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Volumn 13, Issue 1, 2012, Pages

Local functional descriptors for surface comparison based binding prediction

Author keywords

Molecular surface; Protein functional surface; Protein surface shape; Protein ligand docking; Shape descriptors

Indexed keywords

FUNCTIONAL SURFACES; MOLECULAR SURFACES; PROTEIN SURFACE; PROTEIN-LIGAND DOCKING; SHAPE DESCRIPTORS;

EID: 84869874067     PISSN: None     EISSN: 14712105     Source Type: Journal    
DOI: 10.1186/1471-2105-13-314     Document Type: Article
Times cited : (3)

References (67)
  • 1
    • 77951245620 scopus 로고    scopus 로고
    • On thediversity of physicochemical environments experienced by identical ligands in binding pockets of unrelated proteins
    • 10.1002/prot.22633, 19927322
    • Kahraman A, Morris RJ, Laskowski RA, Favia AD, Thornton JM. On thediversity of physicochemical environments experienced by identical ligands in binding pockets of unrelated proteins. Proteins 2010, 78(5):1120-1136. [http://www.ncbi.nlm.nih.gov/pubmed/19927322], 10.1002/prot.22633, 19927322.
    • (2010) Proteins , vol.78 , Issue.5 , pp. 1120-1136
    • Kahraman, A.1    Morris, R.J.2    Laskowski, R.A.3    Favia, A.D.4    Thornton, J.M.5
  • 2
    • 47549083305 scopus 로고    scopus 로고
    • Local invariant feature detectors: a survey
    • 10.1561/0600000017, 3553421, 23355817
    • Tuytelaars T, Mikolajczyk K. Local invariant feature detectors: a survey. Foundations Trends®;in Comput Graph Vision 2007, 3(3):177-280. [http://dx.doi.org/10.1561/0600000017], 10.1561/0600000017, 3553421, 23355817.
    • (2007) Foundations Trends®;in Comput Graph Vision , vol.3 , Issue.3 , pp. 177-280
    • Tuytelaars, T.1    Mikolajczyk, K.2
  • 3
    • 27644547620 scopus 로고    scopus 로고
    • A performance evaluation of local descriptors
    • Mikolajczyk K, Schmid C. A performance evaluation of local descriptors. IEEE PAMI 2005, 27(10):1615-1630. [http://dx.doi.org/10.1109/TPAMI.2005.188].
    • (2005) IEEE PAMI , vol.27 , Issue.10 , pp. 1615-1630
    • Mikolajczyk, K.1    Schmid, C.2
  • 4
    • 3042535216 scopus 로고    scopus 로고
    • Distinctive image features from scale-invariant keypoints
    • Lowe DG. Distinctive image features from scale-invariant keypoints. Int J Comput Vision 2004, 60(2):91-110. [http://dx.doi.org/10.1023/B:VISI.0000029664.99615.94].
    • (2004) Int J Comput Vision , vol.60 , Issue.2 , pp. 91-110
    • Lowe, D.G.1
  • 5
    • 0033284915 scopus 로고    scopus 로고
    • Object recognition from local scale-invariant features
    • Washington: IEEE Computer Society,
    • Lowe DG. Object recognition from local scale-invariant features. ICCV 1999, 1150-1150. Washington: IEEE Computer Society, [http://doi.ieeecomputersociety.org/10.1109/ICCV.1999.79041].
    • (1999) ICCV , pp. 1150-1150
    • Lowe, D.G.1
  • 6
    • 43049174575 scopus 로고    scopus 로고
    • Speeded-Up robust features (SURF)
    • Bay H, Ess A, Tuytelaars T, Van G. Speeded-Up robust features (SURF). Comput Vision Image Underst 2008, 110(3):346-359. [http://dx.doi.org/10.1016/j.cviu.2007.09.014].
    • (2008) Comput Vision Image Underst , vol.110 , Issue.3 , pp. 346-359
    • Bay, H.1    Ess, A.2    Tuytelaars, T.3    Van, G.4
  • 7
    • 70450174324 scopus 로고    scopus 로고
    • SURFTrac: efficient tracking and continuous object recognition using local feature descriptors
    • Ta DN, Chen WC, Gelfand N, Pulli K. SURFTrac: efficient tracking and continuous object recognition using local feature descriptors. CVPR 2009,
    • (2009) CVPR
    • Ta, D.N.1    Chen, W.C.2    Gelfand, N.3    Pulli, K.4
  • 8
    • 0344120211 scopus 로고    scopus 로고
    • Affine-invariant local descriptors and neighborhood statistics for texture recognition
    • Lazebnik S, Schmid C, Ponce J. Affine-invariant local descriptors and neighborhood statistics for texture recognition. ICCV 2003, 649-655.
