N. Tuteja and R. Tuteja, Unraveling DNA helicases. Motif, structure, mechanism and function, European Journal of Biochemistry, vol.13, issue.10, p.15128295, 2004.
DOI : 10.1046/j.1365-313x.2001.00918.x

N. Tuteja and R. Tuteja, Prokaryotic and eukaryotic DNA helicases. Essential molecular motor proteins for cellular machinery, European Journal of Biochemistry, vol.115, issue.10, pp.1835-1848, 2004.
DOI : 10.1073/pnas.0308717101

A. Gorbalenya and E. Koonin, Helicases: amino acid sequence comparisons and structure-function relationships, Current Opinion in Structural Biology, vol.3, issue.3, pp.419-42910, 1993.
DOI : 10.1016/S0959-440X(05)80116-2

M. Singleton, M. Dillingham, and D. Wigley, Structure and Mechanism of Helicases and Nucleic Acid Translocases, Annual Review of Biochemistry, vol.76, issue.1, 2007.
DOI : 10.1146/annurev.biochem.76.052305.115300

C. Bruand and S. Ehrlich, UvrD-dependent replication of rollingcircle plasmids in Escherichia coli, Mol Microbiol, vol.35, 2000.

H. Arthur and R. Lloyd, Hyper-recombination in uvrD mutants of Escherichia coli K-12, MGG Molecular & General Genetics, vol.25, issue.1, pp.185-191, 1980.
DOI : 10.1007/BF00267368

E. Bentchikou, P. Servant, G. Coste, and S. Sommer, A Major Role of the RecFOR Pathway in DNA Double-Strand-Break Repair through ESDSA in Deinococcus radiodurans, PLoS Genetics, vol.184, issue.1, p.1000774, 2010.
DOI : 10.1371/journal.pgen.1000774.s004

URL : https://hal.archives-ouvertes.fr/hal-00506306

X. Veaute, S. Delmas, M. Selva, J. Jeusset, L. Cam et al., UvrD helicase, unlike Rep helicase, dismantles RecA nucleoprotein filaments in Escherichia coli, The EMBO Journal, vol.134, issue.1, 2005.
DOI : 10.1016/0378-1119(86)90286-6

URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC544901

S. Matson and A. Robertson, The UvrD helicase and its modulation by the mismatch repair protein MutL, Nucleic Acids Research, vol.34, issue.15, pp.4089-4097, 2006.
DOI : 10.1093/nar/gkl450

P. Caron, S. Kushner, and L. Grossman, Involvement of helicase II (uvrD gene product) and DNA polymerase I in excision mediated by the uvrABC protein complex., Proceedings of the National Academy of Sciences, vol.82, issue.15, pp.4925-4929, 1985.
DOI : 10.1073/pnas.82.15.4925

N. Maluf, J. Ali, and T. Lohman, Kinetic Mechanism for Formation of the Active, Dimeric UvrD Helicase-DNA Complex, Journal of Biological Chemistry, vol.278, issue.34, 2003.
DOI : 10.1074/jbc.M304223200

N. Maluf, C. Fischer, and T. Lohman, A Dimer of Escherichia coli UvrD is the Active Form of the Helicase In Vitro, Journal of Molecular Biology, vol.325, issue.5, pp.913-93510, 2003.
DOI : 10.1016/S0022-2836(02)01277-9

A. Niedziela-majka, M. Chesnik, E. Tomko, and T. Lohman, Bacillus stearothermophilus PcrA Monomer Is a Single-stranded DNA Translocase but Not a Processive Helicase in Vitro, Journal of Biological Chemistry, vol.282, issue.37, pp.27076-27085, 2007.
DOI : 10.1074/jbc.M704399200

B. Sun, K. Wei, B. Zhang, X. Zhang, and S. Dou, Impediment of E. coli UvrD by DNA-destabilizing force reveals a strained-inchworm mechanism of DNA unwinding, The EMBO Journal, vol.281, issue.24, 2008.
DOI : 10.1038/emboj.2008.240

