<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 MDP06404

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMRMRSFTELNGLKWCRWCCSNSSIVYADIPDDAVLCGYGRCVTQGFLCVWRRAPPVHSSNRVDLRLAVEKELWIFWYGDEPDWALLCTGLTKIEEGSWEKGVEYETRTMLFKALHNQIDRVLLNANFLRFGNWYVNPLNYPKTKNKSNRPKYVIAFSLSFFVHGENNVCVTVSVQRHVPVYRLCRQLMLANRKLPVLLSPWSLSGELVFDPDKASEPGESQFQQQLWKDWCRFYASLDSGGAESTTGVGSGSPFKEANSSSTTTTTTTDKLPKMMDVFVCGVRLKVPTRFVCVVDPDNVASSPQQSGSLLAGFRQWLCEKTMENLICHQRRQSGPTSPSAGESDSFGLAGSWNIVDPGQRERCCCSVGQSTSCCGTGAAGSVRFTSKCKSSDVSPKRVGCFHRRVAASRKLMTSAGLDGSSTAAGDDDDQQHQTMVEEAGTSTTSALLNSTTTATATVTATAASTASAAAAAAAAPVTSAVCSSASMTSSTMFLDHCSANVVGCNVAVEPKSKMRRSVEQSELLQQQQTPDPLVIPPKYTGLESIEVDQRLLSMKRRYNVSTNYDTDGDLQLMKLSFSRYHSHHQEQIHLLHIQQQQQQQQQQQQQQQQQQQLQQQQQNQSNSFISRVSSSSVKNFGKPTDQFTEKFYRALTSYSWCQAMETNRKRRFFVQNVLLLFSEAVLNCRSIAPVGQRHLAQSNARQVEKIYGYKNKNKRKDITTNDHDRTDDVLSGDMCKREEEKACVKSDAEFHLTDDSSAIVHHQMMEEGPSPSSGISDCENEIHAFLSPPPSLGTEEERLNATEKIVAVKMDATNQNNEHANSSSSSNNNNNNNNNNSSSTTTTNSNNVAVLSCSQRSSASSAYPSSTQVVAVAGAVVDHLGIIYPTPPSQEALQQLSPESHAGTGTTAVASTGTTAVAGTQTGACSSGSYGQGSTMKAASYLSGYRDCKDAPEVQVVIPYVLASEFFGAVPASSRRSAVRFEKILCYKPSRLLPALYHHHHHHHHHHHHHHHHHHQSASVGHLASLPTYGLGAISHHSWSNCGSFGSWFGSSSVRLGSQASIGLDSSSSATGRSIISAPASVRSVAEPSPVNNNPPSVSSPHFVRTPRTPGMELASPMSNASSAYAKNLSSIEPASSVLHPEGHSLVMMLLLSDTFVHLYRDSNFDSCPLCVCNMNIRGLEMGHYVNLRRCDDNMSVLYHSSARNTFTNKCTCGFSASRHRYLSYKSGVFYEDEDDATGAVWERLTASHLETVPFSREIVELVRHQSLLQDLTCSLMLFRTSPFGCLNAEASGAIGGSGGGGGGGGGGGSLSTSLLSVTSSSWSMFDDVEKNIPLGLPNAVYNAVELRDFTELCQLALEQSMLSLDCNNVALYVEQVPAAKRSATSSYINGWGYAKTVEPSNSLETMALLRSLLPLLQESLQKPRGLWQAKHSVEGPLTWRQLHRKCTHRPGSNGREDLSGPEPIPELLVCSDRDWIQVSPFSIRLWDRMCLEPFTQPKDVAFIAVVPDTQYVVRKARGFFRELSRTYEGMRLGRHCPITRVLKDGIMRVGKTHAKQLDQKPVDPWFDRFESASDGRNIIGAKLKLYAQVCRHYLAPHIFSPVWNAFDRSIFREIGRECPASTPTTTCTSSSLSNVDSVGTAVSSQSAELANTTVSASGSGASCVSAGTTGMTTTTTTATAVTTSVADSSSSTAISYGLNNNNNNNNTNNSSNNSMNMMNTSSSNNSNDSRMSESSTNGNDNNGLLSPTSDGPNFPHVVVIYLVNPFNFGPDDQHVRDLNRLVTTGLFRCYLEILQEVPATFRSSMQLQIIPLQTVLDTSLLDDWELQHNGIVDEDRRLKSMPRAAVNSNSSSVGGGIGQQRVPLSSSTHLRSLALNVFMQIRSVAYSCLHSCLPKVMTGFGPAASRHELLRRKQNSAGFRLYSAPVVLAPIQDRTSCLNGTTGSNGSFGSSSSNSASSFCGGGSESRDDHGQVLFLAYCLSAKQQWLLCTVTDQQGAVLDSCVINMMLNNRHNVVKRELIWSALRRLWDYVVGILASSCRPWRIVIGRLGRLGHEELKAWAHLLSKSQLRSTSRLLREQCAVCQPMPTIFETPAILSACLISTELDPNMRIFPDSFVHDDRFGQGAKQCPLSSPEDVSSSHIMVFPTSALIQISQCCIMTGGLPGADETDGDFESIWKDLMISPEGDGLESGLNDIFGSMSEANLMNDSTVGFDANSSHTRGLAISESSDESIQLQPLALGFLVSTAPTGPVPEWFWTVRPSARDLLPVHLRSALHIHTSGVQQSDDHLLAGGANRSTSGTVHPLDSSLTTDVLRYVLETYNALSWLCLDFRTGDRVSCFPLHIQALSRLYRAMDALL
Length2359
PositionMiddle
OrganismTrichinella sp. T8
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Enoplea> Dorylaimia> Trichinellida> Trichinellidae> Trichinella> unclassified Trichinella.
Aromaticity0.07
Grand average of hydropathy-0.328
Instability index52.18
Isoelectric point6.80
Molecular weight257858.45
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

