메뉴 건너뛰기




Volumn 80, Issue 1, 2012, Pages 154-168

Prescont: Predicting protein-protein interfaces utilizing four residue properties

Author keywords

Machine learning; Protein complexes; Residue classification; Support vector machine

Indexed keywords

AMINO ACID; SOLVENT;

EID: 83555178457     PISSN: 08873585     EISSN: 10970134     Source Type: Journal    
DOI: 10.1002/prot.23172     Document Type: Article
Times cited : (37)

References (86)
  • 3
    • 0027104840 scopus 로고
    • Translational accuracy and the fitness of bacteria
    • Kurland CG. Translational accuracy and the fitness of bacteria. Annu Rev Genet 1992; 26: 29-50.
    • (1992) Annu Rev Genet , vol.26 , pp. 29-50
    • Kurland, C.G.1
  • 7
    • 0037229456 scopus 로고    scopus 로고
    • Analysing six types of protein-protein interfaces
    • Ofran Y, Rost B. Analysing six types of protein-protein interfaces. JMol Biol 2003; 325: 377-387.
    • (2003) JMol Biol , vol.325 , pp. 377-387
    • Ofran, Y.1    Rost, B.2
  • 8
    • 0030028728 scopus 로고    scopus 로고
    • Principles of protein-protein interactions
    • Jones S, Thornton JM. Principles of protein-protein interactions. Proc Natl Acad Sci USA 1996; 93: 13-20.
    • (1996) Proc Natl Acad Sci USA , vol.93 , pp. 13-20
    • Jones, S.1    Thornton, J.M.2
  • 9
    • 1042275583 scopus 로고    scopus 로고
    • A dissection of specific and non-specific protein-protein interfaces
    • Bahadur RP, Chakrabarti P, Rodier F, Janin J. A dissection of specific and non-specific protein-protein interfaces. J Mol Biol 2004; 336: 943-955.
    • (2004) J Mol Biol , vol.336 , pp. 943-955
    • Bahadur, R.P.1    Chakrabarti, P.2    Rodier, F.3    Janin, J.4
  • 10
    • 0242299201 scopus 로고    scopus 로고
    • Dissecting subunit interfaces in homodimeric proteins
    • Bahadur RP, Chakrabarti P, Rodier F, Janin J. Dissecting subunit interfaces in homodimeric proteins. Proteins 2003; 53: 708-719.
    • (2003) Proteins , vol.53 , pp. 708-719
    • Bahadur, R.P.1    Chakrabarti, P.2    Rodier, F.3    Janin, J.4
  • 11
    • 0034213559 scopus 로고    scopus 로고
    • Conservation of polar residues as hot spots at protein interfaces
    • Hu Z, Ma B, Wolfson H, Nussinov R. Conservation of polar residues as hot spots at protein interfaces. Proteins 2000; 39: 331-342.
    • (2000) Proteins , vol.39 , pp. 331-342
    • Hu, Z.1    Ma, B.2    Wolfson, H.3    Nussinov, R.4
  • 12
    • 0035342450 scopus 로고    scopus 로고
    • Residue frequencies and pairing preferences at protein-protein interfaces
    • Glaser F, Steinberg DM, Vakser IA, Ben-Tal N. Residue frequencies and pairing preferences at protein-protein interfaces. Proteins 2001; 43: 89-102.
    • (2001) Proteins , vol.43 , pp. 89-102
    • Glaser, F.1    Steinberg, D.M.2    Vakser, I.A.3    Ben-Tal, N.4
  • 14
    • 0037474541 scopus 로고    scopus 로고
    • Structural characterisation and functional significance of transient protein-protein interactions
    • Nooren IM, Thornton JM. Structural characterisation and functional significance of transient protein-protein interactions. J Mol Biol 2003; 325: 991-1018.
    • (2003) J Mol Biol , vol.325 , pp. 991-1018
    • Nooren, I.M.1    Thornton, J.M.2
  • 15
    • 33846662784 scopus 로고    scopus 로고
    • ISIS: interaction sites identified from sequence
    • Ofran Y, Rost B. ISIS: interaction sites identified from sequence. Bioinformatics 2007; 23: e13-e16.
    • (2007) Bioinformatics , vol.23
    • Ofran, Y.1    Rost, B.2
  • 16
    • 19544369864 scopus 로고    scopus 로고
    • An evolution based classifier for prediction of protein interfaces without using protein structures
    • Reš I, Mihalek I, Lichtarge O. An evolution based classifier for prediction of protein interfaces without using protein structures. Bioinformatics 2005; 21: 2496-2501.
    • (2005) Bioinformatics , vol.21 , pp. 2496-2501
    • Reš, I.1    Mihalek, I.2    Lichtarge, O.3
  • 17
    • 33846200437 scopus 로고    scopus 로고
    • Prediction-based fingerprints of protein-protein interactions