H. Yokota, Y. Chujo, and Y. Harada, Single-Molecule Imaging of the Oligomer Formation of the Nonhexameric Escherichia coli UvrD Helicase, Biophysical Journal, vol.104, issue.4, pp.924-933, 2013.
DOI : 10.1016/j.bpj.2013.01.014

H. Subramanya, L. Bird, J. Brannigan, and D. Wigley, Crystal structure of a DExx box DNA helicase, Nature, vol.384, issue.6607, 1996.
DOI : 10.1038/384379a0

S. Korolev, J. Hsieh, G. Gauss, T. Lohman, and G. Waksman, Major Domain Swiveling Revealed by the Crystal Structures of Complexes of E. coli Rep Helicase Bound to Single-Stranded DNA and ADP, Cell, vol.90, issue.4, pp.635-64710, 1997.
DOI : 10.1016/S0092-8674(00)80525-5

S. Velankar, P. Soultanas, M. Dillingham, H. Subramanya, and D. Wigley, Crystal Structures of Complexes of PcrA DNA Helicase with a DNA Substrate Indicate an Inchworm Mechanism, Cell, vol.97, issue.1, pp.75-84, 1999.
DOI : 10.1016/S0092-8674(00)80716-3

J. Lee and Y. W. , UvrD Helicase Unwinds DNA One Base Pair at a Time by a Two-Part Power Stroke, Cell, vol.127, issue.7, pp.1349-1360, 2006.
DOI : 10.1016/j.cell.2006.10.049

W. Yang, Lessons Learned from UvrD Helicase: Mechanism for Directional Movement, Annual Review of Biophysics, vol.39, issue.1, pp.367-385, 2010.
DOI : 10.1146/annurev.biophys.093008.131415

A. Leslie, Recent changes to the MOSFLM package for processing film and image plate data, Joint CCP4 and ESF-EACMB Newsletter on Protein Crystallography, 1992.

R. Keegan and M. Winn, Automated search-model discovery and preparation for structure solution by molecular replacement, Acta Crystallographica Section D Biological Crystallography, vol.63, issue.4, pp.447-457, 2007.
DOI : 10.1107/S0907444907002661

P. Emsley and K. Cowtan, : model-building tools for molecular graphics, Acta Crystallographica Section D Biological Crystallography, vol.60, issue.12, pp.2004-2132, 2004.
DOI : 10.1107/S0907444904019158

A. Mccoy, R. Grosse-kunstleve, P. Adams, M. Winn, and L. Storoni, crystallographic software, Journal of Applied Crystallography, vol.40, issue.4, pp.658-674, 2007.
DOI : 10.1107/S0021889807021206

G. Murshudov, A. Vagin, A. Lebedev, K. Wilson, and E. Dodson, Efficient anisotropic refinement of macromolecular structures using FFT, Acta Crystallographica Section D Biological Crystallography, vol.55, issue.1, pp.247-255, 1999.
DOI : 10.1107/S090744499801405X

P. Afonine, R. Grosse-kunstleve, and P. Adams, The Phenix refinement framework, CCP4. Newsletter, vol.42, 2005.

W. Delano, The PyMOL Molecular Graphics System, 2002.

E. Pettersen, T. Goddard, C. Huang, G. Couch, and D. Greenblatt, UCSF Chimera?A visualization system for exploratory research and analysis, Journal of Computational Chemistry, vol.373, issue.13, p.15264254, 2004.
DOI : 10.1002/jcc.20084

J. Panuska and D. Goldthwait, A DNA-dependent ATPase from T4-infected Escherichia coli. Purif PropertieS A 63: 000-dalton enzyme and its conversion to a 22,000-dalton form, J Biol Chem, vol.255, pp.5208-5214, 1980.