    • (2003) ICCV , pp. 649-655
    • Lazebnik, S.1    Schmid, C.2    Ponce, J.3
  • 9
    • 70450197934 scopus 로고    scopus 로고
    • Learning object representations for visual object class Recognition
    • [Visual Recognition Challange workshop, in conjunction with ICCV], Schmid C van de Weijer J
    • Marszałek M, Harzallah H, . Schmid C van de Weijer J Learning object representations for visual object class Recognition. 2007, [http://lear.inrialpes.fr/pubs/2007/MSHV07/]. [Visual Recognition Challange workshop, in conjunction with ICCV], Schmid C van de Weijer J.
    • (2007)
    • Marszałek, M.1    Harzallah, H.2
  • 10
    • 33846580425 scopus 로고    scopus 로고
    • Local features and kernels for classification of texture and object categories: a comprehensive study
    • Zhang J, Marszałek M, Lazebnik S, Schmid C. Local features and kernels for classification of texture and object categories: a comprehensive study. Int J Comput Vision 2007, 73(2):213-238. [http://dx.doi.org/10.1007/s11263-006-9794-4].
    • (2007) Int J Comput Vision , vol.73 , Issue.2 , pp. 213-238
    • Zhang, J.1    Marszałek, M.2    Lazebnik, S.3    Schmid, C.4
  • 11
    • 58349107346 scopus 로고    scopus 로고
    • A discriminative framework for texture and object recognition using local image features
    • Berlin, Heidelberg: Springer
    • Lazebnik S, Schmid C, Ponce J. A discriminative framework for texture and object recognition using local image features. Towards Category-Level Object Recognition 2006, Berlin, Heidelberg: Springer, [http://link.springer.com/chapter/10.1007%2F11957959_22].
    • (2006) Towards Category-Level Object Recognition
    • Lazebnik, S.1    Schmid, C.2    Ponce, J.3
  • 12
    • 0031187270 scopus 로고    scopus 로고
    • Automatic interpretation and coding of face images using flexible models
    • Lanitis A, Taylor CJ, Cootes TF. Automatic interpretation and coding of face images using flexible models. IEEE Trans Pattern Anal Mach Intell 1997, 19(7):743-756. [http://dx.doi.org/10.1109/34.598231].
    • (1997) IEEE Trans Pattern Anal Mach Intell , vol.19 , Issue.7 , pp. 743-756
    • Lanitis, A.1    Taylor, C.J.2    Cootes, T.F.3
  • 13
    • 33646505098 scopus 로고    scopus 로고
    • Semi-local affine parts for object recognition
    • Lazebnik S, Schmid C, Ponce J. Semi-local affine parts for object recognition. BMVC04 2004,
    • (2004) BMVC04
    • Lazebnik, S.1    Schmid, C.2    Ponce, J.3
  • 14
    • 4644354464 scopus 로고    scopus 로고
    • Pictorial structures for object recognition
    • Felzenszwalb PF, Huttenlocher DP. Pictorial structures for object recognition. Int J Comput Vision 2005, 61:55-79. [http://dx.doi.org/10.1023/B:VISI.0000042934.15159.49].
    • (2005) Int J Comput Vision , vol.61 , pp. 55-79
    • Felzenszwalb, P.F.1    Huttenlocher, D.P.2
  • 16
    • 34247576789 scopus 로고    scopus 로고
    • The pyramid match kernel: efficient learning with sets of features
    • Grauman K, Darrell T. The pyramid match kernel: efficient learning with sets of features. J Mach Learn Res (JMLR) 2005, 8:725-760.
    • (2005) J Mach Learn Res (JMLR) , vol.8 , pp. 725-760
    • Grauman, K.1    Darrell, T.2
  • 18
    • 33745855044 scopus 로고    scopus 로고
    • The pyramid match kernel: discriminative classification with sets of image features
    • Grauman K, Darrell T. The pyramid match kernel: discriminative classification with sets of image features. ICCV 2005, 2:1458-1465.
