<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 MDP10179

Description Mediator of RNA polymerase II transcription subunit 11
SequenceMALESTSFTQQRLDSLSNLDTKIVSLLSTLSDILLTVHQGKQIDTRQGVTSDALVTTRKEFTTQIQHFYATLSDTTIGLNKEIKLFNENIGSCKNGDNMMLLPVNIEIKNTKLGKVKMREEVSRLDSVLGKTYDEVTEEPAPIDVKVEGLDSVKEEVSVLSQNGVAPEVSPGAVTDVKPEPLEAKIKSEIETPGFERAEEQIDSEADLFGDDDSVETPKGVDQVDEPANLGTVNQESVNHESVDQESVNQESVNQESVIQEPVTIDSVIFDGALTLDDGLTLDDALTLGSAATLEELTDPLKTEESILPVQASELPSDPQVEELTAELALGDFPTPQLDFNDGIMSIDIDEFGGASDEDVSMVDVV
Length366
PositionHead
OrganismBabjeviella inositovora NRRL Y-12698
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Debaryomycetaceae> Babjeviella.
Aromaticity0.03
Grand average of hydropathy-0.321
Instability index45.09
Isoelectric point4.05
Molecular weight39668.38
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. 


ECO:0000256	RuleBase:RU364147

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

>MDP10179
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      81.46|      18|      19|     221|     238|       1
---------------------------------------------------------------------------
  200-  215 (21.16/11.83)	.EQIDSEADLFG.DDDSV
  221-  238 (32.99/22.92)	VDQVDEPANLGTVNQESV
  243-  258 (27.31/17.60)	VDQ..ESVNQESVNQESV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.44|      14|      15|     113|     126|       2
---------------------------------------------------------------------------
  113-  126 (23.63/14.09)	LGKV..KMREEVSRLD
  129-  144 (19.81/10.79)	LGKTydEVTEEPAPID
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.19|      14|      15|     264|     277|       3
---------------------------------------------------------------------------
  264-  277 (23.85/14.83)	TIDSVIFDG.ALTLD
  281-  295 (18.34/ 9.93)	TLDDALTLGsAATLE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.46|      16|      17|     304|     320|       4
---------------------------------------------------------------------------
  304-  320 (23.18/17.07)	EESILPVQASELPSdPQ
  322-  337 (27.28/15.03)	EELTAELALGDFPT.PQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.30|      17|      21|     153|     172|       6
---------------------------------------------------------------------------
  153-  172 (19.90/22.24)	VKEEvsVLSQNgVAPEV.SPG
  177-  194 (25.40/14.62)	VKPE..PLEAK.IKSEIeTPG
---------------------------------------------------------------------------




































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 MDP10179 with Med11 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AATLEELTDPLKTEESILPVQASELPSDPQVEELTAELA
2) VSVLSQNGVAPEVSPGAVTDVKPEPLEAKIKSEIETPGFERAEEQIDSEADLFGDDDSVETPKGVDQVDEPANLGTVNQESVNHESVDQESVNQESVNQESV
291
157
329
258










Molecular Recognition Features






MoRF SequenceStartStop




1) PQLDFNDGIMSIDIDEFG
336
353