<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 MDP08414

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMRPDEGVNDLRSLFVNKVLRNFDKVETCRHVLGFSFTFFVHGENNVCVSVSVQRQPPLYRLSRQHLTCKNGLLPVMLAPWCLNGVLKADADVKCDVDCQTEKLWREWSQFFPLPNTDATENMGYIDPVEKEQQDKQKAMSLPKMVDVLIGGVKMKYPSIFIAVADDETNLEDDQGRMRSESGVSNRGLAADEFRRLLSEHVIEDLSLEHHGDVVVAGPPCGTACDMQTAVASNPVATSTSNMVPADENIGAWNFIDLCEKESCLCKKMGGSLGSGNSAVGLSFPIPNKAQLKFGIASCTNGNDGKSSSEDKNGMNKAGGFFHRRFLNQGTSMTKTENSHECFTDCVTCGAPGVVQANISDSTSGAKDVPASTASFGLAGHSVFASLPVAAQGNGGALEGNGALGMVASAPTAMEHFQFSRDFEPFASSSGDRPKLTEYNRVKECAKPDELIVKPHFEGGEYANIDYELLRRKQSGMLTFDDAASELSSAATAKASLDQPNDLPPDEISEDFYDKLECVPSCNPPHDRRGRSISKRRKRLKLLSGVSGSQHLLHNATNVGFPFAPSPKFTAKDEPLDSPTPISGQSTTAMNVNDAVKGECDNGGFGGFPSSGAASLPDHITTGSGSDNDDETIDAFLSPPPSYSREEEMLAFCQKQTCPSDVTAKLGIKREPTILATSASCRLSALSASTQMPPQNGTTQSFSNGQQSYVAASVDHLGIIYPTPPSQESVQQFSPELSTHIMAVSNHHKDTDVKSLCDMPPSDRTAASGDTGGGSKRAASERDCDKQPLDSWSAIKRQNITDVPLSATYLSAPAFVSLPLSQLKHLSPSVAKVPMVYKPRKTHSTTSFGGPGAVPAMSHVLPFSNVIYGGVGAGAASLSSSGGTTGIGSMAHFGQHVNCRMLQAHSSCTGIGIGFDSPVRNNLSAPGSVRSINEQSPGSALNPPSVSSPHLTKTPKTPGMTDLASPLSNASSAYARNLSSIEPSSMPIACPPVECQSLVLNLLLCDSFINLQRDTIFDSCPLCVCNMNICGVEVGFYVAPSKKQDKGSLSTASHWTNKCTCGFSAVRNRYLSYMSGMFLEDEDDATDAAWNNATASAVAPAKTDFTKDIVELVRYQSLASDLTCSLLHFRPSWQALDAKAANRPPKYDVNAVELQDFSHLCQMALEQACIAMDCAVSNRSDAQLTTKPWLHRWGYLIADELSSSLETMSLLRVLLPILQVSVQKPRGLWQAKHSVEGPLTWRQLHRKCTHRPGSTGREDLSGPEPIPQLLVATDREWINVSPFSLRLWDRLSLEPYGHPKDVAYIAVVPDSRFVLLKASAFFQELSKMYQGMRLGRHCPITRVLKDGIMRVGNAFAKQLRSRLKLYAQVCRHYLAPQLCSPLGSAFDPSVFRDLSKESQSCSGNSGSGDSAMPPPPAPGSLPTQASTTSGMENMFNDSNLADASDTASGEDSTFPHVVVIYLVNPFNFGPNEQEDGLAQLVTTGLFRCYLEILRDVPEHLRGSMQLHIIPLQTVLDVSLPDEWERISIGKAKVQQPSLSQTDHLRTLALNVFTQIRSVGFSCLQNLQAKVLTGFGPAASRCELLKKKEKFSDFKVYSPAVVLAPVHDHRTSQLSGISAAVNENRDDHGQVLFLSYCLSSQQHWLLATVTDQYGLMLDSCVINLNVQERRNVVRREIIWNALSRLWDFIVGILASSCKPWRLVIGRLGRLGHEELKGWAHLLSKNHLKTTSKFLREKCSVCQPMPSVFETPAILSACLVSTELEVNLRVFPHSFVHDDRFGQGAKQCSLSSPDDVSCTHIMVFPTSALIQMNQNCVISGGLPGSDENDGDFDSLMEELMNGEEGGYLNDIFSSMGDSNLMNENPVTFDSAMHQNKVLSLPDTSDESIQLQPLALGFLVSTAPSGPLPDWFWTARPSAQYLLPVPLRSALHINTSGVQQSDDQLLPGGASRYNSGGCAHPLDSNLTTDVLRYVLETYNALSWLSLDMRTGDRLSCFPLHMQALSRLYRAMEAVIP
Length2012
PositionMiddle
OrganismSoboliphyme baturini
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Enoplea> Dorylaimia> Dioctophymatida> Dioctophymatoidea> Soboliphymatidae> Soboliphyme.
Aromaticity0.07
Grand average of hydropathy-0.255
Instability index51.93
Isoelectric point5.86
Molecular weight218533.76
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. 