    • Porollo A, Meller J. Prediction-based fingerprints of protein-protein interactions. Proteins 2007; 66: 630-645.
    • (2007) Proteins , vol.66 , pp. 630-645
    • Porollo, A.1    Meller, J.2
  • 18
    • 1842526090 scopus 로고    scopus 로고
    • ProMate: a structure based prediction program to identify the location of protein-protein binding sites
    • Neuvirth H, Raz R, Schreiber G. ProMate: a structure based prediction program to identify the location of protein-protein binding sites. J Mol Biol 2004; 338: 181-199.
    • (2004) J Mol Biol , vol.338 , pp. 181-199
    • Neuvirth, H.1    Raz, R.2    Schreiber, G.3
  • 19
    • 17444372787 scopus 로고    scopus 로고
    • Improved prediction of protein-protein binding sites using a support vector machines approach
    • Bradford JR, Westhead DR. Improved prediction of protein-protein binding sites using a support vector machines approach. Bioinformatics 2005; 21: 1487-1494.
    • (2005) Bioinformatics , vol.21 , pp. 1487-1494
    • Bradford, J.R.1    Westhead, D.R.2
  • 20
    • 34548767667 scopus 로고    scopus 로고
    • Interaction-site prediction for protein complexes: a critical assessment
    • Zhou HX, Qin S. Interaction-site prediction for protein complexes: a critical assessment. Bioinformatics 2007; 23: 2203-2209.
    • (2007) Bioinformatics , vol.23 , pp. 2203-2209
    • Zhou, H.X.1    Qin, S.2
  • 21
    • 49249109524 scopus 로고    scopus 로고
    • How proteins get in touch: interface prediction in the study of biomolecular complexes
    • de Vries SJ, Bonvin AM. How proteins get in touch: interface prediction in the study of biomolecular complexes. Curr Protein Pept Sci 2008; 9: 394-406.
    • (2008) Curr Protein Pept Sci , vol.9 , pp. 394-406
    • de Vries, S.J.1    Bonvin, A.M.2
  • 22
    • 77951297973 scopus 로고    scopus 로고
    • Accounting for conformational changes during protein-protein docking
    • Zacharias M. Accounting for conformational changes during protein-protein docking. Curr Opin Struct Biol 2010; 20: 180-186.
    • (2010) Curr Opin Struct Biol , vol.20 , pp. 180-186
    • Zacharias, M.1
  • 24
    • 0036122073 scopus 로고    scopus 로고
    • Prediction of protein-protein interaction sites in heterocomplexes with neural networks
    • Fariselli P, Pazos F, Valencia A, Casadio R. Prediction of protein-protein interaction sites in heterocomplexes with neural networks. Eur J Biochem 2002; 269: 1356-1361.
    • (2002) Eur J Biochem , vol.269 , pp. 1356-1361
    • Fariselli, P.1    Pazos, F.2    Valencia, A.3    Casadio, R.4
  • 25
    • 33747879307 scopus 로고    scopus 로고
    • SHARP2: protein-protein interaction predictions using patch analysis
    • Murakami Y, Jones S. SHARP2: protein-protein interaction predictions using patch analysis. Bioinformatics 2006; 22: 1794-1795.
    • (2006) Bioinformatics , vol.22 , pp. 1794-1795
    • Murakami, Y.1    Jones, S.2
  • 26
    • 77954893600 scopus 로고    scopus 로고
    • Sequence-based identification of interface residues by an integrative profile combining hydrophobic and evolutionary information
    • Chen P, Li J. Sequence-based identification of interface residues by an integrative profile combining hydrophobic and evolutionary information. BMC Bioinformatics 2010; 11: 402.
    • (2010) BMC Bioinformatics , vol.11 , pp. 402
    • Chen, P.1    Li, J.2
  • 28
    • 24344487344 scopus 로고    scopus 로고
    • Generation and analysis of a protein-protein interface data set with similar chemical and spatial patterns of interactions
    • Mintz S, Shulman-Peleg A, Wolfson HJ, Nussinov R. Generation and analysis of a protein-protein interface data set with similar chemical and spatial patterns of interactions. Proteins 2005; 61: 6-20.
    • (2005) Proteins , vol.61 , pp. 6-20
    • Mintz, S.1    Shulman-Peleg, A.2    Wolfson, H.J.3    Nussinov, R.4
  • 29
    • 0032169688 scopus 로고    scopus 로고
    • PQS: a protein quaternary structure file server
    • Henrick K, Thornton JM. PQS: a protein quaternary structure file server. Trends Biochem Sci 1998; 23: 358-361.
    • (1998) Trends Biochem Sci , vol.23 , pp. 358-361
