIHLLHIQQQQQQQQQQQLLQQQQQNQSNSFISRVSSSSVKNFGKPTDQFTEKFYRALTSYSWCQAMETNRKRRFFVQNVLLLFSEAVLNCRSIAPVGQRHLAQSNARQVEKIYGYKNKNKRKDITTNDHDRTDDVLSGDMCKREEEKACVKSDAEFHLTDDSSAIVHHQMMEEGPSPSSGISDCENEIHAFLSPPPSLGTEEERLNATEKIVAVKMDATNQNNEHANSSSSSNNNNNNNNNSSSTTTTNSNNVAVLSCSQRSSASSAYPSSTQVVAVAGAVVDHLGIIYPTPPSQEALQQLSPESHAGTGTTAVAGTQTSACSSGSYGQGSTMKAASYLSGYRDCKDAPEVQVVIPYVLASEFFGAVPASSRRSAVRFEKILCYKPSRLLPALYHHHHHHHHHHHHHHHHHQSASVGHLASLPTYGLGAISHHSWSNCGSFGSWFGSSSVRLGSQASIGLDSSSSATGRSIISAPASVRSVAEPSPVNNNPPSVSSPHFVRTPRTPGMELASPMSNASSAYAKNLSSIEPASSVLHPEGHSLVMMLLLSDTFVHLYRDSNFDSCPLCDDNMSVLYHSSARNTFTNKCTCGFSASRHRYLSYKSGVFYEDEDDATGAVWERLTASHLETVPFSREIVELVRHQSLLQDLTWAIGGGGGGGGGGGGGGGGGSLSTSLLSVTSSSWSMFDDVEKNIPLGLPNAVYNAVELRDFTELCQLALEQSMLSLDCNNVALSATSSYINGWGYAKTVEPSNSLETMALLRSLLPLLQESLQKPRGLWQAKHSVEGPLTWHLSGPEPIPELLVCSDRDWIQVSPFSIRLWDRMCLEPFTQPKDVAFIAVVPDTHRTYEGMRLGRHCPITRVLKDGIMRVGKTHAKQLDQKPVDPWFDRFEIWNAFDRSIFREIGRECPASTPTTTCTSSSLSNVDSVGTAVSSQSAELANTTVSASGSGASCVSAGTTGMTTTTTTATAVTTSVADSSSSTAISMNMMNTSSSNNSNDSLIYLVNPFNFGPDDQHVRDLNRLVTTGLFRCYLEILQEVPATFRSSMQLQIIPLQTVLDTSLLDDWELQHNGIVDEDRRLKSMPRAAVNSNSSSVGGGIGQQRVPLSSSTHLRSLALNVFMQIRSVAYSCLHSCLPKVMTGFGPAASRHELLRRKQNSAGFRLYSAPVVLAPIQDRTSCLNGTTGSNGSFGSSSSNSASSFCGGGSESRDDHGQVLFLAYCLSAKQQWLLCTVTDQQGAVLDSCVINMMLNNRHNVVKRELIWSALRRLWDYVVGILASSCRPWRIVIGRLGRLGHEELKAWAHLLSKSQLRSTSRLLREQCAVCQPMPTIFETPAILSACLISTELDPNMRIFPDSFVHDDRFGQGAKQCPLSSPEDVSSSHIMVFPTSALIQISQCCIMTGGLPGADETDGDFESIWKDLMISPEGDGLESGLNDIFGSMSEANLMNDSTVGFDANSSHTRGLAISESSDESIQLQPLALGFLVSTAPTGPVPEWFWTVRPSARDLLPVHLRSALHIHTSGVQQSDDHLLAGGANRSTSGTVHPLDSSLTTDVLRYVLETYNALSWLCLDFRTGDRVSCFPLHIQALSRLYRAMDALL
Length2194
PositionMiddle
OrganismTrichinella sp. T9
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Enoplea> Dorylaimia> Trichinellida> Trichinellidae> Trichinella> unclassified Trichinella.
Aromaticity0.07
Grand average of hydropathy-0.284
Instability index51.80
Isoelectric point6.46
Molecular weight239523.42
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