Y. Wu, J. Sommers, A. Suhasini, M. Aggarwal, and R. Brosh, Molecular analyses of DNA helicases involved in the replicational stress response, Methods, vol.51, issue.3, pp.303-312, 2010.
DOI : 10.1016/j.ymeth.2010.02.021

P. Morris, A. Tackett, and K. Raney, Biotin-Streptavidin-Labeled Oligonucleotides as Probes of Helicase Mechanisms, Methods, vol.23, issue.2, pp.149-159, 2001.
DOI : 10.1006/meth.2000.1116

V. Licata and A. Wowor, Applications of Fluorescence Anisotropy to the Study of Protein???DNA Interactions, Methods Cell Biol, vol.84, pp.243-26284009, 2008.
DOI : 10.1016/S0091-679X(07)84009-X

L. Manelyte, C. Guy, R. Smith, M. Dillingham, and P. Mcglynn, The unstructured C-terminal extension of UvrD interacts with UvrB, but is dispensable for nucleotide excision repair, DNA Repair, vol.8, issue.11, 2009.
DOI : 10.1016/j.dnarep.2009.08.005

S. Kumar, H. Wolfson, and R. Nussinov, Protein flexibility and electrostatic interactions, IBM Journal of Research and Development, vol.45, issue.3.4, pp.499-512, 2001.
DOI : 10.1147/rd.453.0499

C. Pace, H. Fu, K. Fryar, J. Landua, and S. Trevino, Contribution of Hydrophobic Interactions to Protein Stability, Journal of Molecular Biology, vol.408, issue.3, pp.514-528, 2011.
DOI : 10.1016/j.jmb.2011.02.053

R. Sabarinathan, K. Aishwarya, R. Sarani, M. Vaishnavi, and K. Sekar, Water-mediated ionic interactions in protein structures, Journal of Biosciences, vol.104, issue.5, pp.253-263, 2011.
DOI : 10.1007/s12038-011-9067-4

S. Matson and J. George, DNA helicase II of Escherichia coli. Characterization of the single-stranded DNA-dependent NTPase and helicase activities, J Biol Chem, vol.262, pp.2066-2076, 1987.

W. Zhang, M. Dillingham, C. Thomas, S. Allen, and C. Roberts, Directional Loading and Stimulation of PcrA Helicase by the Replication Initiator Protein RepD, Journal of Molecular Biology, vol.371, issue.2, pp.336-348, 2007.
DOI : 10.1016/j.jmb.2007.05.050

M. Unciuleac and S. Shuman, Double Strand Break Unwinding and Resection by the Mycobacterial Helicase-Nuclease AdnAB in the Presence of Single Strand DNA-binding Protein (SSB), Journal of Biological Chemistry, vol.285, issue.45, p.20736178, 2010.
DOI : 10.1074/jbc.M110.162925

A. Suhasini and R. Brosh, Mechanistic and biological aspects of helicase action on damaged DNA, Cell Cycle, vol.9, issue.12, pp.2317-2329, 2010.
DOI : 10.4161/cc.9.12.11902

A. Suhasini, J. Sommers, A. Mason, O. Voloshin, and R. Camerini-otero, FANCJ Helicase Uniquely Senses Oxidative Base Damage in Either Strand of Duplex DNA and Is Stimulated by Replication Protein A to Unwind the Damaged DNA Substrate in a Strand-specific Manner, Journal of Biological Chemistry, vol.284, issue.27, pp.18458-18470, 2009.
DOI : 10.1074/jbc.M109.012229

M. Amaratunga and T. Lohman, Escherichia coli Rep helicase unwinds DNA by an active mechanism, Biochemistry, vol.32, issue.27, pp.6815-6820, 1993.
DOI : 10.1021/bi00078a003

C. Fischer, N. Maluf, and T. Lohman, Mechanism of ATP-dependent Translocation of E.coli UvrD Monomers Along Single-stranded DNA, Journal of Molecular Biology, vol.344, issue.5, pp.1287-1309, 2004.
DOI : 10.1016/j.jmb.2004.10.005

E. Tomko, C. Fischer, and T. Lohman, Single-Stranded DNA Translocation of E. coli UvrD Monomer Is Tightly Coupled to ATP Hydrolysis, Journal of Molecular Biology, vol.418, issue.1-2, pp.32-46, 2012.
DOI : 10.1016/j.jmb.2012.02.013

E. Tomko, H. Jia, J. Park, N. Maluf, and T. Ha, 5???-Single-stranded/duplex DNA junctions are loading sites for E. coli UvrD translocase, The EMBO Journal, vol.134, issue.22, p.20877334, 2010.
DOI : 10.1093/nar/gkm1174

URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2989100

R. Collins and T. Mccarthy, Purification and characterization of Thermus thermophilus UvrD, Extremophiles, vol.7, pp.35-41, 2003.

