<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 MDP07041

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTHPSHQTNGASLEDCHTNFFALTSLCGIKWRKLVWGEVAGGFGGTPLEDPVLSSFSRCLAGDILCVWRRVAATPATSGPAAAATATSAPGAGIFDLGIAPSPAPPPLSLTAAKELWIFWYGEEPDLSGLVSPELIACESEQGSWESGLSYECRSLLFKALHNLIERCLLSRDFVRLGKWFVQPYNGYEKHRCSSSHLSFSFAFFVHGESTVCASVDVRQHPAVRHLTKTCLQRTQTSQSGVKVILAPYGLAGTLTGQVSRMDSQLLEEWKHFYPISTGSNPETGLPPLVEVLVGGVRMRYPSCYVLVTDMDDMPSETPLSPPSSPVTCERPLLTQQELSAATELPERVWAECTLSSPVSTSKTESSTEPGTWTFVEPTQKSSCTCSCSKYTTPGGWKSLASSQVQRERVDKGGRRVVPFHRRSTTQWDACPSVPANAPRSVLSRTEAPSTPPGGPPSYSRGPPTGGDCLPVPSVGSPGSPAPSPLLTPHSEPASVPPAEPTMPTLSPQPPPSHTNTALPLTPSQGPKSISSACNNQVHSPSVPGPVLKRPILISREYEGALLEDEQPLSWLYDYSLQEAWLNHPVKRFKSMNISAPPTNRSNVLYPPMNSQTLQSQAPKLEIKQEPVAVGECIGRRTDPYEFDATGEENGTNVDGLRRQRDDPSKPGSLFTSEGLQPSYKDLDQIFDNSDPDTSSDETNLNQLQIQTPPGSNKSGGLHEETRVDGANKNNNRGVTVLRPEELSKMFPTPPSLEHNPVASPCQLSDPLMDQTELLMPSRPLRHLPDIYPNMGSPQEEPIDDWSYVFKPAAISKMVGSSKYAPLTNLPSQSLPSITLPSHCVYRPSWQCNSASTNQADKPLPPTRPGSVQQQQQQQQQQQQQQQQQQQQPCPQSPAPPYRSNTLPGRPPPPPYDQPSPATSTTSSYLNKNLNSIEADTPGPARAPESNSLVVNILLGDTALNIFRDHNFDSCSLCVCNAGPKVVGNIKGADAGVYLSNSWVGSALFQDDDQIRCSCGFSAVVNRRLAHRAGLFYEDEMEITGVAEDPAEKKKGSLTAVACPGAKAAPEGLDTIPPNVLELLREQCLIVQSSASSLYRAARICATVKSYPTLTPTVNTLEFNDGNEVCVAALDQGKLDGAHNERAARVNGVHRWVFLRARGPQCSGDIVRMMRSLQPLLQDAVQKKCTTRMWEAPYTVTGPLTWRQFHRLAGRGTDDRCEPQPIPALVVGYDRDWLSLSPYAVCFWEKLSLEPFAGHRDVAYVVVAPDSDCIVSRVKSFFRELSCTYEICRLGRHTPISKQLRDGILRVGKSTVQKLAKQPMDDWFKFLGENHIGELLRLYAQVCNHRLAPYLTQVIQDRSLLDPGDSQQANKQQQQQSTIIPVPDTMPATPDVLSTKPESVEGENPRSETPSSSTATNQTTTNITGNTTPTSQPTSNTTPITTTTGPDEEEIEPPAIVVYFVEPFSLGGTEDPDRRRLAILALLRAYSSAINSMPENMRSNIHVQIISLESIMELGRARERRKIQDEMRALALNVFLQGRRLLNHNSTVKSLTGFGTAAAADIFLKSKDXYSLHQERNRAPYRLYAPAFVLAPLRAKSEAPESFGMPRPEECAVLYLSYCLSEDQSWLLAAATDDRGEIFETATINIDIPNRKRRKRASARRIGLQKLMDFILSVMSQGVQPWRLVVGRIGRIGHGELKGWSWLLSRKALLKASKHLKEICGQCSLLYPSAAPCVLSACLVSLEPDSTLRLMADQFTPDERFSQASVNCQLSTPQDVTCTHILVFPTSATTQSSQTAFQEQHNVPELGDDELFSALNDDMPEGMEGMGDFNDIFNVWPEPGAGGGQSPSGSPHRPEGSPHGGDGGGSGLGNHDGPGSPFPCSNTPRIATTEQAEEVGTLLQQPLALGYLVSTAPTGRMPPWFWAACPHLENVCPVFLKNALHLHSPAIQQNSDDLLQQQNAPTAHPLDSQYTTDVLRYVLEGYNALSWLALDANTKDRLSCLPVHVQALMHLYHATAALV
Length2019
PositionMiddle
OrganismAtta cephalotes (Leafcutter ant)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Hymenoptera> Apocrita> Aculeata> Formicoidea> Formicidae> Myrmicinae> Atta.
Aromaticity0.07
Grand average of hydropathy-0.414
Instability index61.71
Isoelectric point5.86
Molecular weight220440.05
Publications
PubMed=21347285

