<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 MDP26162

Description Mediator of RNA polymerase II transcription subunit 17
SequenceMSSNQLLLSLKSWPEDDPELKSVSSLITRIQAQRGHFRDVDESILENEIREGKDTDPLFDDSPVEESGGGASNSALAAGEEPDRATQLKNAKAEIVALVGHALNEALFGLDYVSLLVSLQNPEAGSSSMSPELKKSVPVGSLGFDKVQRRADPGSVKEDLAISHAWKVEGLNSAADTLMGASKKLGDDVRKEARYWEQILAIREDGWVVTRMPNERRTLGVRFGFAESAAEYKNKGVGALRRGEDGDVVMDDVATTGSHGKAMLRVRVLENGEVKGSSVQSGNKCSGSVKDMIQRARNFIYEDELFFEITREARLMANYGVRTSEDAVTIDLGGGRSIVIDMAPLDDGDIVLDIHNPDSNLAQGVVTAFRILLSYNHRMSLRKRSKPPPPLTQRKIVPPALRMVAPITTHLLHHQHQLNLQNLLRHLIKVVKSAGMSTAFVTKPRHNCLKPVIKNVETAVEAFLERIESEATVKLPGGWKVEINMKTALGPPLYGTAYIIGTSHDGVSARLMGENRFTSSKEMEMYLFWCLERSIVNEVRYTNDKWEQIAQSNEMWSIDKSTRRIRISVDRTGLSIVTGTTGGKDDRVVWDGSDTGRTLQDLLNHPVG
Length608
PositionHead
OrganismTuber melanosporum (strain Mel28) (Perigord black truffle)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Pezizomycetes> Pezizales> Tuberaceae> Tuber.
Aromaticity0.05
Grand average of hydropathy-0.380
Instability index36.49
Isoelectric point6.21
Molecular weight67074.32
Publications
PubMed=20348908

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

>MDP26162
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     106.04|      34|     347|     187|     225|       1
---------------------------------------------------------------------------
  145-  178 (40.33/21.52)	.......DKV......QRRADpgSVKE.DLAIS..H.AWKVEGLNSAADTL
  180-  219 (55.78/34.50)	GaskklgDDV......RKEAR..YWEQ.ILAIR..EDGWVVTRMPNERRTL
  220-  249 ( 9.93/ 9.56)	G.........vrfgfaESAAE..YKNKgVGALRrgEDGDVV..........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     120.58|      39|     237|     301|     353|       2
---------------------------------------------------------------------------
  310-  353 (56.25/58.67)	TREARLMANygvRTSEDAVTIDLGG.GRSIVIDMAplDDGDIVLD
  562-  601 (64.33/32.61)	TRRIRISVD...RTGLSIVTGTTGGkDDRVVWDGS..DTGRTLQD
---------------------------------------------------------------------------




































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 MDP26162 with Med17 domain of Kingdom Fungi
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