    • (2005) ICCV , vol.2 , pp. 1458-1465
    • Grauman, K.1    Darrell, T.2
  • 19
    • 78650986186 scopus 로고    scopus 로고
    • Binding ligand prediction for proteins using partial matching of local surface patches.
    • 10.3390/ijms11125009, 3100846, 21614188
    • Sael L, Kihara D. Binding ligand prediction for proteins using partial matching of local surface patches. Int J Mol Sci 2010, 11(12):5009-5026. [http://www.ncbi.nlm.nih.gov/pubmed/21614188], 10.3390/ijms11125009, 3100846, 21614188.
    • (2010) Int J Mol Sci , vol.11 , Issue.12 , pp. 5009-5026
    • Sael, L.1    Kihara, D.2
  • 20
    • 66349094968 scopus 로고    scopus 로고
    • Prediction of sub-cavity binding preferences using an adaptive physicochemical structure representation
    • Wallach I, Lilien RH. Prediction of sub-cavity binding preferences using an adaptive physicochemical structure representation. Bioinformatics (Oxford, England) 2009, 25(12):i296-304. [http://www.ncbi.nlm.nih.gov/pubmed/19478002].
    • (2009) Bioinformatics (Oxford, England) , vol.25 , Issue.12
    • Wallach, I.1    Lilien, R.H.2
  • 21
    • 0034039797 scopus 로고    scopus 로고
    • Electrostatic aspects of protein-protein interactions
    • 10.1016/S0959-440X(00)00065-8, 10753808
    • Sheinerman FB, Norel R, Honig B. Electrostatic aspects of protein-protein interactions. Curr Opin Struct Biol 2000, 10(2):153-159. [http://www.ncbi.nlm.nih.gov/pubmed/10753808], 10.1016/S0959-440X(00)00065-8, 10753808.
    • (2000) Curr Opin Struct Biol , vol.10 , Issue.2 , pp. 153-159
    • Sheinerman, F.B.1    Norel, R.2    Honig, B.3
  • 22
    • 28844492648 scopus 로고    scopus 로고
    • Protein surface analysis for function annotation in high-throughput structural genomics pipeline
    • Binkowski TA, Joachimiak A, Liang J. Protein surface analysis for function annotation in high-throughput structural genomics pipeline. Protein Sci: Publication Protein Soc 2005, 14(12):2972-2981. [http://www.ncbi.nlm.nih.gov/pubmed/16322579].
    • (2005) Protein Sci: Publication Protein Soc , vol.14 , Issue.12 , pp. 2972-2981
    • Binkowski, T.A.1    Joachimiak, A.2    Liang, J.3
  • 23
    • 58349103124 scopus 로고    scopus 로고
    • Protein functional surfaces: global shape matching and local spatial alignments of ligand binding sites
    • 10.1186/1472-6807-8-45, 2626596, 18954462
    • Binkowski TA, Joachimiak A. Protein functional surfaces: global shape matching and local spatial alignments of ligand binding sites. BMC Struct Biol 2008, 8:45. [http://www.ncbi.nlm.nih.gov/pubmed/18954462], 10.1186/1472-6807-8-45, 2626596, 18954462.
    • (2008) BMC Struct Biol , vol.8 , pp. 45
    • Binkowski, T.A.1    Joachimiak, A.2
  • 24
    • 70449408309 scopus 로고    scopus 로고
    • Predicting protein-protein binding sites in membrane proteins
    • 10.1186/1471-2105-10-312, 2761413, 19778442
    • Bordner AJ. Predicting protein-protein binding sites in membrane proteins. BMC Bioinformatics 2009, 10:312. [http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=2761413&tool=pmcentrez&rendertype= abstracthttp://www.biomedcentral.com/1471-2105/10/312], 10.1186/1471-2105-10-312, 2761413, 19778442.
    • (2009) BMC Bioinformatics , vol.10 , pp. 312
    • Bordner, A.J.1
  • 25
    • 77957760751 scopus 로고    scopus 로고
    • Superpose3D: a local structural comparison program that allows for user-defined structure representations
    • 10.1371/journal.pone.0011988, 2916828, 20700534
    • Gherardini PF, Ausiello G, Helmer-Citterich M. Superpose3D: a local structural comparison program that allows for user-defined structure representations. PloS One 2010, 5(8):e11988. [http://www.ncbi.nlm.nih.gov/pubmed/20700534], 10.1371/journal.pone.0011988, 2916828, 20700534.
