<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 MDP32296

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMTNLNVRLNEITSRLHSTKSSVVIHRNLETAHARLSQAARKSSHGVRLRELTEESLRKLATSLGLDSWADEPSNGIRTLSITGKIIVVDIGIDTATSEVGTCTLVLATDDGLQEEVTADGRDTLQRELQANELDSFARNLAVLAFLDRNSDPASGLNLFYAQDLLRDALNRKLANRLGLGERPIASASYLNFAIPYYRAAPRGKAQSESKVAFREKQGHVYHARIEIETQPMSAAQTNTDGTKPDESTDDPILYYPKCWVDSSNAWLPTKQFHSSRHRSDLRYVVVFEPAICMPSRLALKLVGDSSSRFDAEPVHLHPSVRKRQVHTPVGPQMINTTVTCSEELLLIRRMAFSHPKELEVILADARQYAICQHVLSTLGDNLVTGTNDDGTQDASTSVIRWRLEMTYTADTVSEIDDRRSIMLAISTEATPEAVVATVLIQPDFNFKCWHAVDEKYFGSALELIEDLPIAMMATASRIPHDAAEKQSEANLAEDSDVKPRMDYRRDPNDAATRNLTGLEAKLGFAYSVPVESTTELATNVVIDPQSPGFLAHLGQALRSAKFNA
Length564
PositionMiddle
OrganismTaphrina deformans (strain PYCC 5710 / ATCC 11124 / CBS 356.35 / IMI 108563 / JCM 9778 / NBRC 8474) (Peach leaf curl fungus) (Lalaria deformans)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Taphrinomycotina> Taphrinomycetes> Taphrinales> Taphrinaceae> Taphrina.
Aromaticity0.06
Grand average of hydropathy-0.327
Instability index45.28
Isoelectric point5.65
Molecular weight62379.52
Publications
PubMed=23631913

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

>MDP32296
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     103.36|      37|     111|      26|      65|       1
---------------------------------------------------------------------------
   26-   64 (51.62/33.79)	RNLeTAHARLSQAARKSShGVRL...RELTEESL.RKLATSLG
  138-  178 (51.74/26.07)	RNL.AVLAFLDRNSDPAS.GLNLfyaQDLLRDALnRKLANRLG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     149.16|      49|     187|     206|     261|       2
---------------------------------------------------------------------------
  209-  261 (79.39/68.67)	SKVAFREKQGhvYHARI..EIETQPMSAAQTNTDGTkPdESTDDPILYYP....KCW..VD
  397-  453 (69.78/39.34)	SVIRWRLEMT..YTADTvsEIDDRRSIMLAISTEAT.P.EAVVATVLIQPdfnfKCWhaVD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.56|      14|      26|      91|     104|       3
---------------------------------------------------------------------------
   91-  104 (23.72/14.20)	GIDTATSEVGTCTL
  111-  124 (22.83/13.41)	GLQEEVTADGRDTL
---------------------------------------------------------------------------




































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 MDP32296 with Med1 domain of Kingdom Fungi
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