La purification de la protéine NikA surexprimée en milieu minimum, p.171 ,
Les tentatives de reproduction des cristaux de la protéine native, p.173 ,
, a Software Package for EXAFS Data Extraction and Modelling, Journal of Synchrotron Radiation, vol.5, issue.5, pp.1287-1297, 1998. ,
DOI : 10.1107/S0909049598004142
Spectacular improvement of X-ray diffraction through fast desiccation of protein crystals, Acta Crystallographica Section D Biological Crystallography, vol.60, issue.8, pp.1413-1419, 2004. ,
DOI : 10.1107/S0907444904013678
Hydrogenase, Biochimica et Biophysica Acta (BBA) - Reviews on Bioenergetics, vol.594, issue.2-3, pp.105-176, 1981. ,
DOI : 10.1016/0304-4173(80)90007-5
Nur, a nickel-responsive regulator of the Fur family, regulates superoxide dismutases and nickel transport in Streptomyces coelicolor, Molecular Microbiology, vol.181, issue.6, pp.1848-58, 2006. ,
DOI : 10.1111/j.1365-2958.2001.02321.x
NikA Protein, Inorganic Chemistry, vol.37, issue.22, pp.5952-5955, 1998. ,
DOI : 10.1021/ic980407t
Simple, rapid, and quantitative release of periplasmic proteins by chloroform, J Bacteriol, vol.160, issue.3, pp.1181-1184, 1984. ,
Nickel-Dependent Chemolithotrophic Growth Of Two Hydrogenomonas Strains, J Bacteriol, vol.89, pp.1015-1024, 1965. ,
Allelic exchange mutagenesis of nixA in Helicobacter pylori results in reduced nickel transport and urease activity, Infect Immun, vol.64, issue.7, pp.2877-80, 1996. ,
Interplay between the Specific Chaperone-Like Proteins HybG and HypC in Maturation of Hydrogenases 1, 2, and 3 from Escherichia coli, Journal of Bacteriology, vol.183, issue.9, pp.2817-2839, 2001. ,
DOI : 10.1128/JB.183.9.2817-2822.2001
Protein Crystallography, 1976. ,
Deciphering the message in protein sequences: tolerance to amino acid substitutions, Science, vol.247, issue.4948, pp.1306-1316, 1990. ,
DOI : 10.1126/science.2315699
Acquisition of Mn(II) in Addition to Fe(II) Is Required for Full Virulence of Salmonella enterica Serovar Typhimurium, Infection and Immunity, vol.70, issue.11, pp.6032-6074, 2002. ,
DOI : 10.1128/IAI.70.11.6032-6042.2002
Energy-coupled transport and signal transduction through the Gram-negative outer membrane via TonB-ExbB-ExbD-dependent receptor proteins, FEMS Microbiology Reviews, vol.16, issue.4, pp.295-307, 1995. ,
DOI : 10.1111/j.1574-6976.1995.tb00177.x
(edta) and Hydrogen Peroxide:?? Observation of a Second Reaction Step and Importance of pH, Inorganic Chemistry, vol.43, issue.17, pp.5351-5360, 2004. ,
DOI : 10.1021/ic0497580
Free R value: a novel statistical quantity for assessing the accuracy of crystal structures, Nature, vol.355, issue.6359, p.475, 1992. ,
DOI : 10.1038/355472a0
X-PLOR version 3.1, a system for X-ray Crystallography and NMR, 1992. ,
Crystallography & NMR System: A New Software Suite for Macromolecular Structure Determination, Acta Crystallographica Section D Biological Crystallography, vol.54, issue.5, pp.905-926, 1998. ,
DOI : 10.1107/S0907444998003254
High-level Biosynthetic Substitution of Methionine in Proteins by its Analogs 2-Aminohexanoic Acid, Selenomethionine, Telluromethionine and Ethionine in Escherichia coli, European Journal of Biochemistry, vol.211, issue.2, pp.788-96, 1995. ,
DOI : 10.1016/0378-1119(93)90764-T
Responsiveness to acidity via metal ion regulators mediates virulence in the gastric pathogen Helicobacter pylori, Molecular Microbiology, vol.11, issue.2, pp.623-661, 2004. ,
DOI : 10.1111/j.1365-2958.2004.04137.x
URL : https://hal.archives-ouvertes.fr/hal-00198535
Nickel coordination is regulated by the DNA-bound state of NikR, Nature Structural Biology, vol.10, issue.2, pp.126-156, 2003. ,
DOI : 10.1038/nsb890
Breaking tolerance to nickel, Toxicology, vol.209, issue.2, pp.119-140, 2005. ,
DOI : 10.1016/j.tox.2004.12.021
Crystallization and Preliminary X-ray Diffraction Study of the Nickel-binding Protein NikA of Escherichia coli, Journal of Molecular Biology, vol.243, issue.2, pp.353-358, 1994. ,
DOI : 10.1006/jmbi.1994.1661
Identification and Characterization of the Nickel Uptake System for Urease Biogenesis in Streptococcus salivarius 57.I, Journal of Bacteriology, vol.185, issue.23, pp.6773-6782, 2003. ,
DOI : 10.1128/JB.185.23.6773-6779.2003
Multiple sequence alignment with the Clustal series of programs, Nucleic Acids Research, vol.31, issue.13, pp.31-3497, 2003. ,
