<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 MDP25998

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMYGPATKHGNGYTYESSFVQAGGPSHPNPAKSALFTLTTNGVLRMIWSQNNNRIEETTIELESVSSSDDAITHAAFASEKKHLLLALATSSKQLRLVRIEIHWGQTPQPDKSAGRPAGNLNPSLVEKHLATTNWLQGGSGDSNNDASMAELSHLEVLPSLMDSTGMNTTPPMVVVVRSRTSNEGPYQMAQSFIDRWEAIESRQHLHQAFEQLGGRRNSLSSELPNITQLHKVAPVIINKVVIAFHTLHFGKVLVLAFADGTVEFRDRLTFEELYANQDTTKVINLRQLGWTFADEGPCQQVAFSPTYCSMIQMADDGKIRWNKLHFPLGDIGNGMQDPHYSGSIAALTVTAAPSMFYQNNYDDMLAIVRPYTTKKRFVQDWVTELIRILKIQVDYSEDTHHDALVRNGSLQYCFSIMNALGYRGEFNSRSFQGRISMLALNVRNAVVLVTIASNTPLTVREKLSPLDEPEVVETLAGCGKWALDLVAWLIDCLFELMNDNKFLELLTQERFNEIAPYLHEKGNISLHFLLSSSSRGFLSAVCRRLGHLEALSTRAIDFYRRQSAVADGSSTGRTAPQLQQAYQKMQQMTSSGLVKVAEFEALLTELSKEIRQAYQVFLPNLVKAQRNAPQGKQIDVAVKTARIQFELSMLLAASPPPAFLQIMKKFFTTDLPAFRGSTDPSRLFFANYDLLEVQDDEHSLAEKKARGMFYVDVFKRMEIKPSPNRQWRRCTRCAAVMEDVFGSRPGFTFVLGQQRKCSCSGHWTLLPKGKPV
Length772
PositionTail
OrganismNectria haematococca (strain 77-13-4 / ATCC MYA-4622 / FGSC 9596 / MPVI) (Fusarium solani subsp. pisi)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Hypocreales> Nectriaceae> Fusarium> Fusarium solani species complex> Fusarium vanettenii.
Aromaticity0.09
Grand average of hydropathy-0.257
Instability index45.40
Isoelectric point8.20
Molecular weight86458.65
Publications
PubMed=19714214

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
GO - Biological Process








Interaction





Binary Interactions











Repeat regions





Repeats

>MDP25998
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     155.68|      46|     352|     317|     370|       1
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  317-  370 (75.09/76.46)	GKIRWNKLHFPLGDIGNGMQDPHysgsiaALTVTAAPSMFYQNNYDDMLaiVRP
  676-  721 (80.58/59.65)	GSTDPSRLFFANYDLLEVQDDEH......SLAEKKARGMFYVDVFKRME..IKP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     133.57|      39|     352|      37|     160|       2
---------------------------------------------------------------------------
  119-  157 (66.95/158.15)	NLNPSLVEKHLATTNWLQGGSGDSNNDASMAELSHLEVL
  513-  551 (66.62/10.52)	EIAPYLHEKGNISLHFLLSSSSRGFLSAVCRRLGHLEAL
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     227.21|      76|     393|     178|     256|       3
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  178-  256 (116.76/80.58)	SRTSNEGPyQMAQSFiDRWEAIESRQHLHQA.FEQLGGR.....RNSLSSELPNITQLHKVAPViINKVVIAFHT..LHFGKVLVLA
  569-  652 (110.45/64.28)	SSTGRTAP.QLQQAY.QKMQQMTSSGLVKVAeFEALLTElskeiRQAYQVFLPNLVKAQRNAPQ.GKQIDVAVKTarIQFELSMLLA
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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 MDP25998 with Med16 domain of Kingdom Fungi
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