S. F. Altschul and T. L. Madden, Gapped BLAST and PSI-BLAST: a new generation of protein database search programs, Nucleic Acids Research, vol.25, issue.17, pp.3389-402, 1997.
DOI : 10.1093/nar/25.17.3389

A. Andreeva and D. Howorth, Data growth and its impact on the SCOP database: new developments, Nucleic Acids Research, vol.36, issue.Database, pp.419-444, 2008.
DOI : 10.1093/nar/gkm993

A. Bairoch, Prosite: a dictionary of sites and patterns in proteins, Nucleic Acids Research, vol.19, issue.suppl, pp.2241-2246, 1991.
DOI : 10.1093/nar/19.suppl.2241

M. Baroni and G. Cruciani, A Common Reference Framework for Analyzing/Comparing Proteins and Ligands. Fingerprints for Ligands And Proteins (FLAP):?? Theory and Application, Journal of Chemical Information and Modeling, vol.47, issue.2, pp.279-94, 2007.
DOI : 10.1021/ci600253e

G. J. Bartlett and C. T. Porter, Analysis of Catalytic Residues in Enzyme Active Sites, Journal of Molecular Biology, vol.324, issue.1, pp.105-126, 2002.
DOI : 10.1016/S0022-2836(02)01036-7

S. Bellon and J. D. Parsons, Crystal Structures of Escherichia coli Topoisomerase IV ParE Subunit (24 and 43 Kilodaltons): a Single Residue Dictates Differences in Novobiocin Potency against Topoisomerase IV and DNA Gyrase, Antimicrobial Agents and Chemotherapy, vol.48, issue.5, pp.1856-64, 2004.
DOI : 10.1128/AAC.48.5.1856-1864.2004

P. G. Besant and M. V. Lasker, Inhibition of Branched-Chain alpha -Keto Acid Dehydrogenase Kinase and Sln1 Yeast Histidine Kinase by the Antifungal Antibiotic Radicicol, Molecular Pharmacology, vol.62, issue.2, pp.289-96, 2002.
DOI : 10.1124/mol.62.2.289

D. P. Brown and N. Krishnamurthy, Automated Protein Subfamily Identification and Classification, PLoS Computational Biology, vol.32, issue.8, p.160, 2007.
DOI : 10.1371/journal.pcbi.0030160.sd006

URL : http://doi.org/10.1371/journal.pcbi.0030160

M. Brylinski and K. Prymula, Prediction of Functional Sites Based on the Fuzzy Oil Drop Model, PLoS Computational Biology, vol.3, issue.5, p.94, 2007.
DOI : 10.1371/journal.pcbi.0030094.sg010

K. D. Corbett and J. M. Berger, Structural basis for topoisomerase VI inhibition by the anti-Hsp90 drug radicicol, Nucleic Acids Research, vol.34, issue.15, pp.4269-77, 2006.
DOI : 10.1093/nar/gkl567

B. H. Dessailly and M. F. Lensink, Relating destabilizing regions to known functional sites in proteins, BMC Bioinformatics, vol.8, issue.1, p.141, 2007.
DOI : 10.1186/1471-2105-8-141

O. Doppelt and F. Moriaud, Functional annotation strategy for protein structures, Bioinformation, vol.1, issue.9, pp.357-366, 2007.
DOI : 10.6026/97320630001357

URL : https://hal.archives-ouvertes.fr/inserm-00143366

A. J. Enright and C. A. Ouzounis, BioLayout--an automatic graph layout algorithm for similarity visualization, Bioinformatics, vol.17, issue.9, pp.853-857, 2001.
DOI : 10.1093/bioinformatics/17.9.853

URL : http://bioinformatics.oxfordjournals.org/cgi/content/short/17/9/853

F. Ferre and G. Ausiello, Functional annotation by identification of local surface similarities: a novel tool for structural genomics, BMC Bioinformatics, vol.6, issue.1, p.194, 2005.
DOI : 10.1186/1471-2105-6-194