>MDP06032
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     388.16|      99|     213|    1494|    1598|       1
---------------------------------------------------------------------------
  425-  502 (96.13/44.55)	...........................DGSSTAAGDDDDQQHQTMVEEAG..tSTTSALLNSTTTATATVTTTAASTASAAAAAAAAAPVASAVCS..SASMTS..STMFL
 1494- 1598 (151.74/89.29)	IFREIgRECPAStptttCTSSSLSNV.DSVGTAVSSQSAELANTTVSASG...SGASCVSAGTTGMTTTTTTATAVTTSVADSSSSTAISMNMMNT..SSSNNSNDSLIYL
 1713- 1812 (140.28/70.57)	VFMQI.RSVAYS.....CLHSCLPKVmTGFGPAASRH..ELLRRKQNSAGfrlYSAPVVLAPIQDRTSCLNGTTGSNGSFGSSSSNSA...SSFCGggSESRDDHGQVLFL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     104.32|      25|      52|    1055|    1079|       2
---------------------------------------------------------------------------
 1055- 1079 (41.24/19.09)	LDSSSSATGRSIIS.APASVRSVAEP
 1083- 1101 (28.19/10.82)	.....NNNPPS.VS.SPHFVRTPRTP
 1109- 1132 (34.89/15.07)	MSNASSAYAKNLSSiEPAS..SVLHP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.89|      13|      17|    1142|    1154|       4
---------------------------------------------------------------------------
 1142- 1154 (23.11/11.32)	LLSDTFVHLYRDS
 1161- 1173 (24.78/12.63)	LCDDNMSVLYHSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     120.74|      39|      56|    1271|    1315|       5
---------------------------------------------------------------------------
 1271- 1315 (59.32/45.22)	LSVTSS...SWSMFDDVEkniPlglPNAVYNAVELRDFTELCQLALEQ
 1327- 1368 (61.42/33.00)	LSATSSyinGWGYAKTVE...P...SNSLETMALLRSLLPLLQESLQK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     183.06|      55|     744|    1201|    1260|       6
---------------------------------------------------------------------------
 1201- 1260 (84.68/55.60)	FYEDEDDATGAvwERLTASHLETVPfSREIveLVRHQS.LLQDLTWAIGGGGGGGGGGGGG
 1952- 2007 (98.38/49.30)	FVHDDRFGQGA..KQCPLSSPEDVS.SSHI..MVFPTSaLIQISQCCIMTGGLPGADETDG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     133.23|      38|     242|      35|      93|       8
---------------------------------------------------------------------------
   36-   73 (71.15/37.09)	PDDAVLCGYGRCVTQG.FLCVWRRAPPVHSSNRVDLRLA
 1606- 1644 (62.08/ 9.73)	PDDQHVRDLNRLVTTGlFRCYLEILQEVPATFRSSMQLQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     119.43|      30|     216|     680|     709|       9
---------------------------------------------------------------------------
  680-  709 (53.49/33.18)	EAV..LNCRSIAPVGQRHLA..QS...NARQVEKIYG
  849-  874 (27.18/12.52)	.AV..LSC......SQRSSA..SSaypSSTQVVAVAG
  891-  923 (38.76/21.62)	EALqqLSPESHAGTGTTAVAgtQT...SACSSGS.YG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.23|      13|      16|     770|     785|      12
---------------------------------------------------------------------------
  770-  784 (20.22/11.33)	PSPSSGISdcENEIH
  789-  801 (24.00/ 7.41)	PPPSLGTE..EERLN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      54.51|      10|      68|     527|     536|      15
---------------------------------------------------------------------------
  527-  536 (19.42/11.31)	EQSELL..QQQQ
  594-  605 (15.37/ 7.41)	EQIHLLhiQQQQ
  609-  618 (19.72/11.60)	QQQQLL..QQQQ
---------------------------------------------------------------------------




































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 MDP06032 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) DDSSAIVHHQMMEEGPSPSSGISDCENEIHAFLSPPPSLGTEEERLNATEKIVAVKMDATNQNNEHANSSSSSNNNNNNNNNSSSTTTTNSNNVAVL
2) GLDGSSTAAGDDDDQQHQTMVEEAGTSTTSALLNST
3) SVRSVAEPSPVNNNPPSVSSPHFVRTPRTPGMELASP
4) VEPKSKMRRSVEQSELLQQQQTPDPLVIPPKY
755
423
1072
516
851
458
1108
547










Molecular Recognition Features






MoRF SequenceStartStop




NANANA