    • (2010) PloS One , vol.5 , Issue.8
    • Gherardini, P.F.1    Ausiello, G.2    Helmer-Citterich, M.3
  • 26
    • 67649619565 scopus 로고    scopus 로고
    • IDSS: deformation invariant signatures for molecular shape comparison
    • 10.1186/1471-2105-10-157, 2694795, 19463181
    • Liu YS, Fang Y, Ramani K. IDSS: deformation invariant signatures for molecular shape comparison. BMC Bioinformatics 2009, 10:157. [http://www.ncbi.nlm.nih.gov/pubmed/19463181], 10.1186/1471-2105-10-157, 2694795, 19463181.
    • (2009) BMC Bioinformatics , vol.10 , pp. 157
    • Liu, Y.S.1    Fang, Y.2    Ramani, K.3
  • 27
    • 33646757492 scopus 로고    scopus 로고
    • On the nature of cavities on protein surfaces: application to the identification of drug-binding sites
    • 10.1002/prot.20897, 16477622
    • Nayal M, Honig B. On the nature of cavities on protein surfaces: application to the identification of drug-binding sites. Proteins 2006, 63(4):892-906. [http://www.ncbi.nlm.nih.gov/pubmed/16477622], 10.1002/prot.20897, 16477622.
    • (2006) Proteins , vol.63 , Issue.4 , pp. 892-906
    • Nayal, M.1    Honig, B.2
  • 28
    • 34248382877 scopus 로고    scopus 로고
    • Discovery of similar regions on protein surfaces
    • Bock ME, Garutti C, Guerra C. Discovery of similar regions on protein surfaces. J Comput Biol: J Comput Mol Cell Biol 2007, 14(3):285-299. [http://www.ncbi.nlm.nih.gov/pubmed/17563312].
    • (2007) J Comput Biol: J Comput Mol Cell Biol , vol.14 , Issue.3 , pp. 285-299
    • Bock, M.E.1    Garutti, C.2    Guerra, C.3
  • 29
    • 33947420139 scopus 로고    scopus 로고
    • Shape variation in protein binding pockets and their ligands
    • 10.1016/j.jmb.2007.01.086, 17337005
    • Kahraman A, Morris RJ, Laskowski RA, Thornton JM. Shape variation in protein binding pockets and their ligands. J Mol Biol 2007, 368:283-301. [http://www.ncbi.nlm.nih.gov/pubmed/17337005], 10.1016/j.jmb.2007.01.086, 17337005.
    • (2007) J Mol Biol , vol.368 , pp. 283-301
    • Kahraman, A.1    Morris, R.J.2    Laskowski, R.A.3    Thornton, J.M.4
  • 30
    • 21044444449 scopus 로고    scopus 로고
    • Pocketome via comprehensive identification and classification of ligand binding envelopes
    • An J, Totrov M, Abagyan R. Pocketome via comprehensive identification and classification of ligand binding envelopes. Mol Cell Proteomics 2005, 4(4):752-761. [http://www.ncbi.nlm.nih.gov/pubmed/15757999].
    • (2005) Mol Cell Proteomics , vol.4 , Issue.4 , pp. 752-761
    • An, J.1    Totrov, M.2    Abagyan, R.3
  • 32
    • 19544389524 scopus 로고    scopus 로고
    • Real spherical harmonic expansion coefficients as 3D shape descriptors for protein binding pocket and ligand comparisons
    • Morris RJ, Najmanovich RJ, Kahraman A, Thornton JM. Real spherical harmonic expansion coefficients as 3D shape descriptors for protein binding pocket and ligand comparisons. Bioinformatics (Oxford, England) 2005, 21(10):2347-2355. [http://www.ncbi.nlm.nih.gov/pubmed/15728116].
