<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 MDP05794

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMDTYGVNTDPQVFQQQQYPFCHASHSYCKQDQPYVTKDLDIYTHDALVPESFHHTLGEELYGPSFKPESSLKASCSTRNQIRHMQVSGRNSLSSSGSGHLGPADLAAMYSTPSTFETTLSMGSSASCSQLSPTEFKPLLSFHAETDFSYPEEAHLRQKQSLTNAFVRSILHNTRPLFDQEVMCFHREWQFMCPPSVQIPFSAKFKLTPEELHQYRELDMTLRPTLGFEPSSGSTTGQNDGFFLHLPRRSSHTLPSSHPPHRPNHHPSRSHGQADFTALATEPESSTFDLDELRGSDALKVNIILSDSLLNLFKDHNFDSCNICECATSILGMEIDVYVSGPSPAPTRSCNCGFSALVNRKFALAGNLFWEDEVEVASLSIASVDVAKLRPRKPQPSRTATTAYLPILTQWMRGPLEEFGVRFLVEWLQSVDTATAVSEVRQGTVERDALYDYNGKIHLNFPNPWFLFTCFFTGLFSIHHTTGRVSFTTTINVGLDVCALTASALEQSACDLSSLDEMMMGNSSPRESASFRHLRLDETTRKEGVGFHPAVFRQLPSDLPSNKNDQIRLLGSVRLWLQEAIDQLESTYKVEGPLTWKAFHQLAGRGHSESSKAQPIPQFRVGGALKNGNTHVLISPFSVRDWYDGANYDIVVCYPSVSLLNVMRYENDLSSGFSPVNARQSRRRQQSGGSGTHLTDAILFSLQRYKSGAIHAVRKALSERGVALPDGSCSSLLAPFAGMQDMAPSAPPVILSKISPLNGHGPLTTAFDPNVDCQHDVTLVIYLIDPFTQLFDMGDELRNLTTRCLAETAGRMTAQLPASWHQRVFVQLLPMSHVVSPCCGVVGREDAGEAGFLPHIKSMALAVYTSIDRVISPSLINANRTLTGMGPAADKELISANFQKDHIHRVYAPAYILAQSHDLWGQWDVHPAEPLQPSSVLFVSYCLSEDLQWLLATCTDQYGTLAQQTFINIVAPESMCAPSGQSTAGMGTDGFHVSTRRLALARLWDFIISVIAATSNPWRLVVGRLGRLGHGELKGWCGLLSRKNLQNVNRSLRANCALCNVITLTPAIMNNNGPTYRGKSTATTNLTADSRVPSTCVHETPSLISACLVSTEPQSTFRLFPGSDLNTGDLGGSGSHGGGGHGGSGGGGGGGGGGGGSASASGGGASVAGGPAGQAYAGPFANGVISAVGYAPSTTHILVFPTSTSAQAQSEQDDINFTEIFSEFYEDNDLDDHTAVGMPSLDTLTTPTSAGPGCNLANVVAGVVGSGGSCSGVAQDPNGVATGQLMPMTRSGIPAEPNTHGMPYEVACRERAKYFLLDALLPFGVPDPQVCHLMHRPNIICVRYSMN
Length1346
PositionMiddle
OrganismHydatigena taeniaeformis (Feline tapeworm) (Taenia taeniaeformis)
KingdomMetazoa
LineageEukaryota> Metazoa> Spiralia> Lophotrochozoa> Platyhelminthes> Cestoda> Eucestoda> Cyclophyllidea> Taeniidae> Hydatigera.
Aromaticity0.08
Grand average of hydropathy-0.207
Instability index50.89
Isoelectric point5.97
Molecular weight145770.42
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

>MDP05794
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     250.75|      59|     121|    1119|    1179|       1
---------------------------------------------------------------------------
 1022- 1077 (56.76/22.59)	..............GRLGRLGHGELKGWCGllsrkNLQNVNRSLRANCALCN.VITlTPaimnnNGPTYRG
 1119- 1177 (106.52/57.96)	FPGSDLNTGDLGGSGSHGGGGHGGSGGGGG.....GGGGGGGSASASGGGAS.VAG.GP.....AGQAYAG
 1224- 1280 (87.47/43.20)	YEDNDLDDHTAVGMPSLDTLTTPTSAGPGC.....NLANVVAGVVGSGGSCSgVAQ.DP.....NGVA...
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     160.33|      43|     199|     593|     635|       2
---------------------------------------------------------------------------
   25-   49 (36.01/19.14)	.............HSYCKQDQP....YVTK..DL..DIYTHDALVP
   60-   99 (48.27/28.49)	LYGPSFKPESSLKASCSTRNQ.IRHMQVSGrnSLSsSGSGH.....
  593-  635 (76.06/49.69)	LTWKAFHQLAGRGHSESSKAQPIPQFRVGG..ALK.NGNTHVLISP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     254.65|      78|     536|     389|     466|       3
---------------------------------------------------------------------------
  389-  466 (139.70/100.87)	RPRKP.QPSRTATTAY.LPILTQWMRGP.LEEFGVRFLVEWLQSVDTATAVSEVRQGTVERDA..............LYDYNGKIHLNFPNPWFL
  925- 1019 (114.95/81.42)	HPAEPlQPSSVLFVSYcLSEDLQWLLATcTDQYGTLAQQTFINIVAPESMCAPSGQSTAGMGTdgfhvstrrlalarLWDFIISVIAATSNPWRL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.36|      11|     536|       5|      15|       4
---------------------------------------------------------------------------
    5-   15 (21.90/12.66)	GVNTDPQVFQQ
  543-  553 (22.47/13.19)	GVGFHPAVFRQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     123.07|      38|     124|     713|     761|       5
---------------------------------------------------------------------------
  721-  761 (62.13/51.29)	VALPDGSCSSLLaPFagMQDMAPSAPPVILSKISP........LNGHGP
  841-  886 (60.95/27.58)	VGREDAGEAGFL.PH..IKSMALAVYTSIDRVISPslinanrtLTGMGP
---------------------------------------------------------------------------




































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 MDP05794 with Med13 domain of Kingdom Metazoa
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