DOI : 10.1093/nar/gkg500
to the Periplasmic Nickel Transporter NikA, Journal of the American Chemical Society, vol.127, issue.28, pp.10075-82, 2005. ,
DOI : 10.1021/ja0518530
NikR is a ribbon-helix-helix DNA-binding protein, Protein Science, vol.195, issue.11, pp.2494-500, 1999. ,
DOI : 10.1110/ps.8.11.2494
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2144182
Regulation of High Affinity Nickel Uptake in Bacteria. Ni2+-DEPENDENT INTERACTION OF NikR WITH WILD-TYPE AND MUTANT OPERATOR SITES, Journal of Biological Chemistry, vol.275, issue.26, pp.19735-19776, 2000. ,
DOI : 10.1074/jbc.M002232200
NikR Repressor, Chemistry & Biology, vol.9, issue.10, pp.1141-1149, 2002. ,
DOI : 10.1016/S1074-5521(02)00241-7
URL : http://doi.org/10.1016/s1074-5521(02)00241-7
Structure of Pyrococcus horikoshii NikR: Nickel Sensing and Implications for the Regulation of DNA Recognition, Journal of Molecular Biology, vol.348, issue.3, pp.597-607, 2005. ,
DOI : 10.1016/j.jmb.2005.03.017
Molecular characterization of Bacillus pasteurii UreE, a metal-binding chaperone for the assembly of the urease active site, JBIC Journal of Biological Inorganic Chemistry, vol.7, issue.6, pp.623-654, 2002. ,
DOI : 10.1007/s00775-002-0341-7
Identification of Sequences Encoding the Detoxification Metalloisomerase Glyoxalase I in Microbial Genomes from Several Pathogenic Organisms, Journal of Molecular Evolution, vol.50, issue.5, pp.491-496, 2000. ,
DOI : 10.1007/s002390010052
Rhodobacter capsulatus HypF is involved in regulation of hydrogenase synthesis through the HupUV proteins, European Journal of Biochemistry, vol.251, issue.1-2, pp.65-71, 1998. ,
DOI : 10.1046/j.1432-1327.1998.2510065.x
X-ray spectroscopic studies of nickel complexes, with application to the structure of nickel sites in hydrogenases, Inorganic Chemistry, vol.30, issue.5, pp.920-928, 1990. ,
DOI : 10.1021/ic00005a010
Characterization of the roles of NikR, a nickel-responsive pleiotropic autoregulator of Helicobacter pylori, Molecular Microbiology, vol.68, issue.4, pp.947-63, 2003. ,
DOI : 10.1046/j.1365-2958.2003.03621.x
Advanced Inorganic chemistry, p.711 ,
Advanced Inorganic chemistry, p.743 ,
Relativistic Calculation of Anomalous Scattering Factors for X Rays, The Journal of Chemical Physics, vol.53, issue.5, pp.1891-1898, 1970. ,
DOI : 10.1063/1.1674266
A method of positioning a known molecule in an unknown crystal structure, Acta Crystallographica, vol.23, issue.4, pp.544-548, 1967. ,
DOI : 10.1107/S0365110X67003172
One Protein, Two Enzymes, Journal of Biological Chemistry, vol.274, issue.3, pp.1193-1198, 1999. ,
DOI : 10.1074/jbc.274.3.1193
Ni-Zn-[Fe4-S4] and Ni-Ni-[Fe4-S4] clusters in closed and open ?? subunits of acetyl-CoA synthase/carbon monoxide dehydrogenase, Nature Structural Biology, vol.10, issue.4, pp.271-280, 2003. ,
DOI : 10.1038/nsb912
Isolation and characterization of the nikR gene encoding a nickel-responsive regulator in Escherichia coli, J Bacteriol, vol.181, issue.2, pp.670-674, 1999. ,
Purification and Characterization of the Periplasmic Nickel-Binding Protein NikA of Escherichia coli K12, European Journal of Biochemistry, vol.267, issue.3, pp.857-65, 1995. ,
DOI : 10.1111/j.1432-1033.1995.0857p.x
Selective transport of divalent cations by transition metal permeases: the Alcaligenes eutrophus HoxN and the Rhodococcus rhodochrous NhlF, Archives of Microbiology, vol.171, issue.3, pp.139-184, 1999. ,
DOI : 10.1007/s002030050691
Nickel essentiality, toxicity, and carcinogenicity, Critical Reviews in Oncology/Hematology, vol.42, issue.1, pp.35-56, 2002. ,
DOI : 10.1016/S1040-8428(01)00214-1
Jack bean urease (EC 3.5.1.5). Metalloenzyme. Simple biological role for nickel, Journal of the American Chemical Society, vol.97, issue.14, pp.4131-4134, 1975. ,
DOI : 10.1021/ja00847a045
Crystal Structure of a Carbon Monoxide Dehydrogenase Reveals a [Ni-4Fe-5S] Cluster, Science, vol.293, issue.5533, pp.1281-1286, 2001. ,
DOI : 10.1126/science.1061500
Microbial nickel metalloregulation: NikRs for nickel ions, Current Opinion in Chemical Biology, vol.10, issue.2, 2006. ,
DOI : 10.1016/j.cbpa.2006.02.011
Life on carbon monoxide: X-ray structure of Rhodospirillum rubrum Ni-Fe-S carbon monoxide dehydrogenase, Proceedings of the National Academy of Sciences, vol.277, issue.14, pp.98-11973, 2001. ,
DOI : 10.1016/S0076-6879(97)77027-7