B. G. Fox and C. Goulding, Structural genomics: from genes to structures with valuable materials and many questions in between, Nature Methods, vol.34, issue.2, pp.129-161, 2008.
DOI : 10.1038/nmeth0208-129

M. P. Goetz and D. O. Toft, The Hsp90 chaperone complex as a novel target for cancer therapy, Annals of Oncology, vol.14, issue.8, pp.1169-76, 2003.
DOI : 10.1093/annonc/mdg316

L. Goldovsky and I. Cases, BioLayoutJava, Applied Bioinformatics, vol.30, issue.1, pp.71-75, 2005.
DOI : 10.2165/00822942-200504010-00009

M. T. Guarnieri and L. Zhang, The Hsp90 Inhibitor Radicicol Interacts with the ATP-Binding Pocket of Bacterial Sensor Kinase PhoQ, Journal of Molecular Biology, vol.379, issue.1, pp.82-93, 2008.
DOI : 10.1016/j.jmb.2008.03.036

R. V. Guido and G. Oliva, Virtual screening and its integration with modern drug design technologies, Curr Med Chem, vol.15, issue.1, pp.37-46, 2008.

M. Jambon and O. Andrieu, The SuMo server: 3D search for protein functional sites, Bioinformatics, vol.21, issue.20, pp.3929-3959, 2005.
DOI : 10.1093/bioinformatics/bti645

URL : https://hal.archives-ouvertes.fr/hal-00313736

M. Jambon and A. Imberty, A new bioinformatic approach to detect common 3D sites in protein structures, Proteins: Structure, Function, and Bioinformatics, vol.228, issue.Suppl, pp.137-182, 2003.
DOI : 10.1002/prot.10339

URL : https://hal.archives-ouvertes.fr/hal-00306913

E. R. Jefferson and T. P. Walsh, A comparison of SCOP and CATH with respect to domain-domain interactions, Proteins: Structure, Function, and Bioinformatics, vol.276, issue.Suppl 1, pp.54-62, 2008.
DOI : 10.1002/prot.21496

D. Kuhn and N. Weskamp, Functional Classification of Protein Kinase Binding Sites Using Cavbase, ChemMedChem, vol.10, issue.10, pp.1432-1479, 2007.
DOI : 10.1002/cmdc.200700075

O. Lichtarge and H. R. Bourne, An Evolutionary Trace Method Defines Binding Surfaces Common to Protein Families, Journal of Molecular Biology, vol.257, issue.2, pp.342-58, 1996.
DOI : 10.1006/jmbi.1996.0167

URL : http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.134.8006

L. Mao and Y. Wang, Molecular Determinants for ATP-binding in Proteins: A Data Mining and Quantum Chemical Analysis, Journal of Molecular Biology, vol.336, issue.3, pp.787-807, 2004.
DOI : 10.1016/j.jmb.2003.12.056

I. Mihalek and I. Res, Evolutionary trace report_maker: a new type of service for comparative analysis of proteins, Bioinformatics, vol.22, issue.13, pp.1656-1663, 2006.
DOI : 10.1093/bioinformatics/btl157

D. H. Morgan and D. M. Kristensen, ET viewer: an application for predicting and visualizing functional sites in protein structures, Bioinformatics, vol.22, issue.16, pp.2049-50, 2006.
DOI : 10.1093/bioinformatics/btl285

A. G. Murzin and S. E. Brenner, SCOP: A structural classification of proteins database for the investigation of sequences and structures, Journal of Molecular Biology, vol.247, issue.4, pp.536-576, 1995.
DOI : 10.1016/S0022-2836(05)80134-2

J. C. Nebel and P. Herzyk, Automatic generation of 3D motifs for classification of protein binding sites, BMC Bioinformatics, vol.8, issue.1, p.321, 2007.
DOI : 10.1186/1471-2105-8-321