    • (2005) Bioinformatics (Oxford, England) , vol.21 , Issue.10 , pp. 2347-2355
    • Morris, R.J.1    Najmanovich, R.J.2    Kahraman, A.3    Thornton, J.M.4
  • 33
    • 0041842509 scopus 로고    scopus 로고
    • Identification of protein biochemical functions by similarity search using the molecular surface database eF-site
    • Kinoshita K, Nakamura H. Identification of protein biochemical functions by similarity search using the molecular surface database eF-site. Protein Sci: Publication Protein Soc 2003, 12(8):1589-1595. [http://www.ncbi.nlm.nih.gov/pubmed/12876308].
    • (2003) Protein Sci: Publication Protein Soc , vol.12 , Issue.8 , pp. 1589-1595
    • Kinoshita, K.1    Nakamura, H.2
  • 34
    • 14144254344 scopus 로고    scopus 로고
    • Identification of the ligand binding sites on the molecular surface of proteins
    • 10.1110/ps.041080105, 2279290, 15689509
    • Kinoshita K, Nakamura H. Identification of the ligand binding sites on the molecular surface of proteins. Protein Sci 2005, 14:711-718. [http://www.ncbi.nlm.nih.gov/pubmed/15689509], 10.1110/ps.041080105, 2279290, 15689509.
    • (2005) Protein Sci , vol.14 , pp. 711-718
    • Kinoshita, K.1    Nakamura, H.2
  • 35
    • 2942708194 scopus 로고    scopus 로고
    • Surfcomp: A novel graph-based approach to molecular surface comparison
    • 10.1021/ci0342371, 15154748
    • Hofbauer C, Lohninger H, Aszodi A. Surfcomp: A novel graph-based approach to molecular surface comparison. J Chem Inf Comput Sci 2004, 44(3):837-847. [http://www.ncbi.nlm.nih.gov/pubmed/15154748], 10.1021/ci0342371, 15154748.
    • (2004) J Chem Inf Comput Sci , vol.44 , Issue.3 , pp. 837-847
    • Hofbauer, C.1    Lohninger, H.2    Aszodi, A.3
  • 36
    • 0002761958 scopus 로고
    • Measurement of protein surface shape by solid angles
    • Connolly ML. Measurement of protein surface shape by solid angles. J Mol Graph 1986, 4:3-6.
    • (1986) J Mol Graph , vol.4 , pp. 3-6
    • Connolly, M.L.1
  • 37
    • 0027976930 scopus 로고
    • Molecular surface representations by sparse critical points
    • Lin SL, Nussinov R, Fischer D, Wolfson H. Molecular surface representations by sparse critical points. Proteins: Struct Funct Genet 1994, 18:94-101. [http://www.ncbi.nlm.nih.gov/pubmed/8146125].
    • (1994) Proteins: Struct Funct Genet , vol.18 , pp. 94-101
    • Lin, S.L.1    Nussinov, R.2    Fischer, D.3    Wolfson, H.4
  • 38
    • 0029089732 scopus 로고
    • Molecular surface complementarity at protein-protein interfaces: the critical role played by surface normals at well placed, sparse, points in docking
    • 10.1006/jmbi.1995.0493, 7674306
    • Norel R, Lin SL, Wolfson HJ, Nussinov R. Molecular surface complementarity at protein-protein interfaces: the critical role played by surface normals at well placed, sparse, points in docking. J Mol Biol 1995, 252(2):263-273. [http://www.ncbi.nlm.nih.gov/pubmed/7674306], 10.1006/jmbi.1995.0493, 7674306.
    • (1995) J Mol Biol , vol.252 , Issue.2 , pp. 263-273
    • Norel, R.1    Lin, S.L.2    Wolfson, H.J.3    Nussinov, R.4
  • 39
    • 0030154893 scopus 로고    scopus 로고
    • Hammerhead: fast, fully automated docking of flexible ligands to protein binding sites
    • 10.1016/S1074-5521(96)90093-9, 8807875
    • Welch W, Ruppert J, Jain A. Hammerhead: fast, fully automated docking of flexible ligands to protein binding sites. Chem Biol 1996, 3(6):449-462. [http://www.ncbi.nlm.nih.gov/pubmed/8807875], 10.1016/S1074-5521(96)90093-9, 8807875.
    • (1996) Chem Biol , vol.3 , Issue.6 , pp. 449-462
    • Welch, W.1    Ruppert, J.2    Jain, A.3
  • 40
    • 0037434582 scopus 로고    scopus 로고
    • Surflex: fully automatic flexible molecular docking using a molecular similarity-based search engine
    • 10.1021/jm020406h, 12570372
    • Jain A. Surflex: fully automatic flexible molecular docking using a molecular similarity-based search engine. J Med Chem 2003, 46(4):499-511. [http://www.ncbi.nlm.nih.gov/pubmed/12570372], 10.1021/jm020406h, 12570372.
