24
Views
68
CrossRef citations to date
0
Altmetric
Original Articles

An Efficient Automated Computer Vision Based Technique for Detection of Three Dimensional Structural Motifs in Proteins

, , &
Pages 769-789 | Received 21 Jun 1991, Published online: 21 May 2012

Keep up to date with the latest research on this topic with citation updates for this article.

Read on this site (4)

Negar Souod, Elham Rismani, Fariborz Bahrami, Saeed Reza Pakzad & Soheila Ajdary. (2021) Computational evaluation of a fusion protein consisted of pertussis toxin and filamentous hemagglutinin from Bordetella pertussis to target Claudin-4 using C-terminal fragment of Clostridium perfringens enterotoxin. Journal of Biomolecular Structure and Dynamics 39:16, pages 5910-5919.
Read now
Jae-Kwan Kim & Deok-Soo Kim. (2012) BetaSuperposer: superposition of protein surfaces using beta-shapes. Journal of Biomolecular Structure and Dynamics 30:6, pages 684-700.
Read now
Frédéric Guyon & Pierre Tufféry. (2010) Assessing 3D scores for protein structure fragment mining. Open Access Bioinformatics 2, pages 67-77.
Read now
Daniel Fischer, Haim Wolfson & Ruth Nussinov. (1993) Spatial, Sequence-Order-Independent Structural Comparison of α/β Proteins: Evolutionaiy Implications. Journal of Biomolecular Structure and Dynamics 11:2, pages 367-380.
Read now

Articles from other publishers (64)

