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(-) Description

Title :  NMR STRUCTURE OF THE ACID (ACTIVATOR INTERACTING DOMAIN) OF THE HUMAN MEDIATOR MED25 PROTEIN
 
Authors :  F. Bontems, D. Monte, F. Dewitte, V. Villeret
Date :  10 Aug 10  (Deposition) - 24 Nov 10  (Release) - 30 Mar 11  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
NMR Structure *:  A  (1x)
Keywords :  Human Mediator Complex, Pancreatic Tumor Overexpressed Domain, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  F. Bontems, A. Verger, F. Dewitte, Z. Lens, J. L. Baert, E. Ferreira, Y. Launoit, C. Sizun, E. Guittet, V. Villeret, D. Monte
Nmr Structure Of The Human Mediator Med25 Acid Domain.
J. Struct. Biol. V. 174 245 2011
PubMed-ID: 20974256  |  Reference-DOI: 10.1016/J.JSB.2010.10.011

(-) Compounds

Molecule 1 - MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT 25
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentACID DOMAIN, UNP RESIDUES 391-548
    GeneACID1, ARC92, MED25, PTOV2, TCBAP0758
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymMEDIATOR COMPLEX SUBUNIT 25, ACTIVATOR-RECRUITED COFACTOR 92 KDA COMPONENT, ARC92, ACTIVATOR INTERACTION DOMAIN-CONTAINING PROTEIN 1, P78

 Structural Features

(-) Chains, Units

  1
NMR Structure (20x)A
NMR Structure * (1x)A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 2L23)

(-) Sites  (0, 0)

(no "Site" information available for 2L23)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2L23)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2L23)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2L23)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2L23)

(-) Exons   (0, 0)

(no "Exon" information available for 2L23)

(-) Sequences/Alignments

NMR Structure
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it)
Chain A from PDB  Type:PROTEIN  Length:161
 aligned with B9TX31_HUMAN | B9TX31 from UniProtKB/TrEMBL  Length:482

    Alignment length:164
                                   134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284    
         B9TX31_HUMAN   125 GGQQSVSNKLLAWSGVLEWQEKPKPASVDANTKLTRSLPCQVYVNHGENLKTEQWPQKLIMQLIPQQLLTTLGPLFRNSRMVQFHFTNKDLESLKGLYRIMGNGFAGCVHFPHTAPCEVRVLMLLYSSKKKIFMGLIPYDQSGFVNGIRQVITNHKQVQQQKLE 288
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --Med25-2l23A01 A:3-158                                                                                                                                       ------ Pfam domains
         Sec.struct. author .........eeeeeeeeeee..............eeeeeeeeee.............eeeeeeee.hhhhhhhhhhh.eeeeeeee....hhhhhhhhhhhhhheeeeee...........eeeeee....eeeeeee.hhhhhhhhhhhhhhhhh...---.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2l23 A   1 MGQQSVSNKLLAWSGVLEWQEKPKPASVDANTKLTRSLPCQVYVNHGENLKTEQWPQKLIMQLIPQQLLTTLGPLFRNSRMVQFHFTNKDLESLKGLYRIMGNGFAGCVHFPHTAPCEVRVLMLLYSSKKKIFMGLIPYDQSGFVNGIRQVITNHKQVQ---LE 161
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150        |-  | 
                                                                                                                                                                                        159 160 

Chain A from PDB  Type:PROTEIN  Length:161
 aligned with MED25_HUMAN | Q71SY5 from UniProtKB/Swiss-Prot  Length:747

