<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 MDP28745

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMYGPAVKKGHAYQYESSFVHASGPSHPHSSKSALFCVTVSGMLKMFWSQNNNRMEETTMELESVNSLDELVTHAALASDRRHLLVAVATSSKQLRLLKIEIQWGGPGSQPDKNPLPQNARLSPSLVEKHLAATTWLQTGSRDANNDISMAELSHLHVLPSIMDNTGKSIVPPTIVAIRTRSPTPGSYQVAQTVIDRWEAVSSPQQNLHQAFEQLGSRRNSDATEQTAPTRLRKLEPIILNKMVISFQSTQFGKVLILTMTDGTVEYRDRYTFEEIYTTEDSDKVMNLRQVGWAFSGEGPCQQVAFSPTQCSMIQMSEDGKIKWCKLQYPLGDIGNSHQDAHYASSVAGLAVATSSAIWYQANYDDMLAIVAPYTSKRRFIQDWINEMIKVLKIQVDYSEEMHHDSLMRNLPLQGVLSIMNSLGFKGEMHARSFQGKFAMVYLNARNVVVLITLASNTPATARERISPLDEPEVVEALAGCAKWSLDLLSWLVDCLFALMNDSEFMARLEPKRIAELTPYLYKRNDISLHLLLSSSSRSFLLAICRRIAHLETLSTKANEFYRRQPQMGVDQTGAPKPLNPQLQQAYQRMQQITSTCLIKASEFEKLLNILGADIRQAYQTFLPTLVKNQAGMGQGKQIDMAVKAAQIQLELGMLLAVSPPAAPFIPVIKKLFTKDLPAFKALTDPAKLFFANYDLLGVQDDKSQLPKDVYVDLFRKAEIKLGAQQWRRCTRCASVMEDVFVSRPGYTFVLGQQRRCACGGIWALLPKGKLFL
Length772
PositionTail
OrganismHypocrea atroviridis (strain ATCC 20476 / IMI 206040) (Trichoderma atroviride)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Hypocreales> Hypocreaceae> Trichoderma.
Aromaticity0.08
Grand average of hydropathy-0.199
Instability index47.49
Isoelectric point8.77
Molecular weight86408.55
Publications
PubMed=21501500

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

>MDP28745
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      34.29|      10|      26|     724|     735|       2
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  724-  735 (12.30/16.73)	QQwRRCTrCASV
  752-  761 (21.98/12.57)	QQ.RRCA.CGGI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.60|      10|      26|     397|     406|       4
---------------------------------------------------------------------------
  397-  406 (19.42/12.68)	YSEEMHHDSL
  424-  433 (19.18/12.44)	FKGEMHARSF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.83|      22|      27|     651|     677|       5
---------------------------------------------------------------------------
  656-  677 (39.56/31.68)	AVSPPAAPFIPVIKKLFTKD....LP
  681-  706 (33.27/14.65)	ALTDPAKLFFANYDLLGVQDdksqLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      33.28|      10|      29|     578|     587|       7
---------------------------------------------------------------------------
  578-  587 (19.74/12.79)	LN...PQLQQAYQ
  607-  619 (13.54/ 6.48)	LNilgADIRQAYQ
---------------------------------------------------------------------------




































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 MDP28745 with Med16 domain of Kingdom Fungi
Unable to open file!