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(-) Description

Title :  STRUCTURE OF THE TBL1 TETRAMERISATION DOMAIN
 
Authors :  J. Oberoi, L. Fairall, P. J. Watson, J. A. Greenwood, J. W. R. Schwabe
Date :  06 Oct 10  (Deposition) - 19 Jan 11  (Release) - 16 Feb 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.22
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. Oberoi, L. Fairall, P. J. Watson, J. C. Yang, Z. Czimmerer, T. Kampmann, B. T. Goult, J. A. Greenwood, J. T. Gooch, B. C. Kallenberger, L. Nagy, D. Neuhaus, J. W. R. Schwabe
Structural Basis For The Assembly Of The Smrt/Ncor Core Transcriptional Repression Machinery.
Nat. Struct. Mol. Biol. V. 18 177 2011
PubMed-ID: 21240272  |  Reference-DOI: 10.1038/NSMB.1983

(-) Compounds

Molecule 1 - F-BOX-LIKE/WD REPEAT-CONTAINING PROTEIN TBL1X
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET-DUET
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    FragmentN-TERMINAL TETRAMERISATION DOMAIN, RESIDUES 1-90
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymTRANSDUCIN BETA-LIKE PROTEIN 1X, TBL1, TRANSDUCIN -BETA-LIKE PROTEIN1,X-LINKED, SMAP55

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit AB
Biological Unit 1 (2x)AB

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (0, 0)

(no "Site" information available for 2XTC)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 2)

Asymmetric Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1LISHPS50896 LIS1 homology (LisH) motif profile.TBL1X_HUMAN55-87
 
  2A:4-36
B:4-36
Biological Unit 1 (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1LISHPS50896 LIS1 homology (LisH) motif profile.TBL1X_HUMAN55-87
 
  4A:4-36
B:4-36

(-) Exons   (0, 0)

(no "Exon" information available for 2XTC)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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  UniProt sequence: complete  aligned part    
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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:74
 aligned with TBL1X_HUMAN | O60907 from UniProtKB/Swiss-Prot  Length:577

    Alignment length:74
                                    62        72        82        92       102       112       122    
          TBL1X_HUMAN    53 SITSDEVNFLVYRYLQESGFSHSAFTFGIESHISQSNINGTLVPPAALISILQKGLQYVEAEISINEDGTVFDG 126
               SCOP domains -------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh..hhhhh..hhhhhhhhhhhhhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --LISH  PDB: A:4-36 UniProt: 55-87 --------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------- Transcript
                 2xtc A   2 SITSDEVNFLVYRYLQESGFSHSAFTFGIESHISQSNINGTLVPPAALISILQKGLQYVEAEISINEDGTVFDG  75
                                    11        21        31        41        51        61        71    

Chain B from PDB  Type:PROTEIN  Length:62
 aligned with TBL1X_HUMAN | O60907 from UniProtKB/Swiss-Prot  Length:577

    Alignment length:65
                                    62        72        82        92       102       112     
          TBL1X_HUMAN    53 SITSDEVNFLVYRYLQESGFSHSAFTFGIESHISQSNINGTLVPPAALISILQKGLQYVEAEISI 117
               SCOP domains ----------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------- CATH domains
           Pfam domains (1) ----LisH-2xtcB01 B:6-32        ---------------------------------- Pfam domains (1)
           Pfam domains (2) ----LisH-2xtcB02 B:6-32        ---------------------------------- Pfam domains (2)
         Sec.struct. author ..hhhhhhhhhhhhhhhh.hhhhhhhhhhhh....---hhhhh..hhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --LISH  PDB: B:4-36 UniProt: 55-87 ------------------------------ PROSITE
                 Transcript ----------------------------------------------------------------- Transcript
                 2xtc B   2 SITSDEVNFLVYRYLQESGFSHSAFTFGIESHISQ---NGTLVPPAALISILQKGLQYVEAEISI  66
                                    11        21        31    |   41        51        61     
                                                             36  40                          

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  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 2XTC)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (1, 2)

Asymmetric Unit

(-) Gene Ontology  (24, 24)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (TBL1X_HUMAN | O60907)
molecular function
    GO:0008013    beta-catenin binding    Interacting selectively and non-covalently with the beta subunit of the catenin complex.
    GO:0042393    histone binding    Interacting selectively and non-covalently with a histone, any of a group of water-soluble proteins found in association with the DNA of eukaroytic chromosomes. They are involved in the condensation and coiling of chromosomes during cell division and have also been implicated in nonspecific suppression of gene activity.
    GO:0008022    protein C-terminus binding    Interacting selectively and non-covalently with a protein C-terminus, the end of any peptide chain at which the 1-carboxy function of a constituent amino acid is not attached in peptide linkage to another amino-acid residue.
    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:0019904    protein domain specific binding    Interacting selectively and non-covalently with a specific domain of a protein.
    GO:0003714    transcription corepressor activity    Interacting selectively and non-covalently with a repressing transcription factor and also with the basal transcription machinery in order to stop, prevent, or reduce the frequency, rate or extent of transcription. Cofactors generally do not bind the template nucleic acid, but rather mediate protein-protein interactions between repressive transcription factors and the basal transcription machinery.
    GO:0008134    transcription factor binding    Interacting selectively and non-covalently with a transcription factor, any protein required to initiate or regulate transcription.
    GO:0044212    transcription regulatory region DNA binding    Interacting selectively and non-covalently with a DNA region that regulates the transcription of a region of DNA, which may be a gene, cistron, or operon. Binding may occur as a sequence specific interaction or as an interaction observed only once a factor has been recruited to the DNA by other factors.
biological process
    GO:0060070    canonical Wnt signaling pathway    The series of molecular signals initiated by binding of a Wnt protein to a frizzled family receptor on the surface of the target cell, followed by propagation of the signal via beta-catenin, and ending with a change in transcription of target genes. In this pathway, the activated receptor signals via downstream effectors that result in the inhibition of beta-catenin phosphorylation, thereby preventing degradation of beta-catenin. Stabilized beta-catenin can then accumulate and travel to the nucleus to trigger changes in transcription of target genes.
    GO:0044255    cellular lipid metabolic process    The chemical reactions and pathways involving lipids, as carried out by individual cells.
    GO:0016575    histone deacetylation    The modification of histones by removal of acetyl groups.
    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: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:0045893    positive regulation of transcription, DNA-templated    Any process that activates or increases the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0043161    proteasome-mediated ubiquitin-dependent protein catabolic process    The chemical reactions and pathways resulting in the breakdown of a protein or peptide by hydrolysis of its peptide bonds, initiated by the covalent attachment of ubiquitin, and mediated by the proteasome.
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0007605    sensory perception of sound    The series of events required for an organism to receive an auditory stimulus, convert it to a molecular signal, and recognize and characterize the signal. Sonic stimuli are detected in the form of vibrations and are processed to form a sound.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
cellular component
    GO:0000118    histone deacetylase complex    A protein complex that possesses histone deacetylase activity.
    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.
    GO:0005876    spindle microtubule    Any microtubule that is part of a mitotic or meiotic spindle; anchored at one spindle pole.
    GO:0017053    transcriptional repressor complex    A protein complex that possesses activity that prevents or downregulates transcription.

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 Related Entries

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

UniProtKB/Swiss-Prot
        TBL1X_HUMAN | O609072xtd 2xte

(-) Related Entries Specified in the PDB File

2xtd STRUCTURE OF THE TBL1 TETRAMERISATION DOMAIN
2xte STRUCTURE OF THE TBL1 TETRAMERISATION DOMAIN