Principles of protein X-Ray Crystallography ,
involved in active transport and chemotaxis, Protein Science, vol.267, issue.11, pp.2327-2361, 1995. ,
DOI : 10.1002/pro.5560041110
Genetic determinants of a nickel-specific transport system are part of the plasmid-encoded hydrogenase gene cluster in Alcaligenes eutrophus., Journal of Bacteriology, vol.171, issue.3, pp.1340-1345, 1989. ,
DOI : 10.1128/jb.171.3.1340-1345.1989
Evidence for selenocysteine coordination to the active site nickel in the [NiFeSe]hydrogenases from Desulfovibrio baculatus., Proceedings of the National Academy of Sciences, vol.86, issue.1, pp.147-51, 1989. ,
DOI : 10.1073/pnas.86.1.147
Cloning, nucleotide sequence, and heterologous expression of a high-affinity nickel transport gene from Alcaligenes eutrophus, J Biol Chem, vol.266, issue.5, pp.3222-3229, 1991. ,
Microbial nickel transport and incorporation into hydrogenases. Transition metal in microbial metabolism. G. Winkelmann and C, J. Carrano. Harwood, pp.235-256, 1997. ,
Nickel transport systems in microorganisms, Archives of Microbiology, vol.173, issue.1, pp.1-9, 2000. ,
DOI : 10.1007/s002030050001
Secondary Transporters for Nickel and Cobalt Ions: Theme and Variations, BioMetals, vol.101, issue.4, pp.399-405, 2005. ,
DOI : 10.1007/s10534-005-3714-x
A Ni2+ Binding Motif Is the Basis of High Affinity Transport of the Alcaligenes eutrophus Nickel Permease, Journal of Biological Chemistry, vol.272, issue.27, pp.17139-17183, 1997. ,
DOI : 10.1074/jbc.272.27.17139
: model-building tools for molecular graphics, Acta Crystallographica Section D Biological Crystallography, vol.60, issue.12, pp.2126-2158, 2004. ,
DOI : 10.1107/S0907444904019158
Accurate bond and angle parameters for X-ray protein structure refinement, Acta Crystallographica Section A Foundations of Crystallography, vol.47, issue.4, pp.392-400, 1991. ,
DOI : 10.1107/S0108767391001071
Crystal Structure of Methyl-Coenzyme M Reductase: The Key Enzyme of Biological Methane Formation, Science, vol.278, issue.5342, pp.1457-62, 1997. ,
DOI : 10.1126/science.278.5342.1457
Acquisition of siderophores in Gram-negative bacteria, Nature Reviews Molecular Cell Biology, vol.296, issue.2, pp.105-121, 2003. ,
DOI : 10.1038/nrm1015
Structural Basis of Gating by the Outer Membrane Transporter FecA, Science, vol.295, issue.5560, pp.1715-1724, 2002. ,
DOI : 10.1126/science.1067313
Co Dehydrogenase, Annual Review of Microbiology, vol.49, issue.1, pp.305-338, 1995. ,
DOI : 10.1146/annurev.mi.49.100195.001513
[27] Rapid colorimetric micromethod for the quantitation of complexed iron in biological samples, Methods Enzymol, vol.158, pp.357-64, 1988. ,
DOI : 10.1016/0076-6879(88)58067-9
The K-Characteristic Absorption Frequencies for the Chemical Elements Magnesium to Chromium, Physical Review, vol.16, issue.3, p.202, 1920. ,
DOI : 10.1103/PhysRev.16.202
Crystal structure of the hydrogenase maturating endopeptidase HYBD from Escherichia coli, Journal of Molecular Biology, vol.288, issue.5, pp.989-98, 1999. ,
DOI : 10.1006/jmbi.1999.2719
Bacterial genes involved in incorporation of nickel into a hydrogenase enzyme., Proceedings of the National Academy of Sciences, vol.91, issue.11, pp.91-5099, 1994. ,
DOI : 10.1073/pnas.91.11.5099
HypB protein of Bradyrhizobium japonicum is a metal-binding GTPase capable of binding 18 divalent nickel ions per dimer., Proceedings of the National Academy of Sciences, vol.92, issue.6, pp.2333-2340, 1995. ,
DOI : 10.1073/pnas.92.6.2333
Membrane Topology of the NixA Nickel Transporter of Helicobacter pylori: Two Nickel Transport-Specific Motifs within Transmembrane Helices II and III, Journal of Bacteriology, vol.182, issue.6, pp.1722-1752, 2000. ,
DOI : 10.1128/JB.182.6.1722-1730.2000
Maltose-binding protein interacts simultaneously and asymmetrically with both subunits of the Tar chemoreceptor, Molecular Microbiology, vol.23, issue.6, pp.1181-91, 1997. ,
DOI : 10.1046/j.1365-2958.1997.3001661.x
X-Ray Absorption Spectroscopy and the Structures of Transition Metal Centers in Proteins, Adv. Inorg. Chem, vol.36, pp.303-339, 1991. ,
DOI : 10.1016/S0898-8838(08)60042-2
ESPript: analysis of multiple sequence alignments in PostScript, Bioinformatics, vol.15, issue.4, pp.305-313, 1999. ,
DOI : 10.1093/bioinformatics/15.4.305
URL : https://hal.archives-ouvertes.fr/hal-00314288
