On the interaction of Helicobacter pylori NikR, aNi(II)-responsive transcription factor, with the urease operator: in solution and in silico studies
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| 024 | 7 | 0 | |a 10.1007/s00775-015-1284-0 |2 doi |
| 035 | |a (NATIONALLICENCE)springer-10.1007/s00775-015-1284-0 | ||
| 245 | 0 | 0 | |a On the interaction of Helicobacter pylori NikR, aNi(II)-responsive transcription factor, with the urease operator: in solution and in silico studies |h [Elektronische Daten] |c [Luca Mazzei, Olena Dobrovolska, Francesco Musiani, Barbara Zambelli, Stefano Ciurli] |
| 520 | 3 | |a Helicobacter pylori (Hp) is a carcinogen that relies on Ni(II) to survive in the extreme pH conditions of the human guts. The regulation of genes coding for Ni(II) enzymes and proteins is effected by the nickel-responsive transcription factor NikR, composed of a DNA-binding domain (DBD) and a metal-binding domain (MBD). The scope of this study is to obtain the molecular details of the HpNikR interaction with the urease operator OP ureA , in solution. The size of the full-length protein prevents the characterization of the HpNikR-OP ureA interaction using NMR. We thus investigated the two separate domains of HpNikR. The conservation of their oligomeric state was established by multiple-angle light scattering. Isothermal calorimetric titrations indicated that the thermodynamics of Ni(II) binding to the isolated MBD is independent of the presence of the adjacent DBDs. The NMR spectra of the isolated DBD support considerable conservation of its structural properties. The spectral perturbations induced on the DBD by OP ureA provided information useful to calculate a structural model of the HpNikR-OP ureA complex using a docking computational protocol. The NMR assignment of the residues involved in the protein-DNA interaction represents a starting point for the development of drugs potentially able to eradicate H. pylori infections. All evidences so far collected, in this and previous studies, consistently indicate that binding of Ni(II) to the MBD increases the HpNikR-DNA affinity by modulating the dynamic, and not the structural, properties of the protein, suggesting that the formation of a stable complex relies upon an induced fit mechanism. | |
| 540 | |a SBIC, 2015 | ||
| 690 | 7 | |a Binding affinity |2 nationallicence | |
| 690 | 7 | |a Calorimetry |2 nationallicence | |
| 690 | 7 | |a Computational chemistry |2 nationallicence | |
| 690 | 7 | |a Ligand binding |2 nationallicence | |
| 690 | 7 | |a Nuclear magnetic resonance |2 nationallicence | |
| 690 | 7 | |a AIC : Akaike's Information Criteria |2 nationallicence | |
| 690 | 7 | |a CSP : Chemical shift perturbations |2 nationallicence | |
| 690 | 7 | |a DBD : DNA-binding domain |2 nationallicence | |
| 690 | 7 | |a Ec : Escherichia coli |2 nationallicence | |
| 690 | 7 | |a Hp : Helicobacter pylori |2 nationallicence | |
| 690 | 7 | |a MALS : Multiple-angle light scattering |2 nationallicence | |
| 690 | 7 | |a MDB : Metal-binding domain |2 nationallicence | |
| 690 | 7 | |a NMR : Nuclear magnetic resonance |2 nationallicence | |
| 690 | 7 | |a Ph : Pyrococcus horikoshii |2 nationallicence | |
| 690 | 7 | |a SAXS : Small-angle X-ray scattering |2 nationallicence | |
| 690 | 7 | |a SEC : Size-exclusion chromatography |2 nationallicence | |
| 700 | 1 | |a Mazzei |D Luca |u Laboratory of Bioinorganic Chemistry, Department of Pharmacy and Biotechnology, University of Bologna, 40127, Bologna, Italy |4 aut | |
| 700 | 1 | |a Dobrovolska |D Olena |u Laboratory of Bioinorganic Chemistry, Department of Pharmacy and Biotechnology, University of Bologna, 40127, Bologna, Italy |4 aut | |
| 700 | 1 | |a Musiani |D Francesco |u Laboratory of Bioinorganic Chemistry, Department of Pharmacy and Biotechnology, University of Bologna, 40127, Bologna, Italy |4 aut | |
| 700 | 1 | |a Zambelli |D Barbara |u Laboratory of Bioinorganic Chemistry, Department of Pharmacy and Biotechnology, University of Bologna, 40127, Bologna, Italy |4 aut | |
| 700 | 1 | |a Ciurli |D Stefano |u Laboratory of Bioinorganic Chemistry, Department of Pharmacy and Biotechnology, University of Bologna, 40127, Bologna, Italy |4 aut | |
| 773 | 0 | |t JBIC Journal of Biological Inorganic Chemistry |d Springer Berlin Heidelberg |g 20/6(2015-09-01), 1021-1037 |x 0949-8257 |q 20:6<1021 |1 2015 |2 20 |o 775 | |
| 856 | 4 | 0 | |u https://doi.org/10.1007/s00775-015-1284-0 |q text/html |z Onlinezugriff via DOI |
| 898 | |a BK010053 |b XK010053 |c XK010000 | ||
| 900 | 7 | |a Metadata rights reserved |b Springer special CC-BY-NC licence |2 nationallicence | |
| 908 | |D 1 |a research-article |2 jats | ||
| 949 | |B NATIONALLICENCE |F NATIONALLICENCE |b NL-springer | ||
| 950 | |B NATIONALLICENCE |P 856 |E 40 |u https://doi.org/10.1007/s00775-015-1284-0 |q text/html |z Onlinezugriff via DOI | ||
| 950 | |B NATIONALLICENCE |P 700 |E 1- |a Mazzei |D Luca |u Laboratory of Bioinorganic Chemistry, Department of Pharmacy and Biotechnology, University of Bologna, 40127, Bologna, Italy |4 aut | ||
| 950 | |B NATIONALLICENCE |P 700 |E 1- |a Dobrovolska |D Olena |u Laboratory of Bioinorganic Chemistry, Department of Pharmacy and Biotechnology, University of Bologna, 40127, Bologna, Italy |4 aut | ||
| 950 | |B NATIONALLICENCE |P 700 |E 1- |a Musiani |D Francesco |u Laboratory of Bioinorganic Chemistry, Department of Pharmacy and Biotechnology, University of Bologna, 40127, Bologna, Italy |4 aut | ||
| 950 | |B NATIONALLICENCE |P 700 |E 1- |a Zambelli |D Barbara |u Laboratory of Bioinorganic Chemistry, Department of Pharmacy and Biotechnology, University of Bologna, 40127, Bologna, Italy |4 aut | ||
| 950 | |B NATIONALLICENCE |P 700 |E 1- |a Ciurli |D Stefano |u Laboratory of Bioinorganic Chemistry, Department of Pharmacy and Biotechnology, University of Bologna, 40127, Bologna, Italy |4 aut | ||
| 950 | |B NATIONALLICENCE |P 773 |E 0- |t JBIC Journal of Biological Inorganic Chemistry |d Springer Berlin Heidelberg |g 20/6(2015-09-01), 1021-1037 |x 0949-8257 |q 20:6<1021 |1 2015 |2 20 |o 775 | ||