<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 MDP25108

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTHQNHQTNGASLEDCHTNFYALTDLCGIKWRKFVNGERPNASSDPLADPILRSYSRCMQADMLCVWRRVQSTKQDNTDPNALNFEITTSTTVHPPLSLAAAKELWIFWYGEEPDLSELVDAELLKIAANQSLWNGTWKGELTYECRSLLFKALHNLMERFVLTKDIVRFGKWFVQPCTSSDRLFGRSSQHLSFSFTFFVHGDTVCASIDLREHPAVRPLTKEHLAEAAAAFAAASGQQAGATRGGQDANATTPGSTSPPLPAGSPPLLLDGGAAAGGVEKPAAAAAQPTQARKVMLAPFGIAAILTGNSYKASDPMAEKILEDWASFFPLCNKDNTDVPPVVEVVSGGHKMYHPTNYVLVTDLDDMEHMEFAELHKAQNGGQVAVGAAGETAVLATLSSSCSSSASSAVAAAAAAAATATPAIATATPVAAAAAGSAVAAAAAVKESIRAATQAVSALERLTFQPYYDQRPTSGFTFNTNNTHIPATAAIEMPERSWQDCIMNTLHVDAAAAAASAAATAAATATSATAAATSAADEEDSKQTDSNQHVQQQIQQQQQQKQRQKLWNFVDPMQKAPCICINAQCSSGVGSKRQQSNSSSSSGSTSSNSIGSPALRAAIGCVTSSSSSTSSSKSSFQLYQQQLQQQQYSSHQRPGTPAAAGGAHHSSSSFSYSSSSSVGCFSTSASSSSSAYYSSSSNAAAGGLKRHILPFHKRFNTQTALRPNNNNNNTTTSSTTTTTDTNIPKQRHLATNSSSTTTTAAATTTTGSSGTPCHQVGAPSTYARNSLGLDSAAVLGASSVGSPATPAPSPHPHPNSANSQPTSVPPPADQLLNMSPHDAPTSVSNLQQPPTPIDHLLDKNTPAPTPTDQHDSKSITASPYVHQTPSVEPPTYATSATEHGGGTTQPGSVPQQQPATPTPATATGTATGTAAGAGTTAAAAASAAVGGGGGSATQCGTISVKKLEMQQQNPATPAQVASIIKQEPGTAGRSMLQQQQQQQQAVGATSAMEAVTNLFNLYKPPQLTLKDGDNVYDEEWLKEIYDFSFQQDWDDLPVKRPKLHESAKQRRPRYSKNIYEGHTHFKPLMPSPGSVYGSLLSIDNGNGAASLGGATAAAGEAGAAGGGVGLVGIASNPFAANSADEADNAIGGGAGGAGGASSFFQGLDIKTEPGLHSPCKESKSTSTAGSGSGNNLFTAEGLNPSLNDLEQLFETSSNDECSSAQIHTPPDSNNPSNGGCSTVTNTIDELKRSTAVASAVVAAVVASSGAGSIQAEDLTKMFPTPPSHEQQHPNSSPCQTDVVMTDLSIDTTTTTTTAAATVGALGVVLKMVKQEYSVELGSPLEEPIDDWSYVYRPPQQEKFVGSSRYAPLTNLPSQMQPPLQMPANCFYNPTWSHSQKSRAATLAKAAAAQQQQQQHQKHQQLQQRIQQHQQLQQQHQQQQQQQQQQQQQQQHSHQKHQQLHELLSAGPRTPMTSGSGAMPSPSSVPQPLSSGGSQLLLNQLNCPQAPPGSSMQQLMQRTGISPIPSPVQGGVVVPFPRSSPMHLGTMRQTPTHPPPPYPYELAAASPATSTSTTSSYLNKQYNSPGHPPGHPHTPQGIHHHNVYNQMPGGGGGGPGSGLAMPGGDGSKLAMMQYGASGAGGANSTGLGHVAAATAAAAGAIGLLQELPEVNSVLVNILLYDTALNVFRDHNFDSSSVCVCNADTQKIGNIRGADSGVYVPLPGSSFNPFPTHRLAMATSSAGQWNSSTGSGNMRMISAFSVGQDSPLLAGAGGAGGVGGGPSSGAGSGHHHHHQQQQHHHHQQHHHQQQQQHHQHSSHHPGHGPNGGSSSSSCTPPSSNPHITGYVDDDPVECTCGFSAVVNRRLSHRAGLFYEDELEITGIVDDPARNKQPTLLSLIQSLCRKGSSGNIKPAAGGESGKELEKLTTTSGTTTTGTTTGQQLEQLAHAIFDLLLDQCSIIQTSSSSVHRALQSHRRRMSRNRRLFGNSGFPCASMASIANVLEFTDAHDVISLALEQARLAFESQRMDMNMLEFGHGHGHGHGQGHHHGQQHQQQQQQHNLHQQQQLTAFQAAPALRQKLLTLGSSRLTVHKWPYLPVGFTRSNKEIVRTMNAIQPMLQSAFHCKSRGGAAGSKDASSYNTVSGPLTWRQFHRLAGRASGQCEPQPIPSVVVGYEKDWISVAPHSIHYWDKFLLEPYSYARDVVYVVICPDNEHVAASTRTYFRELSSTYEMCKLGKHTPIRGWDGVLQVGAERERDAVTPLDDWLRTLDHAPLAEQIRRYAIAFLYQLAPYLSRVPGDKTLLNPPDPSGSHSSKNQGATAGQALPTGAVAAEHHIEPIIKQEPGTETSQSATSQEQPDSKADVKPGAAGTGADTKPALVLGDPLGMGETLEDINPSAIVLYVVNPFTFASDSFELERLALIALLRCYAELLKAVPDSVRAQMNIQIISLESIMELGPCGNRRRFSDEIKCLALNIFSQCRRHLVHAQPVKSLTGFGTAANMEAFLKTKDEPNRRAYKMYTAPFVLAPMHERNDKTDFSRAAGSMHGQNETRYSVMYCNYCLSEDQSWLLATATDERGELLEKVCINIDVPNRARRRKAPARYVALRKLMDFVMGLISQTSQMWRLVIGRIGRIGHSELKSWSYLLSKQQLQKASKQFKDMCKQCTLMYPPTILSACLVTLEPDAKLRVMPDQFTPDERFSQISMQNPLSTPQDVTCTHILVFPTSAVCASFTRQFQNEPQVDDDFIFGEEEGNEDFSDADIGDLFWDSAHMEPSPTHGSPGRLEDNRSWQSAGGNNFKCTPPQEVEEVGSLNQQPISVGYMVSTAPTGRMPAWFWSACPHLEDVCPVFLKTALHLHVPNIQIADDILNSTNAHQSANDHPLDSTLTADVLRFVLEGYNALSWLALDSNTHDRLSCLPINVQTLMDLYYLTAAIA
Length2934
PositionMiddle
OrganismDrosophila grimshawi (Hawaiian fruit fly) (Idiomyia grimshawi)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Diptera> Brachycera> Muscomorpha> Ephydroidea> Drosophilidae> Drosophila> Hawaiian Drosophila.
Aromaticity0.06
Grand average of hydropathy-0.430
Instability index51.44
Isoelectric point6.31
Molecular weight313164.94
Publications
PubMed=17994087

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. 