On the mechanism of biological methane formation: structural evidence for conformational changes in methyl-coenzyme M reductase upon substrate binding, Journal of Molecular Biology, vol.309, issue.1, pp.315-345, 2001. ,
DOI : 10.1006/jmbi.2001.4647
Comparison of three methyl-coenzyme M reductases from phylogenetically distant organisms: unusual amino acid modification, conservation and adaptation, Journal of Molecular Biology, vol.303, issue.2, pp.329-373, 2000. ,
DOI : 10.1006/jmbi.2000.4136
Lung cancer incidence among Norwegian nickel-refinery workers 1953???2000, Journal of Environmental Monitoring, vol.5, issue.2, pp.190-197, 2003. ,
DOI : 10.1039/b211722n
Biochemistry of nickel, 1993. ,
DOI : 10.1007/978-1-4757-9435-9
Urease in Handbook of Metalloproteins, pp.867-879, 2001. ,
Hydrogen evolution by several algae, Planta, vol.89, issue.3, pp.220-226, 1970. ,
DOI : 10.1007/BF00385481
Crystal Structures of the Liganded and Unliganded Nickel-binding Protein NikA from Escherichia coli, Journal of Biological Chemistry, vol.278, issue.50, pp.50322-50331, 2003. ,
DOI : 10.1074/jbc.M307941200
Helicobacter pylori ABC transporter: effect of allelic exchange mutagenesis on urease activity., Journal of Bacteriology, vol.179, issue.18, pp.5892-902, 1997. ,
DOI : 10.1128/jb.179.18.5892-5902.1997
Direct phase determination based on anomalous scattering, Methods Enzymol, vol.115, pp.41-55, 1985. ,
DOI : 10.1016/0076-6879(85)15006-8
Dehydration Converts DsbG Crystal Diffraction from Low to High Resolution, Structure, vol.11, issue.2, pp.139-184, 2003. ,
DOI : 10.1016/S0969-2126(03)00005-4
Post-crystallization treatments for improving diffraction quality of protein crystals, Acta Crystallographica Section D Biological Crystallography, vol.61, issue.9, pp.1173-80, 2005. ,
DOI : 10.1107/S0907444905019451
Neutron And Synchrotron Radiation For Condensed Matter Studies, HERCULES Neutron And Synchrotron Radiation For Condensed Matter Studies, p.179 ,
DOI : 10.1007/978-3-662-22223-2
???ber die Absorptionsgrenzen in derL-Serie, Zeitschrift f???r Physik, vol.3, issue.1, p.19, 1920. ,
DOI : 10.1007/BF01356225
Effect of carbon and nitrogen input on the bacterial community structure of Neocaledonian nickel mine spoils, FEMS Microbiology Ecology, vol.51, issue.3, pp.333-373, 2005. ,
DOI : 10.1016/j.femsec.2004.09.008
URL : https://hal.archives-ouvertes.fr/hal-00140810
Adaptation to nickel spiking of bacterial communities in neocaledonian soils, Environmental Microbiology, vol.17, issue.1, pp.3-12, 2003. ,
DOI : 10.1016/0378-1119(85)90120-9
Nickel and the Skin, pp.1-249, 2002. ,
Etude structurale de la protéine FUR (Ferric Uptake Regulation) d'escherichia coli par spectroscopie d'absorption des rayons X: XANES et EXAFS. chimie, 1999. ,
Identification of the nik Gene Cluster of Brucella suis: Regulation and Contribution to Urease Activity, Journal of Bacteriology, vol.183, issue.2, pp.426-460, 2001. ,
DOI : 10.1128/JB.183.2.426-434.2001
Evaluation of single-crystal X-ray diffraction data from a position-sensitive detector, Journal of Applied Crystallography, vol.21, issue.6, pp.916-924, 1988. ,
DOI : 10.1107/S0021889888007903
Automatic processing of rotation diffraction data from crystals of initially unknown symmetry and cell constants, Journal of Applied Crystallography, vol.26, issue.6, pp.795-800, 1993. ,
DOI : 10.1107/S0021889893005588
Characterization of the ferrous iron uptake system of Escherichia coli., Journal of Bacteriology, vol.175, issue.19, pp.6212-6221, 1993. ,
DOI : 10.1128/jb.175.19.6212-6219.1993
Matthews coefficient probabilities: Improved estimates for unit cell contents of proteins, DNA, and protein-nucleic acid complex crystals, Protein Science, vol.2, issue.9, pp.1865-71, 2003. ,
DOI : 10.1110/ps.0350503
Nickel carcinogenesis, Mutation Research/Fundamental and Molecular Mechanisms of Mutagenesis, vol.533, issue.1-2, pp.67-97, 2003. ,
DOI : 10.1016/j.mrfmmm.2003.08.021
Transcriptional regulation of hydrogenase synthesis by nickel in Bradyrhizobium japonicum, J Biol Chem, vol.265, issue.31, pp.18729-18761, 1990. ,
Common cis-acting region responsible for transcriptional regulation of Bradyrhizobium japonicum hydrogenase by nickel, oxygen, and hydrogen., Journal of Bacteriology, vol.173, issue.13, pp.3993-4002, 1991. ,
DOI : 10.1128/jb.173.13.3993-3999.1991