    • (2003) J Med Chem , vol.46 , Issue.4 , pp. 499-511
    • Jain, A.1
  • 41
    • 0038174853 scopus 로고    scopus 로고
    • Distilling the essential features of a protein surface for improving protein-ligand docking, scoring, and virtual screening
    • Zavodszky MI, Sanschagrin PC, Korde RS, Kuhn LA. Distilling the essential features of a protein surface for improving protein-ligand docking, scoring, and virtual screening. J Comput-Aided Mol Design 2002, 16(12):883-902. [http://www.ncbi.nlm.nih.gov/pubmed/12825621].
    • (2002) J Comput-Aided Mol Design , vol.16 , Issue.12 , pp. 883-902
    • Zavodszky, M.I.1    Sanschagrin, P.C.2    Korde, R.S.3    Kuhn, L.A.4
  • 42
    • 2442614144 scopus 로고    scopus 로고
    • Recognition of functional sites in protein structures
    • 10.1016/j.jmb.2004.04.012, 15147845 15147845n&querynhl=30
    • Shulman-Peleg A, Nussinov R, Wolfson HJ. Recognition of functional sites in protein structures. J Mol Biol 2004, 339:607-633. [http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=Retrieven&db=pubmedn&dopt=AbstractPlusn&listnuids= 15147845n&querynhl=30], 10.1016/j.jmb.2004.04.012, 15147845.
    • (2004) J Mol Biol , vol.339 , pp. 607-633
    • Shulman-Peleg, A.1    Nussinov, R.2    Wolfson, H.J.3
  • 43
    • 67650150099 scopus 로고    scopus 로고
    • Improving structure-based function prediction using molecular dynamics
    • Glazer DS, Radmer RJ, Altman RB. Improving structure-based function prediction using molecular dynamics. Struct (London, England : 1993) 2009, 17(7):919-929. [http://www.ncbi.nlm.nih.gov/pubmed/15147845].
    • (2009) Struct (London, England : 1993) , vol.17 , Issue.7 , pp. 919-929
    • Glazer, D.S.1    Radmer, R.J.2    Altman, R.B.3
  • 44
    • 0028950817 scopus 로고
    • Characterizing the microenvironment surrounding protein sites
    • 2143108, 7613462
    • Bagley SC, Altman RB. Characterizing the microenvironment surrounding protein sites. Protein Sci 1995, 4(4):622-635. [http://www.ncbi.nlm.nih.gov/pubmed/7613462], 2143108, 7613462.
    • (1995) Protein Sci , vol.4 , Issue.4 , pp. 622-635
    • Bagley, S.C.1    Altman, R.B.2
  • 45
    • 0031626949 scopus 로고    scopus 로고
    • Recognizing protein binding sites using statistical descriptions of their 3D environments
    • Wei L, Altman RB. Recognizing protein binding sites using statistical descriptions of their 3D environments. Pac Symp Biocomput 1998, 497-508. [http://www.ncbi.nlm.nih.gov/pubmed/9697207].
    • (1998) Pac Symp Biocomput , pp. 497-508
    • Wei, L.1    Altman, R.B.2
  • 46
    • 28644444803 scopus 로고    scopus 로고
    • Structural characterization of proteins using residue environments
    • 10.1002/prot.20661, 2483305, 16245324
    • Mooney SD, Liang MHP, DeConde R, Altman RB. Structural characterization of proteins using residue environments. Proteins 2005, 61(4):741-747. [http://www.ncbi.nlm.nih.gov/pubmed/16245324], 10.1002/prot.20661, 2483305, 16245324.
    • (2005) Proteins , vol.61 , Issue.4 , pp. 741-747
    • Mooney, S.D.1    Liang, M.H.P.2    DeConde, R.3    Altman, R.B.4
  • 47
    • 70349307195 scopus 로고    scopus 로고
    • Prediction of protein-glucose binding sites using support vector machines
    • 10.1002/prot.22424, 19415755
    • Nassif H, Al-Ali H, Khuri S, Keirouz W. Prediction of protein-glucose binding sites using support vector machines. Proteins 2009, 77:121-132. [http://www.ncbi.nlm.nih.gov/pubmed/19415755], 10.1002/prot.22424, 19415755.
