<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 MDP31725

Description Mediator of RNA polymerase II transcription subunit 4
SequenceMAASSSGEKEKERMGGVSGMTGLGSTRERLLSALEDLEVLSRELIEMLAISRNQKLLQLEEENQVLELLIHRDGDFQELMKLALNQGKVHHEMQALEKEVEKRDSDIQQLQKQLKEAEQILATAVYQAKEKLKSIEKARKGAISSEEIIKYAHRISASNAVCAPLTWVPGDPRRPYPTDLEMRSGLLGQMNNPSTSGVNGHLPGDALAAGRLPDVLAPQYPWQSNDMSVNMLPPNHSTDFLLEPPGHNKENEDDVEVMSTDSSSSSSDSD
Length270
PositionMiddle
OrganismRattus norvegicus (Rat)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Glires> Rodentia> Myomorpha> Muroidea> Muridae> Murinae> Rattus.
Aromaticity0.03
Grand average of hydropathy-0.615
Instability index49.73
Isoelectric point4.96
Molecular weight29825.20
Publications
PubMed=15489334

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
core mediator complex	GO:0070847	IBA:GO_Central
mediator complex	GO:0016592	ISO:RGD
nucleoplasm	GO:0005654	IEA:Ensembl
nucleus	GO:0005634	ISO:RGD

GO - Biological Function
thyroid hormone receptor binding	GO:0046966	ISO:RGD
transcription coactivator activity	GO:0003713	ISO:RGD
transcription coregulator activity	GO:0003712	ISO:RGD

GO - Biological Process
positive regulation of transcription initiation from RNA polymerase II promoter	GO:0060261	ISO:RGD
positive regulation of transcription, DNA-templated	GO:0045893	ISO:RGD
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central
transcription by RNA polymerase II	GO:0006366	ISO:RGD









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP31725
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      82.87|      24|      24|     214|     237|       1
---------------------------------------------------------------------------
  214-  237 (45.93/28.36)	D.VLAPQYPWQSNDMSVNMLPPNHS
  239-  263 (36.94/21.58)	DfLLEPPGHNKENEDDVEVMSTDSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      31.76|      11|      24|      25|      36|       2
---------------------------------------------------------------------------
   25-   36 (13.51/11.88)	STRERLLSaLED
   51-   61 (18.25/10.80)	SRNQKLLQ.LEE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.80|      20|      28|      62|      88|       3
---------------------------------------------------------------------------
   62-   81 (35.78/33.26)	ENQVLELLI.HRDGDFQELMK
   92-  112 (30.02/12.84)	EMQALEKEVeKRDSDIQQLQK
---------------------------------------------------------------------------




































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 MDP31725 with Med4 domain of Kingdom Metazoa
Unable to open file!