Jiaqi Wu, Tao Zhou, Jin Tao, Yabing Hai, Fei Ye, Xiaoqing Liu & Qi Dai. (2018) Similarity/dissimilarity analysis of protein structures based on Markov random fields. Computational Biology and Chemistry 75, pages 45-53.
Crossref
Anna Vangone, Romina Oliva, Luigi Cavallo & Alexandre M. J. J. Bonvin. 2017. From Protein Structure to Function with Bioinformatics. From Protein Structure to Function with Bioinformatics 265 292 .
Hanlun Jiang, Lizhe Zhu, Am?lie H?liou, Xin Gao, Julie Bernauer & Xuhui Huang. 2017. Drug Target miRNA. Drug Target miRNA 251 275 .
Louise J. Gourlay, Rachael J. Thomas, Claudio Peri, Oscar Conchillo-Sol?, Mario Ferrer-Navarro, Arnone Nithichanon, Jordi Vila, Xavier Daura, Ganjana Lertmemongkolchai, Richard Titball, Giorgio Colombo & Martino Bolognesi. (2015) From crystal structure to in?silico epitope discovery in the Burkholderia?pseudomallei flagellar hook-associated protein FlgK . FEBS Journal 282:7, pages 1319-1333.
Crossref
João P. G. L. M. Rodrigues & Alexandre M. J. J. Bonvin. (2014) Integrative computational modeling of protein interactions. FEBS Journal 281:8, pages 1988-2003.
Crossref
Rui Zhou, Yi He & Yi Xiao. (2011) Multi-nucleation and vectorial folding pathways of large helix protein. Computational Biology and Chemistry 35:3, pages 169-173.
Crossref
Milan Randić, Jure Zupan, Alexandru T. Balaban, Dražen Vikić-Topić & Dejan Plavšić. (2010) Graphical Representation of Proteins. Chemical Reviews 111:2, pages 790-862.
Crossref
Fei Guo & Lusheng Wang. 2011. Bioinformatics Research and Applications. Bioinformatics Research and Applications 25 36 .
Howard J Feldman & Paul Labute. (2010) Pocket Similarity: Are α Carbons Enough?. Journal of Chemical Information and Modeling 50:8, pages 1466-1475.
Crossref
Pier Federico Gherardini, Gabriele Ausiello & Manuela Helmer-Citterich. (2010) Superpose3D: A Local Structural Comparison Program That Allows for User-Defined Structure Representations. PLoS ONE 5:8, pages e11988.
Crossref
Jing Guo, Wenhua Song, Feng Ding, Liying Li, Jinhua Zhang, Jie Lian & Zhen Li. (2010) Acute Toxicity Study of Naphthaquinones Exposure to Chlorella pyrenoidosa. Acute Toxicity Study of Naphthaquinones Exposure to Chlorella pyrenoidosa.
Yi He, Rui Zhou, Yanzhao Huang & Yi Xiao. (2009) Foldable subunits of helix protein. Computational Biology and Chemistry 33:4, pages 325-328.
Crossref
Hanlin Chen, Yanzhao Huang & Yi Xiao. (2009) A simple method of identifying symmetric substructures of proteins. Computational Biology and Chemistry 33:1, pages 100-107.
Crossref
P. F. Gherardini & M. Helmer-Citterich. (2008) Structure-based function prediction: approaches and applications. Briefings in Functional Genomics and Proteomics 7:4, pages 291-302.
Crossref
Milan Randić. (2007) On a geometry-based approach to protein sequence alignment. Journal of Mathematical Chemistry 43:2, pages 756-772.
Crossref
Daniel Barthel, Jonathan D Hirst, Jacek Błażewicz, Edmund K Burke & Natalio Krasnogor. (2007) ProCKSI: a decision support system for Protein (Structure) Comparison, Knowledge, Similarity and Information. BMC Bioinformatics 8:1.
Crossref
Sophie Sacquin-Mora, ?milie Laforet & Richard Lavery. (2007) Locating the active sites of enzymes using mechanical properties. Proteins: Structure, Function, and Bioinformatics 67:2, pages 350-359.
Crossref
Oded Shoseyov, Ziv Shani & Ilan Levy. (2006) Carbohydrate Binding Modules: Biochemical Properties and Novel Applications. Microbiology and Molecular Biology Reviews 70:2, pages 283-295.
Crossref
William R. Taylor. (2006) Decoy Models for Protein Structure Comparison Score Normalisation. Journal of Molecular Biology 357:2, pages 676-699.
Crossref
Avraham Ben-Shimon & Miriam Eisenstein. (2005) Looking at Enzymes from the Inside out: The Proximity of Catalytic Residues to the Molecular Centroid can be used for Detection of Active Sites and Enzyme–Ligand Interfaces. Journal of Molecular Biology 351:2, pages 309-326.
Crossref
Hongzhi Li & Yaoqi Zhou. (2005) SCUD: Fast structure clustering of decoys using reference state to remove overall rotation. Journal of Computational Chemistry 26:11, pages 1189-1192.
Crossref
Zhen Yao, Juan Xiao, Anthony K.H. Tung & Wing Kin Sung. (2005) FAMCS: Finding All Maximal Common Substructures in Proteins. Genomics, Proteomics & Bioinformatics 3:2, pages 107-119.
