4lps

From Proteopedia

(Difference between revisions)

Revision as of 19:04, 4 August 2016

Crystal structure of HypB from Helicobacter pylori in complex with nickel

Structural highlights

4lps is a 2 chain structure with sequence from Campylobacter pylori. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	, , , , ,
Gene:	hypB, HP_0900 (Campylobacter pylori)
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[HYPB_HELPY] Plays a role in both the hydrogenase and the urease nickel cofactor insertion step.

Publication Abstract from PubMed

The pathogen Helicobacter pylori requires two nickel-containing enzymes, urease and [NiFe]-hydrogenase, for efficient colonization of the human gastric mucosa. These enzymes possess complex metallocenters that are assembled by teams of proteins in multistep pathways. One essential accessory protein is the GTPase HypB, which is required for Ni(II) delivery to [NiFe]-hydrogenase and participates in urease maturation. Ni(II) or Zn(II) binding to a site embedded in the GTPase domain of HypB modulates the enzymatic activity, suggesting a mechanism of regulation. In this study, biochemical and structural analyses of H. pylori HypB (HpHypB) revealed an intricate link between nucleotide and metal binding. HpHypB nickel coordination, stoichiometry, and affinity were modulated by GTP and GDP, an effect not observed for zinc, and biochemical evidence suggests that His-107 coordination to nickel toggles on and off in a nucleotide-dependent manner. These results are consistent with the crystal structure of HpHypB loaded with Ni(II), GDP, and Pi, which reveals a nickel site distinct from that of zinc-loaded Methanocaldococcus jannaschii HypB as well as subtle changes to the protein structure. Furthermore, Cys-142, a metal ligand from the Switch II GTPase motif, was identified as a key component of the signal transduction between metal binding and the enzymatic activity. Finally, potassium accelerated the enzymatic activity of HpHypB but had no effect on the other biochemical properties of the protein. Altogether, this molecular level information about HpHypB provides insight into its cellular function and illuminates a possible mechanism of metal ion discrimination.

Relationship between Ni(II) and Zn(II) Coordination and Nucleotide Binding by the Helicobacter pylori [NiFe]-Hydrogenase and Urease Maturation Factor HypB.,Sydor AM, Lebrette H, Ariyakumaran R, Cavazza C, Zamble DB J Biol Chem. 2014 Feb 14;289(7):3828-41. doi: 10.1074/jbc.M113.502781. Epub 2013 , Dec 12. PMID:24338018^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Sydor AM, Lebrette H, Ariyakumaran R, Cavazza C, Zamble DB. Relationship between Ni(II) and Zn(II) Coordination and Nucleotide Binding by the Helicobacter pylori [NiFe]-Hydrogenase and Urease Maturation Factor HypB. J Biol Chem. 2014 Feb 14;289(7):3828-41. doi: 10.1074/jbc.M113.502781. Epub 2013 , Dec 12. PMID:24338018 doi:http://dx.doi.org/10.1074/jbc.M113.502781

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 See Also
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/4lps"

@@ Line 1: / Line 1: @@
 ==Crystal structure of HypB from Helicobacter pylori in complex with nickel==
 <StructureSection load='4lps' size='340' side='right' caption='[[4lps]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
@@ Line 5: / Line 6: @@
 </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MLI:MALONATE+ION'>MLI</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
 <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">hypB, HP_0900 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=85962 Campylobacter pylori])</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=4lps FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4lps OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4lps RCSB], [http://www.ebi.ac.uk/pdbsum/4lps PDBsum]</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=4lps FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4lps OCA], [http://pdbe.org/4lps PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4lps RCSB], [http://www.ebi.ac.uk/pdbsum/4lps PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4lps ProSAT]</span></td></tr>
 </table>
 == Function ==
@@ Line 17: / Line 18: @@
 From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 </div>
+<div class="pdbe-citations 4lps" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[HypA-HypB-HypC-HypD-HypE-HypF|HypA-HypB-HypC-HypD-HypE-HypF]]
 == References ==
 <references/>

4lps

From Proteopedia

Revision as of 19:04, 4 August 2016

Crystal structure of HypB from Helicobacter pylori in complex with nickel

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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