The Protein Complex Composed of Nickel-binding SrnQ and DNA Binding Motif-bearing SrnR of Streptomyces griseusRepresses sodF Transcription in the Presence of Nickel, Journal of Biological Chemistry, vol.278, issue.20, pp.18455-63, 2003. ,
DOI : 10.1074/jbc.M211740200
Mechanisms of TonBcatalyzed iron transport through the enteric bacterial cell envelope, J Bioenerg Biomembr, vol.25, issue.6, pp.603-614, 1993. ,
Checking your imagination: applications of the free R value, Structure, vol.4, issue.8, pp.897-904, 1996. ,
DOI : 10.1016/S0969-2126(96)00097-4
The Arc and Mnt repressors. A new class of sequence-specific DNA-binding protein, J Biol Chem, vol.264, issue.7, pp.3639-3681, 1989. ,
ABC transporter-mediated uptake of iron, siderophores, heme and vitamin B12, Research in Microbiology, vol.152, issue.3-4, pp.291-301, 2001. ,
DOI : 10.1016/S0923-2508(01)01200-1
Zur Theorie der Feinstruktur in den R???ntgenabsorptionsspektren. III, Zeitschrift f???r Physik, vol.75, issue.7-8, p.468, 1932. ,
DOI : 10.1007/BF01342238
Hypernickelemia following coronary arteriography, caused by nickel in the radiographic contrast medium, Ann Clin Lab Sci, vol.17, issue.3, pp.137-181, 1987. ,
Nickel contamination of human serum albumin solutions, N Engl J Med, pp.313-1232, 1985. ,
Crystallization of a fragment of human fibronectin: Introduction of methionine by site-directed mutagenesis to allow phasing via selenomethionine, Proteins: Structure, Function, and Genetics, vol.30, issue.1, pp.48-54, 1994. ,
DOI : 10.1002/prot.340190107
Diversity of Superoxide-Dismutases Among Clinical and Soil Isolates of Streptomyces Species, Current Microbiology, vol.39, issue.6, pp.365-0368, 1999. ,
DOI : 10.1007/s002849900473
UreE protein: A nickel-binding protein that functions in urease metallocenter assembly, Protein Science, vol.173, issue.6, pp.1042-52, 1993. ,
DOI : 10.1002/pro.5560020617
Structural and energetic consequences of disruptive mutations in a protein core, Biochemistry, vol.31, issue.17, pp.4324-4357, 1992. ,
DOI : 10.1021/bi00132a025
O, Inorganic Chemistry, vol.3, issue.1, pp.34-43, 1964. ,
DOI : 10.1021/ic50011a007
The Escherichia coli ATP-binding cassette (ABC) proteins, Molecular Microbiology, vol.28, issue.1, pp.5-13, 1998. ,
DOI : 10.1038/34669
Structure and mechanism of ABC transporters, Current Opinion in Structural Biology, vol.14, issue.4, pp.426-431, 2004. ,
DOI : 10.1016/j.sbi.2004.06.005
-Forming Methylenetetrahydromethanopterin Dehydrogenase As Revealed by Infrared Spectroscopy, Journal of the American Chemical Society, vol.126, issue.43, pp.14239-14287, 2004. ,
DOI : 10.1021/ja046818s
URL : https://hal.archives-ouvertes.fr/medihal-00506668
[9] Applications of network BLAST server, Methods Enzymol, vol.266, pp.131-172, 1996. ,
DOI : 10.1016/S0076-6879(96)66011-X
taking place after nickel incorporation, FEBS Letters, vol.248, issue.2, pp.254-258, 2000. ,
DOI : 10.1016/S0014-5793(00)01542-8
Use of molecular hydrogen as an energy substrate by human pathogenic bacteria: Table 1, Biochemical Society Transactions, vol.33, issue.1, pp.83-88, 2005. ,
DOI : 10.1042/BST0330083
The product of the hypB gene, which is required for nickel incorporation into hydrogenases, is a novel guanine nucleotide-binding protein., Journal of Bacteriology, vol.175, issue.3, pp.630-635, 1993. ,
DOI : 10.1128/jb.175.3.630-635.1993
GTP Hydrolysis by HypB is Essential for Nickel Insertion into Hydrogenases of Escherichia Coli, European Journal of Biochemistry, vol.174, issue.1, pp.133-141, 1995. ,
DOI : 10.1016/0968-0004(91)90156-P
Structure/function relationships in nickel metallobiochemistry, Current Opinion in Chemical Biology, vol.3, issue.2, pp.188-99, 1999. ,
DOI : 10.1016/S1367-5931(99)80032-5
An Algorithm for Least-Squares Estimation of Nonlinear Parameters, Journal of the Society for Industrial and Applied Mathematics, vol.11, issue.2, pp.431-441, 1963. ,
DOI : 10.1137/0111030
Evaluation of the carcinogenic risks to humans associated with surgical implants and other foreign bodies ??? a report of an IARC Monographs Programme Meeting, European Journal of Cancer, vol.36, issue.3, pp.307-320, 2000. ,
DOI : 10.1016/S0959-8049(99)00312-3
The science of macromolecular crystallization, Structure, vol.3, issue.8, pp.759-68, 1995. ,
DOI : 10.1016/S0969-2126(01)00211-8