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

>MDP07041
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             7|     614.78|      93|     157|     667|     760|       1
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  270-  378 (71.94/20.48)	.WKHFYPISTGSN.P..ETGLPplvEvlvggvrmrypscyvlvTDMDD......MPSE...TP.....lsPPSSPvtcE......RPLLTQ..QELS...AATELPERvwaECTLSSPVSTSK...TES.S...........TE.................PGTwT...........F....V.EP
  379-  489 (106.89/34.92)	TQKS.SCTCSCSK.Y..TTPGG...W.................KSLAS......SQVQrerVD.......KGGRR...V......VPFHRRstTQWDacpSVPANAPR...SV.LSRTEAPSTPPGGPP.S...........YSRGpPTGgdclpvpsvgsPGS.P...........APSPLL.TP
  495-  607 (94.52/29.09)	SVPPAEPTMPTLS.P..QPPPS...H.................TN.TA......LPL....TP.......SQGPK...SissacnNQVHSP..S.VP...GPVL..KR...PILISREYEGALLEDEQPlSwlydyslqeawLNH..PV..krfksmnisaPPT.............NRSNVL.YP
  608-  678 (65.54/18.04)	PMN..SQTLQSQA.PklEIKQE...P......................vavgecIGRR...TD.......PYEFD...A......TGEENG..TNVD...GLRRQRDD...P...............................................skPGS.L...........FTSEGL.QP
  679-  759 (117.87/37.84)	SYKDLDQIFDNSD.P..DTSSD...E.................TNLNQ......LQIQ...TP.......PGSNK...S......GGLHEE..TRVD...GANKNNNR...GVTVLRPEELSKMFPTPP.S...........LEHN.PVA....................................
  760-  844 (66.09/18.25)	............S.P..CQLSD...P.................L.MDQ......TELL...MPsrplrhlPDIYP...N......MGSPQE..EPID...DWS..........YVFKPAAISKMV...G.S...........SKYA.PLT................nlpsqslpsitLPSHCVyRP
  845-  926 (91.92/28.10)	SWQCNSASTNQADkP..LPPTR...P.................GSVQQ......QQQQ...QQ.......QQQQQ...Q......QQQQQQ..PCPQ...SPAPP..........YRSNTLPGRPPPPP...........................ydqpsPAT.S...........TTSSYL...
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.09|      12|      16|    1291|    1302|       3
---------------------------------------------------------------------------
 1291- 1302 (22.36/15.06)	GRHT..PISKQLRD
 1308- 1321 (16.73/ 9.05)	GKSTvqKLAKQPMD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     124.10|      44|     573|     939|     995|       4
---------------------------------------------------------------------------
  939-  995 (57.74/75.48)	GPAR.....APESNSLVVNILL.GDTALNifrdHNFDSCSLcvcnAGpkvVGNIKGADagVYL
 1515- 1564 (66.35/44.01)	GRARerrkiQDEMRALALNVFLqGRRLLN....HNSTVKSL....TG...FGTAAAAD..IFL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     460.16|     152|     968|      71|     262|       5
---------------------------------------------------------------------------
   71-  262 (215.83/239.53)	VAATPATSgPAAAATATSAPGAGIFDLGIAPSPaPPPLSLTAAKELWIfwygeEPDLSGLVSPELIaCESEQ.........GSWESGLSYE.CRSLL....FKALHNliERCllSRdFVRLGKWFVQPYNGyekHRCSSSHlsfsfaffvhgestvcasvdVRQHPAVRHLTKTCLQRTQTSqsgvKVILAPYGLAGTLT.GQVSRM
 1042- 1208 (244.33/164.75)	VAEDPAEK.KKGSLTAVACPGAKAAPEGLDTIP.PNVLELLREQCLIV.....QSSASSLYRAARI.CATVKsyptltptvNTLEFNDGNEvCVAALdqgkLDGAHN..ERA..AR.VNGVHRWVFLRARG...PQCSGDI....................VRMMRSLQPLLQDAVQKKCTT....RMWEAPYTVTGPLTwRQFHRL
---------------------------------------------------------------------------




































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 MDP07041 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) KRFKSMNISAPPTNRSNVLYPPMNSQTLQSQAPKLEIKQEPVAVGECIGRRTDPYEFDATGEENGTNVDGLRRQRDDPSKPGSLFTSEGLQPSYKDLDQIFDNSDPDTSSDETNLNQLQIQTPPGSNKSGGLHEETRVDGANKNNNRGVTVLRPEELSKMFPTPPSLEHNPVASPCQLSDPLMDQTELLMPSRPLRHLPDIYPNMGSPQEEPIDDWSYVF
2) TTQSSQTAFQEQHNVPELGDDELFSALNDDMPEGMEGMGDFNDIFNVWPEPGAGGGQSPSGSPHRPEGSPHGGDGGGSGLGNHDGPGSPFPCSNTPRIATTEQAEEV
3) VIQDRSLLDPGDSQQANKQQQQQSTIIPVPDTMPATPDVLSTKPESVEGENPRSETPSSSTATNQTTTNITGNTTPTSQPTSNTTPITTTTGPDEEEIEPP
4) WKSLASSQVQRERVDKGGRRVVPFHRRSTTQWDACPSVPANAPRSVLSRTEAPSTPPGGPPSYSRGPPTGGDCLPVPSVGSPGSPAPSPLLTPHSEPASVPPAEPTMPTLSPQPPPSHTNTALPLTPSQGPKSISSACNNQVHSPSVPGPVLKRP
5) WQCNSASTNQADKPLPPTRPGSVQQQQQQQQQQQQQQQQQQQQPCPQSPAPPYRSNTLPGRPPPPPYDQPSPATSTTSSYLNKNLNSIEADTPGPARAPESNS
587
1789
1354
397
846
806
1895
1454
551
948










Molecular Recognition Features






MoRF SequenceStartStop




1) MPWQLRYIG
92
100