    • (2009) Proteins , vol.77 , pp. 121-132
    • Nassif, H.1    Al-Ali, H.2    Khuri, S.3    Keirouz, W.4
  • 49
    • 33846097580 scopus 로고    scopus 로고
    • Curvature Maps for Local Shape Comparison
    • Gatzke T, Grimm C, Garland M, Zelinka S. Curvature Maps for Local Shape Comparison. IEEE Comput Soc 2005., [http://dx.doi.org/http://dx.doi.org/10.1109/SMI.2005.13].
    • (2005) IEEE Comput Soc
    • Gatzke, T.1    Grimm, C.2    Garland, M.3    Zelinka, S.4
  • 50
    • 0032685832 scopus 로고    scopus 로고
    • Using spin images for efficient object recognition in cluttered 3D scenes
    • Johnson AE, Hebert M. Using spin images for efficient object recognition in cluttered 3D scenes. IEEE Trans Pattern Anal Machine Intell 1999, 21(5):433-449. [http://dx.doi.org/10.1109/34.765655].
    • (1999) IEEE Trans Pattern Anal Machine Intell , vol.21 , Issue.5 , pp. 433-449
    • Johnson, A.E.1    Hebert, M.2
  • 51
    • 33646264578 scopus 로고    scopus 로고
    • Salient geometric features for partial shape matching and similarity
    • Gal R, Cohen-Or D. Salient geometric features for partial shape matching and similarity. ACM Trans Graph 2006, 25:130-150. [http://dx.doi.org/10.1145/1122501.1122507].
    • (2006) ACM Trans Graph , vol.25 , pp. 130-150
    • Gal, R.1    Cohen-Or, D.2
  • 52
    • 0031246477 scopus 로고    scopus 로고
    • Point signatures: a new representation for 3D object recognition
    • Chua C, Jarvis R. Point signatures: a new representation for 3D object recognition. Int J Comput Vision 1997, 25(1). [http://dx.doi.org/10.1023/A:1007981719186].
    • (1997) Int J Comput Vision , vol.25 , Issue.1
    • Chua, C.1    Jarvis, R.2
  • 54
    • 77957836353 scopus 로고    scopus 로고
    • Multi-scale surface descriptors
    • 2873089, 19834190
    • Cipriano G, Phillips J, Gleicher M. Multi-scale surface descriptors. IEEE Trans Vis Comput Graph 2009, 15:1201-1208. [http://dx.doi.org/10.1145/220279.220324], 2873089, 19834190.
    • (2009) IEEE Trans Vis Comput Graph , vol.15 , pp. 1201-1208
    • Cipriano, G.1    Phillips, J.2    Gleicher, M.3
  • 55
    • 0035964342 scopus 로고    scopus 로고
    • Electrostatics of nanosystems: application to microtubules and the ribosome
    • 10.1073/pnas.181342398, 56910, 11517324
    • Baker NA, Sept D, Joseph S, Holst MJ, McCammon JA. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc Nat Acad Sci 2001, 98(18):10037-10041. 10.1073/pnas.181342398, 56910, 11517324.
    • (2001) Proc Nat Acad Sci , vol.98 , Issue.18 , pp. 10037-10041
    • Baker, N.A.1    Sept, D.2    Joseph, S.3    Holst, M.J.4    McCammon, J.A.5
  • 56
    • 33749513370 scopus 로고    scopus 로고
    • Scoring functions for protein-ligand docking
    • 10.2174/138920306778559395, 17073693
    • Jain AN. Scoring functions for protein-ligand docking. Curr Protein Pept Sci 2006, 7(5):407-420. [http://www.ncbi.nlm.nih.gov/pubmed/17073693], 10.2174/138920306778559395, 17073693.
    • (2006) Curr Protein Pept Sci , vol.7 , Issue.5 , pp. 407-420
    • Jain, A.N.1
  • 57
    • 0020475449 scopus 로고
    • A simple method for displaying the hydropathic character of a protein
    • 10.1016/0022-2836(82)90515-0, 7108955
    • Kyte J, Doolittle RF. A simple method for displaying the hydropathic character of a protein. J Mol Biol 1982, 157:105-132. [http://www.ncbi.nlm.nih.gov/pubmed/7108955], 10.1016/0022-2836(82)90515-0, 7108955.
