<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 MDP30043

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMTSSCNVWQRFLDRCIETRLDPETFKTYVELLHNQSPLQPARILDIFLAPREDINSALDPRVVRYLQVLLSLDLVNVPTLLRALWKVSSFREDELEQDGGENKKPPRRWTNSYAAEETLFYRITKHISSGAAPRDLQEIVELINACVRWMGTMVTAAHPVRQMMGLAPTSPAEMAAVHMALGTLVVSVVESDRVLHFLRRRAVPKSTRLELGKALAGFVPLLIESSPQSAGRLEIFRTETLISFEPPEPKEPKTGADKEIEDMLQAGLEPGVDSMVVEELPVVNTRAGLYIYLNSLDDIRSTMVDLILAAFDVLANATFRNERAQTTNILRSFLINKIPLLLSALSSSLFPPLTSEFCITEALRHVDTTVFPTLSNMFDETSNNNMFSDSVRQDFCFACCLHGLLEESSIEELLGDIPMQSLPAGGRYMKEDLVQQCLSDPERTEGLVDELEHMDGNVGAVSHAITEASIEYPINKETMSLKSLCNQLVRRPYSLDVMLLFDKPSTFLQPICDLLDNWRYDEDQGEYQPVYEEFGAILLLVLSFTYRYNLSTVDLGIRNPNSFVAKLLNRGHLSRKMEDMTEAESQHLKGWIQGLFDNESGGLGDELMSSCPPQDFYLLVPTLFHETALACSTKVLSDETLKGGLEYLVDTFLLPSLVSGINWLACQLWESRGDANAVLQILSVLITNPASISNNTEASQMLNSILNIVAKNLEQSLRWLQRAEPSRQDIEPLLKALRGNLGWERRGASDHTELESWTGSPSGGLIVAINSTLGNMVQWALNPRLSSHPANYTHRLILVAVKMLGAKRVLAALIDELKTHIENGSGSAALDAACAIVCAPEPASWDTGSQIDVIPPQQRRMNLREALKSEAEDAPQLHKTEPCRAETIVRLYRKVEAQLSMPQQAMDALGDLNNAIDAAGMDALASVVDTGRGNLLIGSLGGEHGDLMSGLMGGGEDLLGFGSGGDLGGGMGDGMGDVMGGGMGGGMGF
Length989
PositionTail
OrganismMarssonina brunnea f. sp. multigermtubi (strain MB_m1) (Marssonina leaf spot fungus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Leotiomycetes> Helotiales> Dermateaceae> Marssonina.
Aromaticity0.06
Grand average of hydropathy-0.095
Instability index55.70
Isoelectric point4.82
Molecular weight108779.01
Publications
PubMed=22876864

Function

Annotated function Component of the Mediator complex, a coactivator involved in the 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

>MDP30043
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      99.16|      26|      30|     933|     961|       1
---------------------------------------------------------------------------
  933-  961 (45.42/29.07)	GNLLIGSLGGEHGDLMSGLMGGGedlLGF
  964-  989 (53.74/28.00)	GGDLGGGMGDGMGDVMGGGMGGG...MGF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     118.22|      34|      34|     733|     766|       2
---------------------------------------------------------------------------
  733-  766 (56.61/31.33)	LLKALRGNLGW..ERRGASDHTELESWTGSPSGGLI
  769-  797 (40.57/20.43)	INSTLGNMVQWalNPR.......LSSHPANYTHRLI
  809-  831 (21.04/ 7.15)	VLAALIDELKT..HIENGSGSAALD...........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.83|      16|      25|     374|     395|       3
---------------------------------------------------------------------------
  374-  389 (28.37/26.95)	LSNMFDETSNNNMFSD
  401-  416 (25.46/ 9.13)	LHGLLEESSIEELLGD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     114.07|      29|      32|     603|     631|       4
---------------------------------------------------------------------------
  578-  600 (25.79/12.41)	...EDMTEAESQ..HLKGWIQGLFDNES....
  603-  631 (52.78/33.19)	LGDELMSSCPPQ..DFYLLVPTLFHETA.LAC
  636-  666 (35.49/19.87)	LSDETLKGGLEYlvDTFLL.PSLVSGINwLAC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     208.56|      51|     188|      10|      60|       5
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   10-   60 (87.36/56.77)	RFLDR...CIETRLD.PETFKTYVELLHNQSPLQPARI.LDIFLAPREDINSALDP
  196-  246 (65.70/40.76)	HFLRRravPKSTRLElGKALAGFVPLLIESSPQSAGR..LEIF...RTETLISFEP
  257-  303 (55.50/33.23)	...DK...EIEDMLQ.AGLEPGVDSMVVEELPVVNTRAgLYIYLNSLDDIRSTM..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.71|      22|      25|     475|     496|       6
---------------------------------------------------------------------------
  475-  496 (38.03/22.69)	NKETMSLKSLCNQLVRRPYSLD
  502-  523 (41.68/25.52)	DKPSTFLQPICDLLDNWRYDED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      97.25|      30|      37|     839|     874|       7
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  839-  874 (46.07/52.47)	APEPASWDTgsqidvIPPQQRRMNLREALKSEAEDA
  879-  908 (51.18/40.70)	KTEPCRAET......IVRLYRKVEAQLSMPQQAMDA
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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 MDP30043 with Med5 domain of Kingdom Fungi
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