    Alignment length:164
                                   399       409       419       429       439       449       459       469       479       489       499       509       519       529       539       549    
          MED25_HUMAN   390 GGQQSVSNKLLAWSGVLEWQEKPKPASVDANTKLTRSLPCQVYVNHGENLKTEQWPQKLIMQLIPQQLLTTLGPLFRNSRMVQFHFTNKDLESLKGLYRIMGNGFAGCVHFPHTAPCEVRVLMLLYSSKKKIFMGLIPYDQSGFVNGIRQVITNHKQVQQQKLE 553
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --Med25-2l23A01 A:3-158                                                                                                                                       ------ Pfam domains
         Sec.struct. author .........eeeeeeeeeee..............eeeeeeeeee.............eeeeeeee.hhhhhhhhhhh.eeeeeeee....hhhhhhhhhhhhhheeeeee...........eeeeee....eeeeeee.hhhhhhhhhhhhhhhhh...---.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2l23 A   1 MGQQSVSNKLLAWSGVLEWQEKPKPASVDANTKLTRSLPCQVYVNHGENLKTEQWPQKLIMQLIPQQLLTTLGPLFRNSRMVQFHFTNKDLESLKGLYRIMGNGFAGCVHFPHTAPCEVRVLMLLYSSKKKIFMGLIPYDQSGFVNGIRQVITNHKQVQ---LE 161
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150        |-  | 
                                                                                                                                                                                        159 160 

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 2L23)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2L23)

(-) Pfam Domains  (1, 1)

NMR Structure

(-) Gene Ontology  (16, 16)

NMR Structure(hide GO term definitions)
Chain A   (MED25_HUMAN | Q71SY5)
molecular function
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0042974    retinoic acid receptor binding    Interacting selectively and non-covalently with the retinoic acid receptor, a ligand-regulated transcription factor belonging to the nuclear receptor superfamily.
    GO:0046965    retinoid X receptor binding    Interacting selectively and non-covalently with a retinoid X receptor.
    GO:0008134    transcription factor binding    Interacting selectively and non-covalently with a transcription factor, any protein required to initiate or regulate transcription.
biological process
    GO:0048147    negative regulation of fibroblast proliferation    Any process that stops, prevents, or reduces the frequency, rate or extent of multiplication or reproduction of fibroblast cells.
    GO:0000122    negative regulation of transcription from RNA polymerase II promoter    Any process that stops, prevents, or reduces the frequency, rate or extent of transcription from an RNA polymerase II promoter.
    GO:0071158    positive regulation of cell cycle arrest    Any process that increases the rate, frequency, or extent of cell cycle arrest, the process in which the cell cycle is halted during one of the normal phases.
    GO:0035563    positive regulation of chromatin binding    Any process that increases the frequency, rate or extent of chromatin binding. Chromatin binding is the selective interaction with chromatin, the network of fibers of DNA, protein, and sometimes RNA, that make up the chromosomes of the eukaryotic nucleus during interphase.
    GO:2001178    positive regulation of mediator complex assembly    Any process that activates or increases the frequency, rate or extent of mediator complex assembly.
    GO:0045944    positive regulation of transcription from RNA polymerase II promoter    Any process that activates or increases the frequency, rate or extent of transcription from an RNA polymerase II promoter.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006367    transcription initiation from RNA polymerase II promoter    Any process involved in the assembly of the RNA polymerase II preinitiation complex (PIC) at an RNA polymerase II promoter region of a DNA template, resulting in the subsequent synthesis of RNA from that promoter. The initiation phase includes PIC assembly and the formation of the first few bonds in the RNA chain, including abortive initiation, which occurs when the first few nucleotides are repeatedly synthesized and then released. Promoter clearance, or release, is the transition between the initiation and elongation phases of transcription.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
cellular component
    GO:0044798    nuclear transcription factor complex    A protein complex, located in the nucleus, that is capable of associating with DNA by direct binding, or via other DNA-binding proteins or complexes, and regulating transcription.
    GO:0005654    nucleoplasm    That part of the nuclear content other than the chromosomes or the nucleolus.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

Chain A   (B9TX31_HUMAN | B9TX31)

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        MED25_HUMAN | Q71SY52ky6 2l6u 2xnf

(-) Related Entries Specified in the PDB File

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