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5QFI

PanDDA analysis group deposition -- Crystal structure of PTP1B in complex with compound_FMOOA000531a

Summary for 5QFI
Entry DOI10.2210/pdb5qfi/pdb
Group depositionPanDDA analysis group deposition of models with modelled events (e.g. bound ligands) (G_1002043)
DescriptorTyrosine-protein phosphatase non-receptor type 1, (1R,4R,5R,6S)-4,6-dihydroxy-N-phenyl-2-azabicyclo[3.3.1]nonane-2-carboxamide, 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, ... (4 entities in total)
Functional Keywordspandda, sgc - diamond i04-1 fragment screening, protein tyrosine phosphatase, ptp, protein tyrosine phosphatase 1b, ptp1b, enzyme, allostery, multiconformer, hydrolase
Biological sourceHomo sapiens (Human)
Total number of polymer chains1
Total formula weight37744.04
Authors
Keedy, D.A.,Hill, Z.B.,Biel, J.T.,Kang, E.,Rettenmaier, T.J.,Brandao-Neto, J.,von Delft, F.,Wells, J.A.,Fraser, J.S. (deposition date: 2018-08-30, release date: 2018-10-10, Last modification date: 2024-10-23)
Primary citationKeedy, D.A.,Hill, Z.B.,Biel, J.T.,Kang, E.,Rettenmaier, T.J.,Brandao-Neto, J.,Pearce, N.M.,von Delft, F.,Wells, J.A.,Fraser, J.S.
An expanded allosteric network in PTP1B by multitemperature crystallography, fragment screening, and covalent tethering.
Elife, 7:-, 2018
Cited by
PubMed Abstract: Allostery is an inherent feature of proteins, but it remains challenging to reveal the mechanisms by which allosteric signals propagate. A clearer understanding of this intrinsic circuitry would afford new opportunities to modulate protein function. Here, we have identified allosteric sites in protein tyrosine phosphatase 1B (PTP1B) by combining multiple-temperature X-ray crystallography experiments and structure determination from hundreds of individual small-molecule fragment soaks. New modeling approaches reveal 'hidden' low-occupancy conformational states for protein and ligands. Our results converge on allosteric sites that are conformationally coupled to the active-site WPD loop and are hotspots for fragment binding. Targeting one of these sites with covalently tethered molecules or mutations allosterically inhibits enzyme activity. Overall, this work demonstrates how the ensemble nature of macromolecular structure, revealed here by multitemperature crystallography, can elucidate allosteric mechanisms and open new doors for long-range control of protein function.
PubMed: 29877794
DOI: 10.7554/eLife.36307
PDB entries with the same primary citation
Experimental method
X-RAY DIFFRACTION (1.68 Å)
Structure validation

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