Crossref
Sarel J. Fleishman, Susan Harrington, Richard A. Friesner, Barry Honig & Nir Ben-Tal. (2004) An Automatic Method for Predicting Transmembrane Protein Structures Using Cryo-EM and Evolutionary Data. Biophysical Journal 87:5, pages 3448-3459.
Crossref
Xiang Li, Ozlem Keskin, Buyong Ma, Ruth Nussinov & Jie Liang. (2004) Protein–Protein Interactions: Hot Spots and Structurally Conserved Residues often Locate in Complemented Pockets that Pre-organized in the Unbound States: Implications for Docking. Journal of Molecular Biology 344:3, pages 781-795.
Crossref
Y. Fromovich‐Amit, A. Zivelin, N. Rosenberg, H. Tamary, M. Landau & U. Seligsohn. (2004) Characterization of mutations causing factor VII deficiency in 61 unrelated Israeli patients. Journal of Thrombosis and Haemostasis 2:10, pages 1774-1781.
Crossref
A. Vysokovsky, R. Saxena, M. Landau, A. Zivelin, R. Eskaraev, N. Rosenberg, U. Seligsohn & A. Inbal. (2004) Seven novel mutations in the factor XIII A‐subunit gene causing hereditary factor XIII deficiency in 10 unrelated families. Journal of Thrombosis and Haemostasis 2:10, pages 1790-1797.
Crossref
Osnat Ashur-Fabian, Aaron Avivi, Luba Trakhtenbrot, Konstantin Adamsky, Meytal Cohen, Gadi Kajakaro, Alma Joel, Ninette Amariglio, Eviatar Nevo & Gideon Rechavi. (2004) Evolution of p53 in hypoxia-stressed Spalax mimics human tumor mutation . Proceedings of the National Academy of Sciences 101:33, pages 12236-12241.
Crossref
N. Rosenberg, M. Landau, J. Luboshitz, G. Rechavi & U. Seligsohn. (2004) A novel Phe171Cys mutation in integrin αIIb causes Glanzmann thrombasthenia by abrogating αIIbβ3 complex formation. Journal of Thrombosis and Haemostasis 2:7, pages 1167-1175.
Crossref
Pei-Ken Chang, Chien-Cheng Chen & Ming Ouhyoung. (2004) A Tool for Structure Alignment of Molecules. A Tool for Structure Alignment of Molecules.
Martin Jambon, Anne Imberty, Gilbert Del?age & Christophe Geourjon. (2003) A new bioinformatic approach to detect common 3D sites in protein structures. Proteins: Structure, Function, and Bioinformatics 52:2, pages 137-145.
Crossref
Carlo Ferrari, Concettina Guerra & Giuseppe Zanotti. (2003) A grid-aware approach to protein structure comparison. Journal of Parallel and Distributed Computing 63:7-8, pages 728-737.
Crossref
David Bostick & Iosif I Vaisman. (2003) A new topological method to measure protein structure similarity. Biochemical and Biophysical Research Communications 304:2, pages 320-325.
Crossref
Susan Baxter, Stacy Knutson & Jacquelyn Fetrow. 2003. Protein Structure. Protein Structure 369 388 .
Carlo Ferrari & Concettina Guerra. 2003. Mathematical Methods for Protein Structure Analysis and Design. Mathematical Methods for Protein Structure Analysis and Design 57 82 .
Xiong Wang, J.T.L. Wang, D. Shasha, B.A. Shapiro, I. Rigoutsos & Kaizhong Zhang. (2002) Finding patterns in three-dimensional graphs: algorithms and applications to scientific data mining. IEEE Transactions on Knowledge and Data Engineering 14:4, pages 731-749.
Crossref
C. Guerra, S. Lonardi & G. Zanotti. (2002) Analysis of secondary structure elements of proteins using indexing techniques. Analysis of secondary structure elements of proteins using indexing techniques.
Biohong Zhang & A. Godzik. (2002) The neaning and limitations of protein structure alignments. The neaning and limitations of protein structure alignments.
Gill Barequet. 2002. Database and Data Communication Network Systems. Database and Data Communication Network Systems 277 287 .
Patrice Koehl. (2001) Protein structure similarities. Current Opinion in Structural Biology 11:3, pages 348-353.
Crossref
William R Taylor, Alex C W May, Nigel P Brown & András Aszódi. (2001) Protein structure: geometry, topology and classification. Reports on Progress in Physics 64:4, pages 517-590.
Crossref
Jongsun Jung & Byungkook Lee. (2000) Protein structure alignment using environmental profiles. Protein Engineering, Design and Selection 13:8, pages 535-543.
Crossref
Joseph D. Szustakowski & Zhiping Weng. (2000) Protein structure alignment using a genetic algorithm. Proteins: Structure, Function, and Genetics 38:4, pages 428-440.
Crossref
