<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 MDP15271

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMAMPQPANGGSLEDCITNIISLTELNGIKWRCYHVSQHVMRSSMRIQDDPIMEAYGKCLQENILCTWRRKPLSVSPATLPLPSLIDDNGKELWVFWFNEKPETLDELLSQLTADTTGEEETTPPMSYDVRILYFKSLHVVIERTLLQLGWIRFGRWFTQPIRSFPRQSLAKYPQYNIACNFQFFVYGEKIVCMTINAQRQPTLIRINKMHVNCGRRVPVLLAPWSLKGTLLPLTEKAHMKMDEHSEYKEWNKFIPLEISQLEGDLQTDEDMPRMVAVEIDSIRMFYPSCLICVTLDEDGHCHSVNNPNDILPNLTPSELIVQETHAPLSMNSMSSQVLPPRIVVSKRNKLLTAGLRSLPHTNAVLASTFLGWNFNFPRRQVERCNCGLCINLPKTPGGEALWSSKGLAQVTRYTVNQQNSIQRPYHERTKKNKKSESGINRIEPMPSSLESDCMSDDEKEPVVDWATCQTEDLQTGMYCSADEAMVYHYDPNNQTRPLTDDGETFVCSPFTPVRTISPCVNCTWPAAPANQMVSSVFNEIFWENDDTQQLPPHTSLERKAAAADYYYNPTLPSLWEQPHYAPYHNRRQNEKRRANYPPAIRFDELSPEEPGSQETIPATTSPLPEDDARRVVGRESSLLMDSIRNVTGNAKRAVASGAPEAKRRRIVKKKKKRRDNKGLNWPSIEDLDIEDISHDTEEDFFCKVHFDTGRDSPDSERSEPASPVVEEPPQNADCEEDIDDGGEGCSSISGGDMIVPMDVDEAPASTQPADSILSPPASNETPEQGNHHWNRVGTPSVGENTNYTSWQPRLAQADAHSMNQIYPTPPSVQSEAQQFSPASVPPPQQTVAHMPPCSQLYQTESDEVTEPVELVNAQEEEELSEEELPLLPINDPIKFFIDKKGPIAGILQKIERRPIHGVRENVRLPIVTRFSSKYRLSGKGVAVLPRPLDYQKMISRSEKNNSPNVQPTEQQRFFDESITVTFPDERIPGTPTQLQYNFRPPYMTQLSTTMAPPASQSIHPHPGLPPNHPMQSQFMHPQMQMRMGPMGVQTPPHTAFGSPHGYMHNQGIQGMYAMQLGAGNQMSHYGGMQAPQNLNPQMQPPLYSSSSVPMRSTGFHQNGPMAPPYARQPSVIDLTGPMPGASTSNVPFQNINQHQQTTPQFPVSHHTPQTMHMVPSSSMHQRRELFPEGSSIVLALVLSDTILDLHFDTVFDACPICSCHTSIRARELGMYITPPEILRQPADQQLIGPWSGFAQQEASTPCTCGFSAVRHRYLSVCSGLFPEDAREATALDSAALSHVPSIQLDSAALVPATNISWFNPENDVHLNIVNQIRILSQTHNWGKAIHHLGSLTEQMGKALKPQEAISSDTGGNAEHIVSLVDQTELLLLGNAAMELVTINMLGNRRNTNPSPNFLTYFHPWGLQIANEIREPSVSEWKYLLDNILNSVDKSMKAVRCAGSQEMGKIVEGPLTWRQFVTKNQKTTKDGAAEEELFVQEPIPYILASTDKDAIRIAPQAVQMWENLSLGPYDQPKDVLYVAVTVDCKEAADSTKTYLENISQLYERMRLGRHVACPTGECRDGVLKSVSNPTKNKFTASPQTIDFQDMARYVDNKNFMIKLKNFVQSMEESLAQLLIEEERLFDRTYFRELLALDWRAKRNASAALAANAEKKYYERENQKPEEMGTSSHQPPTPLQPQLNLAPQLTPAVPIGSPTCLQQLIEQPSTLLPPIGGSSTQMLPPQQSARDDSTAAIEPEDIPTDDYPALPHVIVIYVVNPFTFGHEFRHPMMMRLSMLAITRAFNAVCSRLPLSRRIQLQLEIVGIEQMGDLIRPFPDYANDPRIPFDLHCRPFNNRHHVKGCDMSDSYRATCLSVYTHPRVLSPDAIRRVQARCMTRFGPGSWMLDSLDALMNMDKSMLFKMPSNAISLAPGPVLYQKDDEKVVQICQEEQILYVSYCLIGGDWLCATVTDGLGRITDSCIINTKPKVDGKPYRNKTQILDAMGRLWTYILSVLSMETRNWRLVIGRLGRMGHGEFRVEQEAAQEKSKTRKLSTPYDVSVTHIMTYQVGVELILENQEQTGQADEEWFDINIEDPEMDIIINDIGTSTGPQPSAGFKQGGPPTFFPEQSQDITAENQPLASGYYISTAPAGDLPEWFWANCPSARRRTPVHLKASLHINVPEVQKGDDIGLTKDKTETKDKNELSSEKHPLDSAKTDEVLRHVLETYNALSWLNVNASTGERVSCLPMHIQHLTRLYHTVARFLL
Length2261
PositionMiddle
OrganismDiploscapter pachys
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Chromadorea> Rhabditida> Rhabditina> Rhabditomorpha> Rhabditoidea> Rhabditidae> Diploscapter.
Aromaticity0.07
Grand average of hydropathy-0.492
Instability index60.64
Isoelectric point5.59
Molecular weight254144.20
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