Water exchange of the (o-phenylenediamine-N,N,N',N'-tetraacetato)ferrate(III) complex in aqueous solution as studied by variable-temperature, -pressure, and -frequency oxygen-17 NMR techniques, Inorganic Chemistry, vol.30, issue.7, pp.1550-1553, 1991. ,
DOI : 10.1021/ic00007a023
The role of Helicobacter pylori urease in the pathogenesis of gastritis and peptic ulceration., Alimentary Pharmacology & Therapeutics, vol.10, issue.Sup1, pp.57-64, 1996. ,
DOI : 10.1046/j.1365-2036.1996.22164006.x
Helicobacter pylori nickel-transport gene nixA: synthesis of catalytically active urease in Escherichia coli independent of growth conditions, Molecular Microbiology, vol.161, issue.1, pp.97-109, 1995. ,
DOI : 10.1016/0014-5793(91)80565-K
Microbial ureases: significance, regulation, and molecular characterization, Microbiol Rev, vol.53, issue.1, pp.85-108, 1989. ,
Molecular biology of microbial ureases, Microbiol Rev, vol.59, issue.3, pp.451-80, 1995. ,
TonB-dependent iron acquisition: mechanisms of siderophore-mediated active transport???, Molecular Microbiology, vol.179, issue.4, pp.675-81, 1998. ,
DOI : 10.1046/j.1365-2958.1998.00817.x
Characterization of UreG, identification of a UreD-UreF-UreG complex, and evidence suggesting that a nucleotide-binding site in UreG is required for in vivo metallocenter assembly of Klebsiella aerogenes urease., Journal of Bacteriology, vol.179, issue.13, pp.4081-4087, 1997. ,
DOI : 10.1128/jb.179.13.4081-4086.1997
FhuF, an iron-regulated protein of Escherichia coli with a new type of [2Fe-2S] center, European Journal of Biochemistry, vol.258, issue.3, pp.1001-1009, 1998. ,
DOI : 10.1046/j.1432-1327.1998.2581001.x
Nickel uptake and utilization by microorganisms, FEMS Microbiology Reviews, vol.27, issue.2-3, pp.239-61, 2003. ,
DOI : 10.1016/S0168-6445(03)00042-1
Refinement of Macromolecular Structures by the Maximum-Likelihood Method, Acta Crystallographica Section D Biological Crystallography, vol.53, issue.3, pp.240-55, 1997. ,
DOI : 10.1107/S0907444996012255
The nik operon of Escherichia coli encodes a periplasmic binding-protein-dependent transport system for nickel, Molecular Microbiology, vol.3, issue.6, pp.1181-91, 1993. ,
DOI : 10.1016/0378-1119(85)90120-9
: an automated package for molecular replacement, Acta Crystallographica Section A Foundations of Crystallography, vol.50, issue.2, pp.157-163, 1994. ,
DOI : 10.1107/S0108767393007597
Handbook on the Toxicology of Metals, pp.541-553, 1979. ,
Evidence for the presence of urease apoprotein complexes containing UreD, UreF, and UreG in cells that are competent for in vivo enzyme activation., Journal of Bacteriology, vol.177, issue.8, pp.1947-51, 1995. ,
DOI : 10.1128/jb.177.8.1947-1951.1995
Genetic Characterization of DNA Region Containing the trh and ure Genes of Vibrio parahaemolyticus, Infection and Immunity, vol.68, issue.10, pp.5742-5750, 2000. ,
DOI : 10.1128/IAI.68.10.5742-5748.2000
Structure of the outer membrane protein A transmembrane domain, Nature Structural Biology, vol.276, issue.11, pp.1013-1020, 1998. ,
DOI : 10.1016/S0076-6879(97)77028-9
Bactéries et environement, adaptations physiologiques, 1993. ,
Modeling and experiment yields the structure of acireductone dioxygenase from Klebsiella pneumoniae, Nature Structural Biology, vol.9, issue.12, pp.966-72, 2002. ,
DOI : 10.1038/nsb863
TonB protein and energy transduction between membranes, J Bioenerg Biomembr, vol.25, issue.6, pp.591-601, 1993. ,
Stereochemical Criteria for Polypeptide and Protein Chain Conformations, Biophysical Journal, vol.5, issue.6, pp.909-942, 1965. ,
DOI : 10.1016/S0006-3495(65)86759-5
Pushing the boundaries of molecular replacement with maximum likelihood, Acta Crystallographica Section D Biological Crystallography, vol.57, issue.10, pp.1373-82, 2001. ,
DOI : 10.1107/S0907444901012471
Comparative and Functional Genomic Analysis of Prokaryotic Nickel and Cobalt Uptake Transporters: Evidence for a Novel Group of ATP-Binding Cassette Transporters, Journal of Bacteriology, vol.188, issue.1, pp.317-344, 2006. ,
DOI : 10.1128/JB.188.1.317-327.2006
Involvement of the GroE chaperonins in the nickel-dependent anaerobic biosynthesis of NiFe-hydrogenases of Escherichia coli., Journal of Bacteriology, vol.178, issue.15, pp.4453-60, 1996. ,
DOI : 10.1128/jb.178.15.4453-4460.1996
Identification of rcnA (yohM), a Nickel and Cobalt Resistance Gene in Escherichia coli, Journal of Bacteriology, vol.187, issue.8, pp.2912-2918, 2005. ,