Malin M. Young, A. Geoffrey Skillman & Irwin D. Kuntz. (1999) A rapid method for exploring the protein structure universe. Proteins: Structure, Function, and Genetics 34:3, pages 317-332.
Crossref
VINCENT ESCALIER, JOÉL POTHIER, HENRI SOLDANO & ALAIN VIARI. (1998) Pairwise and Multiple Identification of Three-Dimensional Common Substructures in Proteins. Journal of Computational Biology 5:1, pages 41-56.
Crossref
Francisco Melo & Ernest Feytmans. (1997) Novel knowledge-based mean force potential at atomic level. Journal of Molecular Biology 267:1, pages 207-222.
Crossref
A.P. Gueziec, X. Pennec & N. Ayache. (1997) Medical image registration using geometric hashing. IEEE Computational Science and Engineering 4:4, pages 29-41.
Crossref
G. Barequet & M. Sharir. (1997) Partial surface and volume matching in three dimensions. IEEE Transactions on Pattern Analysis and Machine Intelligence 19:9, pages 929-948.
Crossref
Rolando Rodriguez & Gerrit Vriend. 1997. Biomolecular Structure and Dynamics. Biomolecular Structure and Dynamics 79 119 .
Nigel P. Brown, Christine A. Orengo & William R. Taylor. (1996) A protein structure comparison methodology. Computers & Chemistry 20:3, pages 359-380.
Crossref
Liisa HolmChris Sander. (1996) Mapping the Protein Universe. Science 273:5275, pages 595-602.
Crossref
Adam Godzik. (2008) The structural alignment between two proteins: Is there a unique answer?. Protein Science 5:7, pages 1325-1338.
Crossref
Jean-Francois Gibrat, Thomas Madej & Stephen H Bryant. (1996) Surprising similarities in structure comparison. Current Opinion in Structural Biology 6:3, pages 377-385.
Crossref
L. Degrève & A. Caliri. (1995) Geometric constraints in polymer chains: analysis on the pearl-necklace model by Monte Carlo simulation. Journal of Molecular Structure: THEOCHEM 335:1-3, pages 123-127.
Crossref
Arthur M. Lesk. 1995. Combinatorial Pattern Matching. Combinatorial Pattern Matching 248 260 .
Peter J. Artymiuk, Andrew R. Poirrette, David W. Rice & Peter Willett. 1995. Molecular Similarity II. Molecular Similarity II 73 103 .
Liisa Holm & Chris Sander. (2004) Searching protein structure databases has come of age. Proteins: Structure, Function, and Bioinformatics 19:3, pages 165-173.
Crossref
Nickolai N. Alexandrov & Nobuhiro Gō. (2008) Biological meaning, statistical significance, and classification of local spatial similarities in nonhomologous proteins. Protein Science 3:6, pages 866-875.
Crossref
Daniel Fischer, Haim Wolfson, Shuo L. Lin & Ruth Nussinov. (2008) Three‐dimensional, sequence order‐independent structural comparison of a serine protease against the crystallographic database reveals active site similarities: Potential implications to evolution and to protein folding. Protein Science 3:5, pages 769-778.
Crossref
G. Barequet & M. Sharir. (1994) Partial surface and volume matching in three dimensions. Partial surface and volume matching in three dimensions.
Shuo Liang Lin, Ruth Nussinov, Daniel Fischer & Haim J. Wolfson. (2004) Molecular surface representations by sparse critical points. Proteins: Structure, Function, and Bioinformatics 18:1, pages 94-101.
Crossref
Daniel Fischer, Raquel Norel, Haim Wolfson & Ruth Nussinov. (2004) Surface motifs by a computer vision technique: Searches, detection, and implications for protein–ligand recognition. Proteins: Structure, Function, and Bioinformatics 16:3, pages 278-292.
Crossref
Daniel Fischer, Raquel Norel, Ruth Nussinov & Haim J. Wolfson. 1993. Combinatorial Pattern Matching. Combinatorial Pattern Matching 20 34 .
Liisa Holm, Christos Ouzounis, Chris Sander, Georg Tuparev & Gert Vriend. (2008) A database of protein structure families with common folding motifs. Protein Science 1:12, pages 1691-1698.
Crossref
Daniel Fischer, Ruth Nussinov & Haim J. Wolfson. 1992. Combinatorial Pattern Matching. Combinatorial Pattern Matching 136 150 .

Reprints and Corporate Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

To request a reprint or corporate permissions for this article, please click on the relevant link below:

Academic Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

Obtain permissions instantly via Rightslink by clicking on the button below:

If you are unable to obtain permissions via Rightslink, please complete and submit this Permissions form. For more information, please visit our Permissions help page.