<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 MDP20121

Description Mediator of RNA polymerase II transcription subunit 17
SequenceMSSGDGPPPLSLRPFPVADQKPKNLAEFIARVNAQPGGFRSVTEDKLREDLKSSENSDGAADHDEEMSEAGAENDVAEKDPNVARMEVLKNIDIASNIALLTLDSMSLLLSKQNPTQAGLTLSQQLRDMVGIGTLGADRLNDSNSTPAKTKDQEAVAMGWTIMEINKTRDSAEEAAAFLEKEISAESKYWEDIISVRKAGWSVCKVPQERHTLGVRFGFSEAAPEFKNNGLAPMRRGDNGSTDLDFGRLGGVSEALVVTYERDGKVLGRSTTRSASEDGSLESRVLEARNTIFSQELWHELTKESRSLAAYDVRPEGKKLVCQADDTTKITFELLPLESCPSHDENLPENGLAEKTSMALHILLSYAHRYNELMRIRPVPPHISRTSRQQSYALLRPVLARTMYLKNIEESTQYVGSLVKTLQKAGLPSSVILRTTQASASDPNSRGPNQLSASQTLVRNLLQTQDFTLELTILPEISFIIRARAFSFPVTATYYYILLPPSSPLPTMCPPWAEGYPSVRTLGDYLRTVVVRVLTNHFVTLIASGAILHDETTAAAAENASSEAAADKNNVDIHFSMEHEDNDELALSFSSTSPNGTSNTWKWSVSGPSETRSAKDVVKTLAKEQELA
Length628
PositionHead
OrganismTrichoderma harzianum CBS 226.95
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Hypocreales> Hypocreaceae> Trichoderma.
Aromaticity0.06
Grand average of hydropathy-0.408
Instability index51.18
Isoelectric point5.21
Molecular weight68872.50
Publications









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

>MDP20121
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.73|      11|      38|     159|     169|       1
---------------------------------------------------------------------------
  159-  169 (20.77/15.44)	GWTIMEINKTR
  200-  210 (21.96/16.73)	GWSVCKVPQER
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     194.69|      60|     278|     258|     317|       2
---------------------------------------------------------------------------
  258-  288 (34.50/16.62)	.....................................................................................V.......................................................................................................TYERDG...KVLGRSTTRSASEDGSLESRVLEA
  289-  317 (33.73/16.08)	RNTI...FSQELWHELTKESRSLAAYDVRPEG..............................................................................................................................................................................................
  421-  453 (26.09/10.83)	......................................................................................kklvcqaddttkitfellplescpshdenlpenglaektsmalhillsyahrynelmrirpvpphisrtsrqqsyallrpvlartmylknieestqyvgslvkTLQKAGlpsSVILRTTQASASDPNSRGPNQLSA
  459-  485 (22.16/ 8.12)	RNLL...QTQDFTLELTILPE..ISFIIRARA..............................................................................................................................................................................................
  539-  567 (24.83/ 9.96)	................................fsfpvtatyyyillppssplptmcppwaegypsvrtlgdylrtvvvrvltnhfV.......................................................................................................TLIASG...AILHDETTAAAAENAS..SEAAAD
  568-  616 (53.38/29.61)	KNNVdihFSME..HEDNDE.LALSFSSTSPNG..........................................................................................................................................................tsnTWK..W...SVSGPSETRSAKD...........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.71|      13|     277|      63|      79|       3
---------------------------------------------------------------------------
   63-   79 (18.64/19.52)	HDEEMSEAGaendVAEK
  343-  355 (25.07/14.25)	HDENLPENG....LAEK
---------------------------------------------------------------------------




































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 MDP20121 with Med17 domain of Kingdom Fungi
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