K. Niefind and M. Putter, GTP plus water mimic ATP in the active site of protein kinase CK2, Nature Structural Biology, vol.6, issue.12, pp.1100-1103, 1999.
DOI : 10.1038/70033

D. Picard, Heat-shock protein 90, a chaperone for folding and regulation, Cellular and Molecular Life Sciences, vol.59, issue.10, pp.1640-1648, 2002.
DOI : 10.1007/PL00012491

C. T. Porter and G. J. Bartlett, The Catalytic Site Atlas: a resource of catalytic sites and residues identified in enzymes using structural data, Nucleic Acids Research, vol.32, issue.90001, pp.129-162, 2004.
DOI : 10.1093/nar/gkh028

R. Powers and J. C. Copeland, Comparison of protein active site structures for functional annotation of proteins and drug design, Proteins: Structure, Function, and Bioinformatics, vol.2, issue.6, pp.124-159, 2006.
DOI : 10.1002/prot.21092

V. Ramensky and A. Sobol, A novel approach to local similarity of protein binding sites substantially improves computational drug design results, Proteins: Structure, Function, and Bioinformatics, vol.420, issue.2, pp.349-57, 2007.
DOI : 10.1002/prot.21487

S. M. Roe and C. Prodromou, Structural Basis for Inhibition of the Hsp90 Molecular Chaperone by the Antitumor Antibiotics Radicicol and Geldanamycin, Journal of Medicinal Chemistry, vol.42, issue.2, pp.260-266, 1999.
DOI : 10.1021/jm980403y

S. Schmitt and D. Kuhn, A New Method to Detect Related Function Among Proteins Independent of Sequence and Fold Homology, Journal of Molecular Biology, vol.323, issue.2, pp.387-406, 2002.
DOI : 10.1016/S0022-2836(02)00811-2

A. Shulman-peleg and R. Nussinov, SiteEngines: recognition and comparison of binding sites and protein-protein interfaces, Nucleic Acids Research, vol.33, issue.Web Server, pp.337-378, 2005.
DOI : 10.1093/nar/gki482

D. M. Standley and A. R. Kinjo, Protein structure databases with new web services for structural biology and biomedical research, Briefings in Bioinformatics, vol.9, issue.4, 2000.
DOI : 10.1093/bib/bbn015

B. Waszkowycz, Towards improving compound selection in structure-based virtual screening, Drug Discovery Today, vol.13, issue.5-6, pp.5-6, 2008.
DOI : 10.1016/j.drudis.2007.12.002

K. U. Wendt and M. S. Weiss, Structures and diseases, Nature Structural & Molecular Biology, vol.11, issue.2, pp.117-137, 2008.
DOI : 10.1038/nchembio0705-64

L. Whitesell and S. L. Lindquist, HSP90 and the chaperoning of cancer, Nature Reviews Cancer, vol.344, issue.10, pp.761-72, 2005.
DOI : 10.1038/nrc1716

S. Wu and M. P. Liang, The SeqFEATURE library of 3D functional site models: comparison to existing methods and applications to protein function annotation, Genome Biology, vol.9, issue.1, p.8, 2008.
DOI : 10.1186/gb-2008-9-1-r8

C. W. Yde and I. Ermakova, Inclining the Purine Base Binding Plane in Protein Kinase CK2 by Exchanging the Flanking Side-chains Generates a Preference for ATP as a Cosubstrate, Journal of Molecular Biology, vol.347, issue.2, pp.399-414, 2005.
DOI : 10.1016/j.jmb.2005.01.003

T. Zhang and A. Hamza, A novel Hsp90 inhibitor to disrupt Hsp90/Cdc37 complex against pancreatic cancer cells, Molecular Cancer Therapeutics, vol.7, issue.1, pp.162-70, 2008.
DOI : 10.1158/1535-7163.MCT-07-0484