DOI : 10.1128/JB.187.8.2912-2916.2005
The detection of sub-units within the crystallographic asymmetric unit, Acta Crystallographica, vol.15, issue.1, pp.24-31, 1962. ,
DOI : 10.1107/S0365110X62000067
Turbo-Frodo, Silicon Graphics, vol.77, 1989. ,
Complex Transcriptional Control Links NikABCDE-Dependent Nickel Transport with Hydrogenase Expression in Escherichia coli, Journal of Bacteriology, vol.187, issue.18, pp.6317-6340, 2005. ,
DOI : 10.1128/JB.187.18.6317-6323.2005
A fluorescence-based sensing system for the environmental monitoring of nickel using the nickel binding protein from Escherichia coli, Analytical and Bioanalytical Chemistry, vol.372, issue.1, pp.174-80, 2002. ,
DOI : 10.1007/s00216-001-1169-7
Point scattering therory of x-ray absorption fine structure, Adv. X-ray Anal, vol.13, pp.248-271, 1970. ,
New Technique for Investigating Noncrystalline Structures: Fourier Analysis of the Extended X-Ray???Absorption Fine Structure, Physical Review Letters, vol.27, issue.18, pp.1204-1207, 1971. ,
DOI : 10.1103/PhysRevLett.27.1204
Recognition of iron-free siderophores by TonB-dependent iron transporters, Molecular Microbiology, vol.332, issue.1, pp.14-22, 2004. ,
DOI : 10.1111/j.1365-2958.2004.04241.x
URL : https://hal.archives-ouvertes.fr/hal-00174670
Crystal structure of the nickel-responsive transcription factor NikR, Nature Structural Biology, vol.10, issue.10, pp.794-803, 2003. ,
DOI : 10.1038/nsb985
[23] Measurement of metal-ligand distances by EXAFS, Methods Enzymol, vol.117, pp.414-459, 1988. ,
DOI : 10.1016/S0076-6879(85)17025-4
Genes Encoding Specific Nickel Transport Systems Flank the Chromosomal Urease Locus of Pathogenic Yersiniae, Journal of Bacteriology, vol.184, issue.20, pp.5706-5719, 2002. ,
DOI : 10.1128/JB.184.20.5706-5713.2002
Oxidation of selenomethionine: some MADness in the method!, Acta Crystallographica Section D Biological Crystallography, vol.56, issue.6, pp.785-793, 2000. ,
DOI : 10.1107/S090744490000370X
Determination of the iron-sulfur distances in rubredoxin by x-ray absorption spectroscopy., Proceedings of the National Academy of Sciences, vol.72, issue.10, pp.72-4003, 1975. ,
DOI : 10.1073/pnas.72.10.4003
BACTERIAL HEAVY METAL RESISTANCE: New Surprises, Annual Review of Microbiology, vol.50, issue.1, pp.753-89, 1996. ,
DOI : 10.1146/annurev.micro.50.1.753
Regulation of the Hydrogenase-4 Operon of Escherichia coli by the ??54-Dependent Transcriptional Activators FhlA and HyfR, Journal of Bacteriology, vol.184, issue.23, pp.6642-53, 2002. ,
DOI : 10.1128/JB.184.23.6642-6653.2002
Magnesium transport in Salmonella typhimurium. Regulation of mgtA and mgtB expression, J Biol Chem, vol.266, issue.2, pp.824-833, 1991. ,
Hydrogenase: a bacterial enzyme activating molecular hydrogen, Biochemical Journal, vol.25, issue.1, pp.205-214, 1931. ,
DOI : 10.1042/bj0250205
Elements and their Compounds in the Environment - Occurrence, Analysis and Biological Relevance, 2004. ,
The structure of jack bean urease. The complete amino acid sequence, limited proteolysis and reactive cysteine residues, European Journal of Biochemistry, vol.95, issue.1, pp.151-65, 1988. ,
DOI : 10.1146/annurev.bi.43.070174.002355
The structural basis of sequence-independent peptide binding by OppA protein, Science, vol.264, issue.5165, pp.1578-81, 1994. ,
DOI : 10.1126/science.8202710
Ratio. I. Derivation of Expected Values of Cross-Validation Residuals Used in Macromolecular Least-Squares Refinement, Acta Crystallographica Section D Biological Crystallography, vol.54, issue.4, pp.547-57, 1998. ,
DOI : 10.1107/S0907444997013875
Alternative respiratory pathways of Escherichia coli: energetics and transcriptional regulation in response to electron acceptors, Biochimica et Biophysica Acta (BBA) - Bioenergetics, vol.1320, issue.3, pp.217-251, 1997. ,
DOI : 10.1016/S0005-2728(97)00034-0
Purification and properties, FEBS Letters, vol.245, issue.1, pp.122-128, 1978. ,
DOI : 10.1016/0014-5793(78)80112-4
NikR-mediated regulation of Helicobacter pylori acid adaptation, Trends in Microbiology, vol.12, issue.11, pp.489-94, 2004. ,
DOI : 10.1016/j.tim.2004.09.005
Acid-Responsive Gene Induction of Ammonia-Producing Enzymes in Helicobacter pylori Is Mediated via a Metal-Responsive Repressor Cascade, Infection and Immunity, vol.72, issue.2, pp.766-73, 2004. ,