>MDP15271
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     434.23|     150|     454|    1399|    1578|       1
---------------------------------------------------------------------------
 1311- 1374 (35.24/ 7.22)	PATN.ISWFNPendvhLNIVNQIRILSqTHNWGKAIHH.LGSLTEQMgKALKpqEAISSDTGGNAE..........................................................................................................................
 1409- 1578 (232.78/268.55)	PSPNfLTYFHP...wgLQIANEIREPS.VSEWKYLLDNiLNSVDKSM.KAVR..CAGSQEMGKIVEGPLTWRQfvtKNQKTTKDGAAEEELFVqepiPYILASTD.......KDAIRIAPQ.AVQMWENLSLGPYDQPKDVLyvavtvdckEAADSTKTYLENISQLYER.MRL..GRHVACPTGECR
 1907- 2033 (166.21/127.59)	.......................................LMNMDKSM...LF..KMPSNAI.SLAPGPVLYQK...DDEKVVQICQEEQILYV....SYCLIGGDwlcatvtDGLGRITDScIINTKPKVDGKPYRNKTQIL.........DAMGRLWTYILSVLSMETRnWRLviGRLGRMGHGEFR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     327.89|      72|     456|     269|     340|       2
---------------------------------------------------------------------------
  269-  340 (127.35/59.16)	EDMPRMVAVEIDSIRMFYPSCL......ICVTLDEDGHCHSVNNPNDILPNLTP.S...ELIVQETHA.....PLSMNSMSSQVLPP
  726-  799 (77.45/33.06)	EEPPQNADCEED.IDDGGEGCSsisggdMIVPMDVDEAPAS.TQPADSI..LSP.PasnETPEQGNHHwnrvgTPSVGE........
  808-  856 (56.75/22.24)	...PRLAQADAHSMNQIYPTPP......SVQSEAQQFSPASVPPPQQTVAHMPPcS...QL..........................
  972- 1013 (66.35/27.26)	..............RFFDES........ITVTF...........PDERIPG.TP.T...QL..QYNFR.....PPYMTQLSTTMAPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     248.19|      78|     451|    1224|    1305|       3
---------------------------------------------------------------------------
 1111- 1212 (115.13/59.82)	RSTGFHqngpMAPP.YARQPSVIDLTGPMPGastsnvpfqnINQHQQTTPqFPVSHHTPQTMHMVPSSSmhqrreLFPEGSSIVLALvlsDTILDLHFDTV.FD
 1226- 1305 (133.06/83.39)	RELGMY....ITPPeILRQPADQQLIGPWSG..........FAQQEASTP.CTCGFSAVRHRYLSVCSG......LFPEDAREATAL...DSAALSHVPSIqLD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     120.83|      35|     451|     569|     607|       4
---------------------------------------------------------------------------
  569-  607 (58.23/41.58)	PTLPSlwEQPHYAPY.HNRRQNE..KRRANYPPAIRFDelSP
 1022- 1059 (62.60/32.61)	PGLPP..NHPMQSQFmHPQMQMRmgPMGVQTPPHTAFG..SP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.81|      21|     451|      65|      93|       5
---------------------------------------------------------------------------
   65-   93 (27.72/32.86)	CTWrrkPlsVSPATLPLPSLIDDNgkeLW
  522-  542 (43.09/23.01)	CTW...P..AAPANQMVSSVFNEI...FW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     110.87|      41|     452|    1660|    1771|       6
---------------------------------------------------------------------------
  488-  563 (52.28/ 9.30)	HYDPNNQtRPltDDGETFVCSPFTPVR.......tispcvnctwpaapanqmvssvfneifwenddTQQLPPHTSLERKAAAA
 1671- 1750 (58.59/111.33)	YYERENQ.KP..EEMGTSSHQPPTPLQpqlnlapqltpavpigsptclqqlieqpstllppiggssTQMLPPQQSARDDSTAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     172.25|      58|     259|     608|     678|      12
---------------------------------------------------------------------------
  608-  678 (88.02/73.15)	EEPGSQETIP..ATTSPLPeddarrvvgressLLMDS...IRNVTGNAKRAVASGAPEAKRRRIVKK..KKKRRDNKG
  876-  940 (84.22/48.92)	EEELSEEELPllPINDPIK.............FFIDKkgpIAGILQKIERRPIHGVRENVRLPIVTRfsSKYRLSGKG
---------------------------------------------------------------------------




































