<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 MDP01558

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMAASSTAEKEKERLGSNSASVGSNSTRERLLSALEDLEVLSRELIEMLAISRNQKLSQTGEENQVLELLIHRDGEFQELMKLALNQGKIHHEMQVLEKEVEKRDSDIQQLQKQLKEAEQILATAVYQAKEKLKSIEKARKGAISSEEIIKYAHRISASNAVCAPLTWVPGDPRRPYPTDLEMRSGLLGQMNNPSTNGVNGHLPGDALAAGRLPDVLAPQYPWQSNDMSVNMLPPNHSNDFLLEPPGHNKENEDDVEVMSTDSSSSSSDSD
Length270
PositionMiddle
OrganismFukomys damarensis (Damaraland mole rat) (Cryptomys damarensis)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Glires> Rodentia> Hystricomorpha> Bathyergidae> Fukomys.
Aromaticity0.03
Grand average of hydropathy-0.674
Instability index45.72
Isoelectric point5.02
Molecular weight29865.05
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:Ensembl
nucleoplasm	GO:0005654	IEA:Ensembl

GO - Biological Function
thyroid hormone receptor binding	GO:0046966	IEA:Ensembl
transcription coactivator activity	GO:0003713	IEA:Ensembl

GO - Biological Process
positive regulation of transcription initiation from RNA polymerase II promoter	GO:0060261	IEA:Ensembl
transcription by RNA polymerase II	GO:0006366	IEA:Ensembl









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP01558
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      88.57|      27|      28|      62|      88|       1
---------------------------------------------------------------------------
   37-   58 (20.11/10.33)	....LEVL..SR..ELIEMLAISRNQklSQ
   62-   88 (46.86/32.61)	ENQVLELLI.HRDGEFQELMKLALNQ..GK
   92-  112 (21.61/11.58)	EMQVLEKEVeKRDSDIQQLQK.........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.70|      19|      23|     214|     235|       2
---------------------------------------------------------------------------
  214-  232 (35.51/28.87)	D.VLAPQYPWQSNDMSVNML
  239-  258 (29.20/13.23)	DfLLEPPGHNKENEDDVEVM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.46|      14|      15|       3|      16|       3
---------------------------------------------------------------------------
    3-   16 (22.60/15.25)	ASSTAEKEKERLGS
   19-   32 (22.86/15.51)	ASVGSNSTRERLLS
---------------------------------------------------------------------------




































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 MDP01558 with Med4 domain of Kingdom Metazoa
Unable to open file!