DOI : 10.1128/IAI.72.2.766-773.2004
NikR Mediates Nickel-Responsive Transcriptional Induction of Urease Expression in Helicobacter pylori, Infection and Immunity, vol.70, issue.6, pp.2846-52, 2002. ,
DOI : 10.1128/IAI.70.6.2846-2852.2002
Iron acquisition and virulence in Helicobacter pylori: a major role for FeoB, a high-affinity ferrous iron transporter, Molecular Microbiology, vol.180, issue.2, pp.274-86, 2000. ,
DOI : 10.1016/0378-1097(96)00333-3
A method to stabilize reduced and/or gas-treated protein crystals by flash-cooling under a controlled atmosphere, Journal of Applied Crystallography, vol.32, issue.3, pp.505-509, 1999. ,
DOI : 10.1107/S0021889899002678
Characterization of the Hydrogen-Deuterium Exchange Activities of the Energy-Transducing HupSL Hydrogenase and H2-Signaling HupUV Hydrogenase in Rhodobacter capsulatus, Journal of Bacteriology, vol.182, issue.21, pp.5997-6004, 2000. ,
DOI : 10.1128/JB.182.21.5997-6004.2000
Crystal structure of the nickel???iron hydrogenase from Desulfovibrio
gigas, Nature, vol.373, issue.6515, pp.580-587, 1995. ,
DOI : 10.1038/373580a0
Novel metal sites in protein structures, Current Opinion in Structural Biology, vol.6, issue.6, pp.804-816, 1996. ,
DOI : 10.1016/S0959-440X(96)80011-X
Tris(acetato)bis(N,N,N',N'-tetramethylethylenediamine)(urea)dinickel(1+) triflate and [Ni(OAc)(urea)2(tmen)](OTf), model complexes for the enzyme urease, Inorganic Chemistry, vol.32, issue.23, pp.4985-4987, 1993. ,
DOI : 10.1021/ic00075a001
LIGPLOT: a program to generate schematic diagrams of protein-ligand interactions, "Protein Engineering, Design and Selection", vol.8, issue.2, pp.127-161, 1995. ,
DOI : 10.1093/protein/8.2.127
Bacterial Iron Sources: From Siderophores to Hemophores, Annual Review of Microbiology, vol.58, issue.1, pp.611-658, 2004. ,
DOI : 10.1146/annurev.micro.58.030603.123811
Resolution of phase ambiguity in macromolecular crystallography, Methods Enzymol, vol.115, pp.90-112, 1985. ,
DOI : 10.1016/0076-6879(85)15009-3
Microbial Transport Systems, 2001. ,
DOI : 10.1002/3527600728
Crystallization and drystal data for monellin, Proc. Nat. Acad. Sc, pp.398-399, 1975. ,
The Alcaligenes eutrophus protein HoxN mediates nickel transport in Escherichia coli., Journal of Bacteriology, vol.177, issue.7, pp.1840-1843, 1995. ,
DOI : 10.1128/jb.177.7.1840-1843.1995
Genetic and physiological characterization of new Escherichia coli mutants impaired in hydrogenase activity, Biochimie, vol.68, issue.1, pp.167-79, 1986. ,
DOI : 10.1016/S0300-9084(86)81081-1
A family of homologous substrate-binding proteins with a broad range of substrate specificity and dissimilar biological functions, Biochimie, vol.77, issue.9, pp.744-50, 1995. ,
DOI : 10.1016/0300-9084(96)88192-2
Nickel deficiency gives rise to the defective hydrogenase phenotype of hydc and fnr mutants in Escherichia coli, Molecular Microbiology, vol.84, issue.12, pp.1709-1727, 1989. ,
DOI : 10.1007/BF00408370
The hydC region contains a multi-cistronic operon (nik) involved in nickel transport in Escherichia coli, Gene, vol.107, issue.1, pp.37-42, 1991. ,
Crystal structure of nickel-containing superoxide dismutase reveals another type of active site, Proceedings of the National Academy of Sciences, vol.215, issue.3, pp.8569-74, 2004. ,
DOI : 10.1006/jmbi.1990.9999
[22] Detecting and overcoming crystal twinning, Methods Enzymol, vol.276, pp.344-58, 1997. ,
DOI : 10.1016/S0076-6879(97)76068-3
A novel nickelcontaining superoxide dismutase from Streptomyces spp, Biochem J, pp.318-889, 1996. ,
Unique Isozymes of Superoxide Dismutase inStreptomyces griseus, Archives of Biochemistry and Biophysics, vol.334, issue.2, pp.341-349, 1996. ,
DOI : 10.1006/abbi.1996.0463
Multiple-scattering calculations of x-ray-absorption spectra, Physical Review B, vol.52, issue.4, pp.2995-3009, 1995. ,
DOI : 10.1103/PhysRevB.52.2995
Metal Ligand Aromatic Cation????? Interactions in Metalloproteins: Ligands Coordinated to Metal Interact with Aromatic Residues, Chemistry, vol.6, issue.21, pp.3935-3977, 2000. ,
DOI : 10.1002/1521-3765(20001103)6:21<3935::AID-CHEM3935>3.0.CO;2-J
The use of Sayre's equation with solvent flattening and histogram matching for phase extension and refinement of protein structures, Acta Crystallographica Section A Foundations of Crystallography, vol.46, issue.5, pp.377-381, 1990. ,
DOI : 10.1107/S0108767389012158