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| | ==Solution structure of the Ni metallochaperone HypA from Helicobacter pylori== | | ==Solution structure of the Ni metallochaperone HypA from Helicobacter pylori== |
| - | <StructureSection load='6g81' size='340' side='right'caption='[[6g81]], [[NMR_Ensembles_of_Models | 20 NMR models]]' scene=''> | + | <StructureSection load='6g81' size='340' side='right'caption='[[6g81]]' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[6g81]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Campylobacter_pylori_j99 Campylobacter pylori j99]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6G81 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6G81 FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[6g81]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Helicobacter_pylori_J99 Helicobacter pylori J99]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6G81 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6G81 FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr> | + | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">hypA, jhp_0803 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=85963 Campylobacter pylori J99])</td></tr>
| + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=6g81 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6g81 OCA], [https://pdbe.org/6g81 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6g81 RCSB], [https://www.ebi.ac.uk/pdbsum/6g81 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6g81 ProSAT]</span></td></tr> |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6g81 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6g81 OCA], [http://pdbe.org/6g81 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6g81 RCSB], [http://www.ebi.ac.uk/pdbsum/6g81 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6g81 ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/HYPA_HELPJ HYPA_HELPJ]] Involved in the maturation of [NiFe] hydrogenases. Required for nickel insertion into the metal center of the hydrogenase.[HAMAP-Rule:MF_00213] | + | [https://www.uniprot.org/uniprot/HYPA_HELPJ HYPA_HELPJ] Involved in the maturation of [NiFe] hydrogenases. Required for nickel insertion into the metal center of the hydrogenase.[HAMAP-Rule:MF_00213] |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | </div> | | </div> |
| | <div class="pdbe-citations 6g81" style="background-color:#fffaf0;"></div> | | <div class="pdbe-citations 6g81" style="background-color:#fffaf0;"></div> |
| | + | |
| | + | ==See Also== |
| | + | *[[HypA%2C HypB%2C HypC%2C HypD%2C HypE and HypF 3D structures|HypA%2C HypB%2C HypC%2C HypD%2C HypE and HypF 3D structures]] |
| | == References == | | == References == |
| | <references/> | | <references/> |
| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Campylobacter pylori j99]] | + | [[Category: Helicobacter pylori J99]] |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Bardiaux, B]] | + | [[Category: Bardiaux B]] |
| - | [[Category: Ciurli, S]] | + | [[Category: Ciurli S]] |
| - | [[Category: Gorka, M]] | + | [[Category: Gorka M]] |
| - | [[Category: Hu, H]] | + | [[Category: Hu H]] |
| - | [[Category: Kozminski, W]] | + | [[Category: Kozminski W]] |
| - | [[Category: Maroney, M]] | + | [[Category: Maroney M]] |
| - | [[Category: Musiani, F]] | + | [[Category: Musiani F]] |
| - | [[Category: Piccioli, M]] | + | [[Category: Piccioli M]] |
| - | [[Category: Spronk, C A.E M]] | + | [[Category: Spronk CAEM]] |
| - | [[Category: Zambelli, B]] | + | [[Category: Zambelli B]] |
| - | [[Category: Zerko, S]] | + | [[Category: Zerko S]] |
| - | [[Category: Metal binding protein]]
| + | |
| - | [[Category: Metallochaperone metal-binding nickel hydrogenase]]
| + | |
| Structural highlights
Function
HYPA_HELPJ Involved in the maturation of [NiFe] hydrogenases. Required for nickel insertion into the metal center of the hydrogenase.[HAMAP-Rule:MF_00213]
Publication Abstract from PubMed
Helicobacter pylori HypA (HpHypA) is a metallochaperone necessary for maturation of [Ni,Fe]-hydrogenase and urease, the enzymes required for colonization and survival of H. pylori in the gastric mucosa. HpHypA contains a structural Zn(II) site and a unique Ni(II) binding site at the N-terminus. X-ray absorption spectra suggested that the Zn(II) coordination depends on pH and on the presence of Ni(II). This study was performed to investigate the structural properties of HpHypA as a function of pH and Ni(II) binding, using NMR spectroscopy combined with DFT and molecular dynamics calculations. The solution structure of apo,Zn-HpHypA, containing Zn(II) but devoid of Ni(II), was determined using 2D, 3D and 4D NMR spectroscopy. The structure suggests that a Ni-binding and a Zn-binding domain, joined through a short linker, could undergo mutual reorientation. This flexibility has no physiological effect on acid viability or urease maturation in H. pylori. Atomistic molecular dynamics simulations suggest that Ni(II) binding is important for the conformational stability of the N-terminal helix. NMR chemical shift perturbation analysis indicates that no structural changes occur in the Zn-binding domain upon addition of Ni(II) in the pH 6.3-7.2 range. The structure of the Ni(II) binding site was probed using (1)H NMR spectroscopy experiments tailored to reveal hyperfine-shifted signals around the paramagnetic metal ion. On this basis, two possible models were derived using quantum-mechanical DFT calculations. The results provide a comprehensive picture of the Ni(II) mode to HpHypA, important to rationalize, at the molecular level, the functional interactions of this chaperone with its protein partners.
Structure and dynamics of Helicobacter pylori nickel-chaperone HypA: an integrated approach using NMR spectroscopy, functional assays and computational tools.,Spronk CAEM, Zerko S, Gorka M, Kozminski W, Bardiaux B, Zambelli B, Musiani F, Piccioli M, Basak P, Blum FC, Johnson RC, Hu H, Merrell DS, Maroney M, Ciurli S J Biol Inorg Chem. 2018 Sep 27. pii: 10.1007/s00775-018-1616-y. doi:, 10.1007/s00775-018-1616-y. PMID:30264175[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Spronk CAEM, Zerko S, Gorka M, Kozminski W, Bardiaux B, Zambelli B, Musiani F, Piccioli M, Basak P, Blum FC, Johnson RC, Hu H, Merrell DS, Maroney M, Ciurli S. Structure and dynamics of Helicobacter pylori nickel-chaperone HypA: an integrated approach using NMR spectroscopy, functional assays and computational tools. J Biol Inorg Chem. 2018 Sep 27. pii: 10.1007/s00775-018-1616-y. doi:, 10.1007/s00775-018-1616-y. PMID:30264175 doi:http://dx.doi.org/10.1007/s00775-018-1616-y
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