>MDP06404
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.95|      22|      44|     842|     874|       1
---------------------------------------------------------------------------
  842-  864 (34.02/15.13)	TTNSNNvAVLSCSQRSSASSAYP
  886-  907 (37.94/26.09)	TPPSQE.ALQQLSPESHAGTGTT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      98.61|      30|      44|    1616|    1645|       2
---------------------------------------------------------------------------
 1616- 1645 (52.33/31.05)	GREC..PASTPTTTCTSSSLSNVDSVGTAVSS
 1661- 1692 (46.27/26.49)	GASCvsAGTTGMTTTTTTATAVTTSVADSSSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.26|      18|     240|      29|      87|       4
---------------------------------------------------------------------------
   37-   58 (23.38/24.67)	GYGRcVTQGflcVWRRAPPVHS
   89-  106 (28.88/55.13)	GLTK.IEEG...SWEKGVEYET
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     227.81|      56|     241|     737|     793|       5
---------------------------------------------------------------------------
  737-  793 (97.69/63.41)	R...EEEKACVKSD....AEFHLTDDSSAIVHHQMMEEGPSPSSGISDCENEiHAFLSPPPSLG
  798-  833 (39.82/18.69)	RlnaTEKIVAVKMD....ATN............QNNEHANSSSSSNNNNNNN............
  980- 1032 (90.30/54.07)	R...FEKILCYKPSrllpALYHHHHHHHHHHHHHHHHHHQSASVG........HLASLPTYGLG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     102.99|      25|      52|    1064|    1088|       6
---------------------------------------------------------------------------
 1064- 1088 (41.05/21.05)	LDSSSSATGRSIIS.APASVRSVAEP
 1092- 1110 (28.13/12.03)	.....NNNPPS.VS.SPHFVRTPRTP
 1118- 1141 (33.81/15.99)	MSNASSAYAKNLSSiEPAS..SVLHP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     155.33|      48|     164|    2082|    2139|       7
---------------------------------------------------------------------------
 1812- 1867 (70.50/33.14)	PLQTVLDTSLLddweLQHNGIVDE.DRRLKSMPRAAVNSNSSsvggGIGQQRVPLSS
 2086- 2134 (84.82/53.56)	PMPTIFETPAI....LSACLISTElDPNMRIFPDSFVHDDRF....GQGAKQCPLSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.27|      21|      44|    1311|    1334|      11
---------------------------------------------------------------------------
 1311- 1334 (27.93/25.65)	LSTSLLSVTSSSWSMFddVEKnIP
 1358- 1378 (35.33/20.02)	LEQSMLSLDCNNVALY..VEQ.VP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     300.65|     100|     260|    1868|    1978|      13
---------------------------------------------------------------------------
 1768- 1805 (31.28/ 8.01)	..............................NFGPDDQHVRDLNRLVT.TGLFRCYLEIL.QEVPATFRSS................................................
 1879- 1978 (179.03/111.45)	FMQIRSVAYSC.........LHSCLPKVMTGFGPAASRHELLRRKQN.SAGFRLYSAPV.VLAPIQDRTSCLNGTTGS.......NGSFGSSSSNSASSFCGGGSESRDDHGQVLFLA
 1980- 2040 (51.31/17.71)	CLSAKQQWLLCtvtdqqgavLDSCVINMMLN.....NRHNVVKRELIwSALRRLWDYVVgILA.....SSC...............................................
 2192- 2240 (39.02/12.69)	.....................................................................SGLNDIFGSmseanlmNDSTVGFDANSSHTRGLAISESSDESIQLQPLA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      33.73|      10|      66|     519|     528|      18
---------------------------------------------------------------------------
  519-  528 (18.87/11.45)	EQSELL..QQQQ
  586-  597 (14.87/ 7.47)	EQIHLLhiQQQQ
---------------------------------------------------------------------------




































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 MDP06404 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) DDSSAIVHHQMMEEGPSPSSGISDCENEIHAFLSPPPSLGTEEERLNATEKIVAVKMDATNQNNEHANSSSSSNNNNNNNNNNSSSTTTTNSNNVAVL
2) GLDGSSTAAGDDDDQQHQTMVEEAGTSTTSALL
3) PPSQEALQQLSPESHAGTGTTAVASTGTTAVA
4) SVRSVAEPSPVNNNPPSVSSPHFVRTPRTPGMELASP
5) TAISYGLNNNNNNNNTNNSSNNSMNMMNTSSSNNSNDSRMSESSTNGNDNNGLLSPTS
6) VEPKSKMRRSVEQSELLQQQQTPDPLVIPPKYT
754
416
887
1081
1693
508
851
448
918
1117
1750
540










Molecular Recognition Features






MoRF SequenceStartStop




NANANA