<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 MDP24679

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMDATTIYDLYDLAELGLGGAAPTIKGLPQRIDELRLSGCSQKVAWSKLGAIAYVSPDGQKVLLRYLHCSPIDGKWTLSEESPINQIADIHGGHAMVHLLWNESGSELAIVDSCGRISVVTIMMALNTVNPTRQASMDADDDWSQPVGLMWLNLNRPLFGFHKATRANDRWNYPAYRRRPLGPLHPANKPGLVVVTKSGHIKLIYQNPDSRWAEISTELKAVGYLDGLLTHAALAPAEGNGISIAAYSTYGKLYFYRIQVKWDPPEWDLTMKPGGGPVAFPTPAFQILHTKTEILSAIFHPQAHDVDYITGFPSPNGSIYNLTHLEIITAPQAVPGTQAATGPCIIAVASIPAQSQLGQPPPSGPSSILVRWQLDTMAQSLHPNFDNVVSKNTASSPKPKIIFRKLDDIYFDRYVVSIDYMEAGSVLAITQDDSSISFFEARSMRPITENEDDNIVTSMPNAGFTFPIDASAALALGYVRACGSDASADDILTVIVRQLNPGAETFVTEVYSILFMSVDFTEHDKLVNHQSIQKGLTMQAMLGFRSRFQPRTSSSAVSWIILNIRQIMVLLLTFSHYLKSGRDFTPSEPEALHMILGNIKWILDLAKYLVNDLFEIEDTIPPDRNLFSLPSKTYESPSLILVLSSVPRSFLRHIFRYLSRFPLAFKAASNLSGESYQLFASINNTIEQSSLKPDVCEKMLTHIDSLVTRSYEAAGFGNAERNAPEREMLITCSIPPVLQPAVMSILTETMPLIVRSEVDRMALALYDYSWLGIGDDKRTELFKRTHDVDILKKNVNKLPDPTVAKRRCVRCCEVSEDTWLPRSASMYRLIGKIGVLRTCVCGGTFAMENVEALDRLPLPVYR
Length861
PositionTail
OrganismAjellomyces capsulatus (strain NAm1 / WU24) (Darling's disease fungus) (Histoplasma capsulatum)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Eurotiomycetes> Eurotiomycetidae> Onygenales> Ajellomycetaceae> Histoplasma.
Aromaticity0.09
Grand average of hydropathy-0.062
Instability index50.12
Isoelectric point6.08
Molecular weight95486.52
Publications
PubMed=19717792

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

>MDP24679
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     444.33|     147|     163|     392|     550|       1
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  383-  541 (227.46/190.13)	NFDNVVSKNTASSPKPKIIF..RKLDDIY..FDRYVVSI.DYM..EAGSVLAITQDDSSISFFEARSMRPITENED....DNIVTSMPNAGFTFPidaSAALALGYVracgSDAsaddILTVIVRQLN..P....GAETFVTEVYSiLFMSVDFTEHDKLVNHQSIQKGLTMQAML
  542-  705 (216.87/150.54)	GFRSRFQPRTSSSAVSWIILniRQIMVLLltFSHYLKSGrDFTpsEPEALHMILGNIKWILDLAKYLVNDLFEIEDtippDRNLFSLPSKTYESP...SLILVLSSV....PRS....FLRHIFRYLSrfPlafkAASNLSGESYQ.LFASINNTIEQSSLKPDVCEKMLTHIDSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.23|      29|      48|     183|     211|       2
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  167-  207 (44.45/28.49)	NDRW.........nypayrrrplgpLHPANKPGLVVVTKSGHIKLIYQNP
  208-  257 (39.78/24.72)	DSRWaeistelkavgyldgllthaaLAPAEGNGISIAAYSTYGKLYFYRI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.93|      25|      48|     310|     334|       4
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  310-  334 (45.80/25.72)	GFPSPNGSIYNLTHLEIITAPQAV.P
  357-  382 (43.12/23.81)	GQPPPSGPSSILVRWQLDTMAQSLhP
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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 MDP24679 with Med16 domain of Kingdom Fungi
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