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

>MDP25108
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|    1520.87|     345|     358|     767|    1122|       1
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  226-  547 (294.25/96.33)	.......................................................................AEAAAAFAAASG............qQAGA.....TRG..GQDANATTPG..ST..SP.....PLPAGSP.P.LLLDGGAAAGGVEKPA.........................AAAAQPTQARKVMLAPFGIAAILTGNSyKASDPMAEkilEDWASFF...PLCNKDNTDVPPvvevvsgghkmyhptnyvlvtdlddmehmefaelhkaqnggqvavgaageTavLATLSSSCSSSASS..........AVAAAAAAAATATPAIA..TATPVAAAAAGSAVAAA.AAVKESIRAATQ.AVSALERLTFQpyyDQRPTSGFTFNTNNTHIPATAAIEMPERSWQDcimntlhvDAAAAAASAAATAAA......TA.TSATAAATSAADEED...........SK............QTDSN
  767- 1050 (458.88/155.34)	......................................................................................GSSGTPC.H.QVGAPST.YARNSLGLDSAAVLGA..SSVGSP.....ATPAPSPHP.HPNSANSQPTSVPPPA..................D.QLLNMSPHDAPTSVSNLQQPPTPIDHLLDKNT.PAPTPTDQ...HDSKSITAS.PYVHQTPSVEPP..................................................T..YATSATEHGGGTTQ..........PGSVPQQQPATPTPATATGTATGTAAGAGTTAAAAASAAVGGGGGSATQCGTISVKKLEMQ...QQNPATPAQVASIIKQEPGTAGRSMLQQQQQQ........QQAVGATSAMEAVTNLFNLYKPP.QLTLKDGDNVYDEEW...........LKEIYDFS.....FQQDWD
 1060- 1416 (435.88/155.84)	HESAKQRRPRYSKNiyEGHTHFK....................PLMPSPGSVYGSLLSID.NGNGAASLGGATAAAGEAGAAGGgvGLVGIAS.N.PFAANSAdEADNAIGGGAGGAGGA..SSFFQG.....LDIKTEPGL.HSPCKESKSTSTAGSGsgnnlftaeglnpslndlE.QLFETSSNDECSS.AQIHTPP.......DSNN.PS.....N...GGCSTVTNTiDELKRSTAVASA..................................................V..VAAVVASSGAGSIQaedltkmfptPPSHEQQHPNS.SPCQTDVVMTDLSIDTTTTTTTAA.ATVGA.......LGVV....LKMV...KQEYS..VELGSPL.EEP.IDDWSYVYRPPQQ........EKFVGS.SRYAPLTNLPSQMQPPlQMP...ANCFYNPTWshsqksraatlAKAAAAQQ.....QQQQHQ
 1435- 1661 (249.23/79.04)	HQQQQQQQQQQQQQ..QQHSHQKhqqlhellsagprtpmtsgsGAMPSPSSVPQPL...........SSGG.................SQLLL.N.QLNCPQA.PPGSSM.QQLMQRTGI..SPIPSPvqggvVVPFPRSSPmHLGTMRQTPTHPPPPY..................PyELAAASPATSTSTTSSYLNK........QYNS.PGHPPGHP...HTPQGIHHH.NVYNQMPG...............................................................GGGGGPGS......glamPGGDGSKLAMMQYGASGAGGANSTGLGHVAAATAAAAGAIG....................................................................................................................................
 1711- 1797 (82.64/20.48)	..............................................GADSGVYVPLPGSSfNPFPTHRLAMATSSAGQWNSSTG.sGNMRMISaF.SVGQDS...PLLAGAGGAGGVGGGpsSGAGSG....................................................................................................................................................................................................................................................................................................................................................................hhhhhQQQQH.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     118.34|      18|     254|    1788|    1814|       2
---------------------------------------------------------------------------
  549-  564 (27.88/ 6.87)	.......HVQQQIQQQQQQKQRQ
 1418- 1434 (26.55/ 8.64)	H.....QQLQQRIQQHQQLQQQ.
 1792- 1814 (36.95/12.86)	HqqqqhHHHQQHHHQQQQQHHQH
 2039- 2059 (26.96/ 8.90)	HghgqgHHHGQQHQQQQQQHN..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|      77.18|      11|      19|     666|     676|       3
---------------------------------------------------------------------------
  584-  594 (17.17/ 6.99)	QCSSGVGSKRQ
  625-  635 (18.30/ 8.09)	SSSSTSSSKSS
  666-  676 (21.31/11.02)	SSSSFSYSSSS
  687-  697 (20.40/10.14)	SSSSAYYSSSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.39|      11|      19|    1914|    1924|       4
---------------------------------------------------------------------------
 1914- 1924 (18.88/10.89)	GGESGKELEKL
 1934- 1944 (19.51/11.56)	GTTTGQQLEQL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.35|      21|      25|     718|     738|       5
---------------------------------------------------------------------------
  718-  738 (38.81/22.47)	QTALRPNNNNNNTTTSSTTTT
  746-  766 (35.54/19.85)	QRHLATNSSSTTTTAAATTTT
---------------------------------------------------------------------------




































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 MDP25108 with Med13 domain of Kingdom Metazoa
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