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 MDP15271 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AANAEKKYYERENQKPEEMGTSSHQPPTPLQPQLNLAPQ
2) EDFFCKVHFDTGRDSPDSERSEPASPVVEEPPQNADCEEDIDDGGEGCSSISGGDMIVPMDVDEAPASTQPADSILSPPASNETPEQGNHHWNRVGTPSVGENTNYTSWQPRLAQADAHSMNQIYPTPPSVQSEAQQFSPASVPPPQQTVAHMPPCSQLYQTESDEVTEPVELVNAQEEE
3) GNQMSHYGGMQAPQNLNPQMQPPLYSSSSVPMRSTGFHQNGPMAPPYARQPSVIDLTGPMPGASTSNVPFQNINQHQQTTPQFPVSHHTPQTMHMVPSSSMHQR
4) IIINDIGTSTGPQPSAGFKQGGPPTFFPEQSQDI
5) PGTPTQLQYNFRPPYMTQLSTTMAPPASQSIHPHPGLPPNHPMQSQFMHPQMQMRMGPMGVQTPPHTAFGSPHGYMH
6) PLDYQKMISRSEKNNSPNVQPTEQQRFFDESITVTF
7) PPIGGSSTQMLPPQQSARDDSTAAIEPEDIP
8) QNSIQRPYHERTKKNKKSESGINRIEPMPSSLESDCM
9) QPHYAPYHNRRQNEKRRANYPPAIRFDELSPEEPGSQETIPATTSPLPEDDARRVVGRESSLLMDSIRNVTGNAKRAVASGAPEAKRRRIVKKKKKRRDNKGLNWPSIEDLDIEDISHDT
1664
698
1079
2095
988
947
1727
418
577
1702
877
1182
2128
1064
982
1757
454
696










Molecular Recognition Features






MoRF SequenceStartStop




1) AKRRRIVKKKKKRR
661
674