<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 MDP27603

Description Mediator of RNA polymerase II transcription subunit 17
SequenceMSSADGPPPLSLRPFPVADQKPKNLAEFIARVNAQPGGFRAVTEAKLREELKNSESSDGAADEDEDMSDAGPENEVAEKDPNVARMEVLKNIDIAGNTALLTLDSMSLLLSKQNPTQAGLTLSQQLRDMVGIGTLGADRLHDSNVTPAKTKDQEAVAMGWTIMEINKTRDSAEDAAAFLEKEIAAESKYWEDIVSVKKAGWSVCKVPQERHTLGVRFGFSEAAPEFKNSGLAPMRRGDDGSTDLDFGRLGGVSEALVVTYERDGKVIGRSTTRSASEDGSLESRILEARNTIFSQELWHELTKESRSLAAYDVKPEGKKLTCQADEKTKITLELLPLESCPSHDQDLPENGLAEKTSMVLHILLSYAHRYNELMRIRPVPPHISRTARQQSYALLRPVLARTMYLKNIEDSTQYVGQLVKTLQKAGLPSSVVLRTAQATASDPGPRGPNQLSASQTLVRNLLQTQDFTLDVTIVPGVSFIIRARAFSFPVTATYYYILLPPSSPLPALCPPWAEGYPSVQALGDYLRTAISRVLTNHFYSTLASSSSSKPSGAAQNNNNNNNGNDNDNNNNNNTNNADSKAIQNDVKFTLSLDHEGDDNDNATTPMGNLSLSLIMTEEQTGNPITWTWSLAAGRQSETRPAADIVQSLPGMQATLN
Length656
PositionHead
OrganismHypocrea jecorina (strain QM6a) (Trichoderma reesei)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Hypocreales> Hypocreaceae> Trichoderma.
Aromaticity0.05
Grand average of hydropathy-0.472
Instability index47.53
Isoelectric point5.14
Molecular weight71472.13
Publications
PubMed=18454138

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

>MDP27603
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.55|      16|      16|     364|     379|       1
---------------------------------------------------------------------------
  364-  379 (28.85/20.68)	LSYAHRYNELMRIRPV
  383-  398 (26.70/18.59)	ISRTARQQSYALLRPV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.45|      16|      16|     150|     165|       2
---------------------------------------------------------------------------
  150-  165 (28.38/20.90)	TKDQEAVAMGWTIMEI
  168-  183 (25.07/17.62)	TRDSAEDAAAFLEKEI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.85|      16|      16|     456|     471|       3
---------------------------------------------------------------------------
  456-  471 (25.79/18.66)	TLVRN...LLQTQDFTLDV
  472-  490 (22.06/14.89)	TIVPGvsfIIRARAFSFPV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.16|      15|      15|      50|      64|       4
---------------------------------------------------------------------------
   50-   64 (22.77/13.52)	ELKNSESSDGAADED
   66-   80 (24.39/15.02)	DMSDAGPENEVAEKD
---------------------------------------------------------------------------




































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 MDP27603 with Med17 domain of Kingdom Fungi
Unable to open file!