H. Berman, T. Bhat, P. Bourne, Z. Feng, G. Gilliland et al., The Protein Data Bank and the challenge of structural genomics, Nature Structural Biology, vol.7, pp.957-959, 2000.
DOI : 10.1038/80734

Y. Wolf, T. Madej, V. Babenko, B. Shoemaker, and A. Panchenko, Longterm trends in evolution of indels in protein sequences, BMC Evolutionary Biology, vol.7, issue.1, p.19, 2007.
DOI : 10.1186/1471-2148-7-19

J. Zhang, Protein-length distributions for the three domains of life, Trends in Genetics, vol.16, issue.3, pp.107-109, 2000.
DOI : 10.1016/S0168-9525(99)01922-8

A. Bhaduri, G. Pugalenthi, and R. Sowdhamini, PASS2: an automated database of protein alignments organised as structural superfamilies, BMC Bioinformatics, vol.5, issue.1, p.35, 2004.
DOI : 10.1186/1471-2105-5-35

S. Pascarella and P. Argos, Analysis of insertions/deletions in protein structures, Journal of Molecular Biology, vol.224, issue.2, pp.461-471, 1992.
DOI : 10.1016/0022-2836(92)91008-D

G. Reeves, T. Dallman, O. Redfern, A. Akpor, and C. Orengo, Structural Diversity of Domain Superfamilies in the CATH Database, Journal of Molecular Biology, vol.360, issue.3, pp.725-741, 2006.
DOI : 10.1016/j.jmb.2006.05.035

S. Chakrabarti and R. Sowdhamini, Regions of minimal structural variation among members of protein domain superfamilies: application to remote homology detection and modelling using distant relationships, FEBS Letters, vol.6, issue.1-3, pp.1-331, 2004.
DOI : 10.1093/protein/6.5.501

URL : http://onlinelibrary.wiley.com/doi/10.1016/j.febslet.2004.05.028/pdf

R. Russell and G. Barton, Structural Features can be Unconserved in Proteins with Similar Folds, Journal of Molecular Biology, vol.244, issue.3, pp.332-350, 1994.
DOI : 10.1006/jmbi.1994.1733

G. Kleywegt, A super position, CCP4/ESF-EACBM Newsletter on Protein Crystallography, vol.31, pp.9-14, 1994.

A. Sali and T. Blundell, Definition of general topological equivalence in protein structures, Journal of Molecular Biology, vol.212, issue.2, pp.403-428, 1990.
DOI : 10.1016/0022-2836(90)90134-8

G. Pugalenthi, A. Bhaduri, and R. Sowdhamini, GenDiS: Genomic Distribution of protein structural domain Superfamilies, Nucleic Acids Research, vol.33, issue.Database issue, pp.252-255, 2005.
DOI : 10.1093/nar/gki087

URL : https://academic.oup.com/nar/article-pdf/33/suppl_1/D252/7622118/gki087.pdf

A. Murzin, S. Brenner, T. Hubbard, and C. Chothia, SCOP: A structural classification of proteins database for the investigation of sequences and structures, Journal of Molecular Biology, vol.247, issue.4, pp.536-540, 1995.
DOI : 10.1016/S0022-2836(05)80134-2

W. Kabsch and C. Sander, Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features, Biopolymers, vol.33, issue.12, pp.2577-2637, 1983.
DOI : 10.1016/0005-2795(73)90350-4

B. Lee and F. Richards, The interpretation of protein structures: Estimation of static accessibility, Journal of Molecular Biology, vol.55, issue.3, pp.379-400, 1971.
DOI : 10.1016/0022-2836(71)90324-X

K. Mizuguchi, C. Deane, T. Blundell, M. Johnson, and J. Overington, JOY: protein sequence-structure representation and analysis, Bioinformatics, vol.14, issue.7, pp.617-623, 1998.
DOI : 10.1093/bioinformatics/14.7.617

URL : https://academic.oup.com/bioinformatics/article-pdf/14/7/617/9731938/140617.pdf

A. Godzik, The structural alignment between two proteins: Is there a unique answer?, Protein Science, vol.221, issue.7, pp.1325-1338, 1996.
DOI : 10.1007/978-1-349-21355-9

URL : http://onlinelibrary.wiley.com/doi/10.1002/pro.5560050711/pdf

I. Shindyalov and P. Bourne, Protein structure alignment by incremental combinatorial extension (CE) of the optimal path, Protein Engineering Design and Selection, vol.11, issue.9, pp.739-747, 1998.
DOI : 10.1093/protein/11.9.739

URL : https://academic.oup.com/peds/article-pdf/11/9/739/18542489/110739.pdf

A. Marchler-bauer and S. Bryant, CD-Search: protein domain annotations on the fly, Nucleic Acids Research, vol.32, issue.Web Server, pp.327-331, 2004.
DOI : 10.1093/nar/gkh454

URL : https://academic.oup.com/nar/article-pdf/32/suppl_2/W327/6211102/gkh454.pdf

D. Bashford, C. Chothia, and A. Lesk, Determinants of a protein fold, Journal of Molecular Biology, vol.196, issue.1, pp.199-216, 1987.
DOI : 10.1016/0022-2836(87)90521-3

J. Lecomte, D. Vuletich, and A. Lesk, Structural divergence and distant relationships in proteins: evolution of the globins, Current Opinion in Structural Biology, vol.15, issue.3, pp.290-301, 2005.
DOI : 10.1016/j.sbi.2005.05.008

P. Nordlund and H. Eklund, Di-iron???carboxylate proteins, Current Opinion in Structural Biology, vol.5, issue.6, pp.758-766, 1995.
DOI : 10.1016/0959-440X(95)80008-5

J. Lougheed, J. Holton, T. Alber, J. Bazan, and T. Handel, Structure of melanoma inhibitory activity protein, a member of a recently identified family of secreted proteins, Proceedings of the National Academy of Sciences, vol.10, issue.1, pp.985515-5520, 2001.
DOI : 10.1093/protein/10.1.1

K. Mizuguchi and N. Go, Seeking significance in three-dimensional protein structure comparisons, Current Opinion in Structural Biology, vol.5, issue.3, pp.377-382, 1995.
DOI : 10.1016/0959-440X(95)80100-6

L. Holm and C. Sander, Dali: a network tool for protein structure comparison, Trends in Biochemical Sciences, vol.20, issue.11, pp.478-480, 1995.
DOI : 10.1016/S0968-0004(00)89105-7

J. Gibrat, T. Madej, and S. Bryant, Surprising similarities in structure comparison, Current Opinion in Structural Biology, vol.6, issue.3, pp.377-385, 1996.
DOI : 10.1016/S0959-440X(96)80058-3

C. Orengo and W. Taylor, [36] SSAP: Sequential structure alignment program for protein structure comparison, Methods Enzymol, vol.266, pp.617-635, 1996.
DOI : 10.1016/S0076-6879(96)66038-8

M. Johnson, J. Overington, and T. Blundell, Alignment and Searching for Common Protein Folds Using a Data Bank of Structural Templates, Journal of Molecular Biology, vol.231, issue.3, pp.735-752, 1993.
DOI : 10.1006/jmbi.1993.1323