<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 MDP31468

Description Mediator of RNA polymerase II transcription subunit 17
SequenceMFSNGHFHIDLDPDAYGDANKDPFIQDEDKLTIAELIPRILIERNSFLNVTEESLQEEIDNPRAEDEANNEVDVASELDIGDESVENGSILMATLAETSLDPVELFQKQKLDLSKSINSALNETSLSLDFVSLLISSVKPNLAKSTISPHLNKSVPLGSLNSDRLSNENDDDDRNKSVAPKETPKVGHGWKLESLHKVTSLFREASENLNEQVLKERRYWNMINSVLTNDEVLFKTRDPLNNARAIGVKYGYGDSGSNFHDKGLAILRKDTVTGEISFNPINYAHKLTSKVFRYIRIKILSEIDGDFMLTGQSLFENDFSSSKDQIINDIEKARFFLFEEDLFYQLTREAKTLINYNVSIISNKIIIEINNEIIEIESVVYDENNDDELNNYYQNINAYSSINNGKCQLILKFFKIMLCCYYKYNLKLKQKIPTSLTKWKQSNSHPLVLRPLLGNIRHELNLKNMQSIIDRLIAKFKESLECKLQVDKFANLEHRSENPFQKSIERPVSKFNIVLKSKRSAYLKIDLELTTNEIFVNLIINMNVIKFKCEDDFKNNFNGVNVLQINFNDFHEIEECLDWTLLNFVNG
Length587
PositionHead
OrganismScheffersomyces stipitis (strain ATCC 58785 / CBS 6054 / NBRC 10063 / NRRL Y-11545) (Yeast) (Pichia stipitis)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Debaryomycetaceae> Scheffersomyces.
Aromaticity0.09
Grand average of hydropathy-0.420
Instability index36.84
Isoelectric point5.10
Molecular weight67457.52
Publications
PubMed=17334359

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 (By similarity). 
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

>MDP31468
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     106.17|      33|      34|     425|     458|       1
---------------------------------------------------------------------------
  425-  458 (54.36/38.02)	NLKLKQKIPTSL.TKWKQSNSHPLVLRPlLGNIRH
  461-  494 (51.82/31.77)	NLKNMQSIIDRLiAKFKESLECKLQVDK.FANLEH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.43|      12|      25|      95|     106|       2
---------------------------------------------------------------------------
   95-  106 (21.93/12.58)	LAET..SLDPVELF
  121-  134 (16.50/ 7.92)	LNETslSLDFVSLL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.19|      18|      30|     298|     315|       3
---------------------------------------------------------------------------
  298-  315 (30.95/18.31)	KILSEID.GDFMLTGQSLF
  325-  343 (26.24/14.47)	QIINDIEkARFFLFEEDLF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.25|      12|      30|     548|     559|       4
---------------------------------------------------------------------------
  548-  559 (24.66/13.66)	KCEDDFKNNF.NG
  575-  587 (20.59/10.28)	ECLDWTLLNFvNG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.00|      16|      31|     147|     162|       8
---------------------------------------------------------------------------
  147-  162 (27.68/20.58)	ISPHLNKSVPLG.SLNS
  178-  194 (23.33/16.12)	VAPKETPKVGHGwKLES
---------------------------------------------------------------------------




































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 MDP31468 with Med17 domain of Kingdom Fungi
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