T. Lohman, K. Chao, J. Green, S. Sage, and G. Runyon, Largescale purification and characterization of the Escherichia coli rep gene product, J Biol Chem, vol.264, pp.10139-10147, 1989.

L. An, W. Tang, T. Ranalli, H. Kim, and J. Wytiaz, Characterization of a Thermostable UvrD Helicase and Its Participation in Helicase-dependent Amplification, Journal of Biological Chemistry, vol.280, issue.32, p.15955821, 2005.
DOI : 10.1074/jbc.M503096200

S. Anand and S. Khan, Structure-specific DNA binding and bipolar helicase activities of PcrA, Nucleic Acids Research, vol.32, issue.10, pp.3190-3197, 2004.
DOI : 10.1093/nar/gkh641

T. Chang, A. Naqvi, S. Anand, M. Kramer, and R. Munshi, Biochemical Characterization of the Staphylococcus aureus PcrA Helicase and Its Role in Plasmid Rolling Circle Replication, Journal of Biological Chemistry, vol.277, issue.48, pp.45880-45886, 2002.
DOI : 10.1074/jbc.M207383200

F. Constantinesco, P. Forterre, E. Koonin, L. Aravind, and C. Elie, A bipolar DNA helicase gene, herA, clusters with rad50, mre11 and nurA genes in thermophilic archaea, Nucleic Acids Research, vol.32, issue.4, pp.1439-1447, 2004.
DOI : 10.1093/nar/gkh283

A. Naqvi, E. Tinsley, and S. Khan, Purification and Characterization of the PcrA Helicase of Bacillus anthracis, Journal of Bacteriology, vol.185, issue.22, pp.6633-6639, 2003.
DOI : 10.1128/JB.185.22.6633-6639.2003

P. Soultanas, M. Dillingham, F. Papadopoulos, S. Phillips, and C. Thomas, Plasmid replication initiator protein RepD increases the processivity of PcrA DNA helicase, Nucleic Acids Research, vol.27, issue.6, 1999.
DOI : 10.1093/nar/27.6.1421

J. Atkinson, C. Guy, C. Cadman, G. Moolenaar, and N. Goosen, Stimulation of UvrD Helicase by UvrAB, Journal of Biological Chemistry, vol.284, issue.14, 2009.
DOI : 10.1074/jbc.M808030200

G. Zhang, E. Deng, L. Baugh, and S. Kushner, Identification and characterization of Escherichia coli DNA helicase II mutants that exhibit increased unwinding efficiency, J Bacteriol, vol.180, pp.377-387, 1998.

W. Cheng, K. Brendza, G. Gauss, S. Korolev, and G. Waksman, The 2B domain of the Escherichia coli Rep protein is not required for DNA helicase activity, Proceedings of the National Academy of Sciences, vol.99, issue.25, pp.16006-16011, 2002.
DOI : 10.1073/pnas.242479399

H. Jia, S. Korolev, A. Niedziela-majka, N. Maluf, and G. Gauss, Rotations of the 2B Sub-domain of E. coli UvrD Helicase/Translocase Coupled to Nucleotide and DNA Binding, Journal of Molecular Biology, vol.411, issue.3, p.21704638, 2011.
DOI : 10.1016/j.jmb.2011.06.019

Z. Cao and D. Julin, Characterization in vitro and in vivo of the DNA helicase encoded by Deinococcus radiodurans locus DR1572, DNA Repair, vol.8, issue.5, pp.612-619, 2009.
DOI : 10.1016/j.dnarep.2008.12.011

M. Dillingham, Superfamily I helicases as modular components of DNA-processing machines, Biochemical Society Transactions, vol.215, issue.2, pp.413-423, 2011.
DOI : 10.1093/bioinformatics/btm076