    • (1982) J Mol Biol , vol.157 , pp. 105-132
    • Kyte, J.1    Doolittle, R.F.2
  • 59
    • 41149093109 scopus 로고    scopus 로고
    • Characterization of local geometry of protein surfaces with the visibility criterion
    • 10.1002/prot.21732, 17975834
    • Li B, Turuvekere S, Agrawal M, La D, Ramani K, Kihara D. Characterization of local geometry of protein surfaces with the visibility criterion. Proteins 2008, 71(2):670-683. [http://www.ncbi.nlm.nih.gov/pubmed/17975834], 10.1002/prot.21732, 17975834.
    • (2008) Proteins , vol.71 , Issue.2 , pp. 670-683
    • Li, B.1    Turuvekere, S.2    Agrawal, M.3    La, D.4    Ramani, K.5    Kihara, D.6
  • 60
    • 33748102999 scopus 로고    scopus 로고
    • Travel depth, a new shape descriptor for macromolecules: application to ligand binding
    • 10.1016/j.jmb.2006.07.022, 16934837
    • Coleman RG, Sharp KA. Travel depth, a new shape descriptor for macromolecules: application to ligand binding. J Mol Biol 2006, 362(3):441-458. [http://www.ncbi.nlm.nih.gov/pubmed/16934837], 10.1016/j.jmb.2006.07.022, 16934837.
    • (2006) J Mol Biol , vol.362 , Issue.3 , pp. 441-458
    • Coleman, R.G.1    Sharp, K.A.2
  • 61
    • 78449289709 scopus 로고    scopus 로고
    • Fast surface-based travel depth estimation algorithm for macromolecule surface shape description
    • Giard J, Alface PR, Gala JL, Macq B. Fast surface-based travel depth estimation algorithm for macromolecule surface shape description. IEEE/ACM Trans Comput Biol Bioinformatics IEEE, ACM 2011, 8:59-68. [http://www.ncbi.nlm.nih.gov/pubmed/21071797].
    • (2011) IEEE/ACM Trans Comput Biol Bioinformatics IEEE, ACM , vol.8 , pp. 59-68
    • Giard, J.1    Alface, P.R.2    Gala, J.L.3    Macq, B.4
  • 62
    • 33947328242 scopus 로고    scopus 로고
    • Choosing negative examples for the prediction of protein-protein interactions
    • 10.1186/1471-2105-7-S1-S2, 1764476, 17254304
    • Ben-Hur A, Noble WS. Choosing negative examples for the prediction of protein-protein interactions. BMC Bioinformatics 2006, 7(Suppl 1):S2. [http://www.ncbi.nlm.nih.gov/pubmed/16723005], 10.1186/1471-2105-7-S1-S2, 1764476, 17254304.
    • (2006) BMC Bioinformatics , vol.7 , Issue.SUPPL. 1
    • Ben-Hur, A.1    Noble, W.S.2
  • 66
    • 0032201716 scopus 로고    scopus 로고
    • An optimal algorithm for approximate nearest neighbor searching fixed dimensions
    • Arya S, Mount DM, Netanyahu NS, Silverman R, Wu AY. An optimal algorithm for approximate nearest neighbor searching fixed dimensions. J ACM 1998, 45(6):891-923.
    • (1998) J ACM , vol.45 , Issue.6 , pp. 891-923
    • Arya, S.1    Mount, D.M.2    Netanyahu, N.S.3    Silverman, R.4    Wu, A.Y.5
  • 67
    • 77953587057 scopus 로고    scopus 로고
    • Real-time ligand binding pocket database search using local surface descriptors
    • 10.1002/prot.22715, 3009464, 20455259
    • Chikhi R, Sael L, Kihara D. Real-time ligand binding pocket database search using local surface descriptors. Proteins 2010, 78(9):2007-2028. [http://www.ncbi.nlm.nih.gov/pubmed/20455259], 10.1002/prot.22715, 3009464, 20455259.
    • (2010) Proteins , vol.78 , Issue.9 , pp. 2007-2028
    • Chikhi, R.1    Sael, L.2    Kihara, D.3


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