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

>MDP08414
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     931.37|     284|     417|    1274|    1567|       1
---------------------------------------------------------------------------
  529-  634 (30.30/ 6.99)	.....................................................................................................GRSISKR.RKRLKLLSGVsgSQHLL..HNATNVGFPFAPSPkFTAKDEPLDSPTPISGQSTTAMN........VndavkgecdnggfGGFPSSgaasLPDHITTGSGSD...N...............DDETIDA......................................................................................................................................................
  898-  986 (43.82/14.89)	.........................................................................................................................CRMLQAHSSCTGIGIGFDSPV.RNNLSAPGSVRSINEQSPGSALN........P.............PSVSSP....HLTKTPKTPGMTDL.................ASPLSNASSAyarnlSSIEPSSMP.....................................................................................................................................
 1274- 1567 (471.98/302.90)	RE..WINVSpfslRLWD.....................RLSLEPY.GHPKDVAYIAVVPDSRFVLLKASaFFQELSKMYQGMRLGRHCPITRVLKDGIMRVGNAFAKQlRSRLKLYAQV..CRHYLAPQLCSPLGSAFDPSV.FRDLSKESQSCSGNSGSGDSAMP........P.............PPAPGS....LPTQASTTSGMENMFN...............DSNLADASDT.....ASGEDSTFPHVVVIYLVNPFNFGPNEQEDGLAQLVTTGLF..........RCYLEILRDVPehLRGSMQLHIIPLQTVLDVSLPDEWERI.SIGKAKVQQPSLSqTDHLRTLaLNVFTQIRSVGF........SCLQ.NLQA
 1673- 1999 (385.26/222.70)	REiiWNALS....RLWDfivgilassckpwrlvigrlgRLGHEELkGWAHLLSKNHLKTTSKFLREKCS.VCQPMPSVFETPAILSACLVSTELEVNLRVFPHSFVHD..DRFGQGAKQ..C.............SLSSPD....DV.....SCTHIMVFPTSALIqmnqncviS.............GGLPGS....DENDGDFDSLMEELMNgeeggylndifssmgDSNLMN..EN.....PVTFDSAMHQNKVLSLPDTSDESIQLQPLALGFLVSTAPSgplpdwfwtaRPSAQYLLPVP..LRSALHINTSGVQQSDDQLLPGGASRYnSGGCAHPLDSNLT.TDVLRYV.LETYNALSWLSLdmrtgdrlSCFPlHMQA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     335.66|      78|     170|     635|     717|       2
---------------------------------------------------------------------------
  370-  416 (31.26/ 9.76)	..........................................ASTASF.GLAGHSVFAS.LPVAaqgN........GGALE.GNGALGMVASaptAMEHF.
  635-  717 (127.51/79.02)	FLSPPPSYSreeemLAFCQ.KQTCPS.DVTAKLGIKREPTILATSASC.RLSALSASTQ.MPPQ...N........GTTQSFSNGQQSYVAA...SVDHLG
  721-  779 (70.89/34.00)	.....................PTPPSqESVQQFSPELSTHIMAVSNHH.KDTDVKSLCD.MPPS...D........RTAASGDTGGGSKRAA...S.....
  808-  893 (106.00/56.70)	YLSAPAFVS.....LPLSQlKHLSPS...VAKVPMVYKPRKTHSTTSFgGPGAVPAMSHvLPFS...NviyggvgaGAASLSSSGGTTGI.G...SMAHFG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     329.43|     109|     127|     118|     244|       3
---------------------------------------------------------------------------
  118-  244 (155.30/138.11)	ATENMG...YIDPVEKEQqdkqkamSLPKMVDVLIG......GVKMKYPS...IFIAVAdDETNLEDDQGRMRSESGVsNRglAADEF.RRLLSE...HVIEDLSLEHHGDVVVAGPPcGTacdMQTAVASnpvATSTSNMVP
  245-  369 (174.12/104.33)	ADENIGawnFIDLCEKES.......CLCKKMGGSLGsgnsavGLSFPIPNkaqLKFGIA.SCTNGNDGKSSSEDKNGM.NK..AGGFFhRRFLNQgtsMTKTENSHECFTDCVTCGAP.GV...VQANISD...STSGAKDVP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.56|      22|     580|    1042|    1069|       6
---------------------------------------------------------------------------
 1042- 1069 (33.92/36.26)	KQDKGS.......LSTASHWTnkctcgFSAVRNRY
 1623- 1651 (34.64/20.19)	RDDHGQvlflsycLSSQQHWL......LATVTDQY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     102.91|      33|      42|    1089|    1123|       7
---------------------------------------------------------------------------
 1089- 1123 (52.93/41.88)	WNNATASAVA.PAKTDFtkDIVELVRYQSL...ASDLTC
 1132- 1168 (49.98/32.86)	WQALDAKAANrPPKYDV..NAVELQDFSHLcqmALEQAC
---------------------------------------------------------------------------




































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 MDP08414 with Med13 domain of Kingdom Metazoa
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