    • Henrick, K.1    Thornton, J.M.2
  • 31
    • 0032479179 scopus 로고    scopus 로고
    • Anatomy of hot spots in protein interfaces
    • Bogan AA, Thorn KS. Anatomy of hot spots in protein interfaces. J Mol Biol 1998; 280: 1-9.
    • (1998) J Mol Biol , vol.280 , pp. 1-9
    • Bogan, A.A.1    Thorn, K.S.2
  • 33
    • 3042666256 scopus 로고    scopus 로고
    • MUSCLE: multiple sequence alignment with high accuracy and high throughput
    • Edgar RC. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 2004; 32: 1792-1797.
    • (2004) Nucleic Acids Res , vol.32 , pp. 1792-1797
    • Edgar, R.C.1
  • 34
    • 77957944014 scopus 로고    scopus 로고
    • Protein-protein docking benchmark version 4.0
    • Hwang H, Vreven T, Janin J, Weng Z. Protein-protein docking benchmark version 4.0. Proteins 2010; 78: 3111-3114.
    • (2010) Proteins , vol.78 , pp. 3111-3114
    • Hwang, H.1    Vreven, T.2    Janin, J.3    Weng, Z.4
  • 35
    • 77957948556 scopus 로고    scopus 로고
    • Blind predictions of protein interfaces by docking calculations in CAPRI
    • Lensink MF, Wodak SJ. Blind predictions of protein interfaces by docking calculations in CAPRI. Proteins 2010; 78: 3085-3095.
    • (2010) Proteins , vol.78 , pp. 3085-3095
    • Lensink, M.F.1    Wodak, S.J.2
  • 37
  • 38
    • 0033516705 scopus 로고    scopus 로고
    • The packing density in proteins: standard radii and volumes
    • Tsai J, Taylor R, Chothia C, Gerstein M. The packing density in proteins: standard radii and volumes. J Mol Biol 1999; 290: 253-266.
    • (1999) J Mol Biol , vol.290 , pp. 253-266
    • Tsai, J.1    Taylor, R.2    Chothia, C.3    Gerstein, M.4
  • 39
    • 0029906944 scopus 로고    scopus 로고
    • A method for detecting hydrophobic patches on protein surfaces
    • Lijnzaad P, Berendsen HJ, Argos P. A method for detecting hydrophobic patches on protein surfaces. Proteins 1996; 26: 192-203.
    • (1996) Proteins , vol.26 , pp. 192-203
    • Lijnzaad, P.1    Berendsen, H.J.2    Argos, P.3
  • 40
    • 0030462271 scopus 로고    scopus 로고
    • Hydrophobic regions on protein surfaces: definition based on hydration shell structure and a quick method for their computation
    • Eisenhaber F, Argos P. Hydrophobic regions on protein surfaces: definition based on hydration shell structure and a quick method for their computation. Protein Eng 1996; 9: 1121-1133.
    • (1996) Protein Eng , vol.9 , pp. 1121-1133
    • Eisenhaber, F.1    Argos, P.2
  • 41
    • 75849153303 scopus 로고    scopus 로고
    • The Universal Protein Resource (UniProt) in 2010
    • UniProt Consortium.
    • UniProt Consortium. The Universal Protein Resource (UniProt) in 2010. Nucleic Acids Res 2010; 38: D142-148.
    • (2010) Nucleic Acids Res , vol.38
  • 42
    • 43149110628 scopus 로고    scopus 로고
    • Robustness of the residue conservation score reflecting both frequencies and physicochemistries
    • Liu XS, Guo WL. Robustness of the residue conservation score reflecting both frequencies and physicochemistries. Amino Acids 2008; 34: 643-652.
    • (2008) Amino Acids , vol.34 , pp. 643-652
    • Liu, X.S.1    Guo, W.L.2
  • 43
    • 68049128318 scopus 로고    scopus 로고
    • Shelling the Voronoi interface of protein-protein complexes reveals patterns of residue conservation, dynamics, and composition
    • Bouvier B, Grunberg R, Nilges M, Cazals F. Shelling the Voronoi interface of protein-protein complexes reveals patterns of residue conservation, dynamics, and composition. Proteins 2009; 76: 677-692.
    • (2009) Proteins , vol.76 , pp. 677-692
    • Bouvier, B.1    Grunberg, R.2    Nilges, M.3    Cazals, F.4
  • 44
    • 84855359459 scopus 로고    scopus 로고
    • Analyse der Struktur von Proteinkontaktflächen mit Methoden der algorithmischen Geometrie [Master Thesis]: University of Hagen
    • Staudigel M, Trenner T. Analyse der Struktur von Proteinkontaktflächen mit Methoden der algorithmischen Geometrie [Master Thesis]: University of Hagen; 2009.
    • (2009)
    • Staudigel, M.1    Trenner, T.2
  • 45
    • 0030040323 scopus 로고    scopus 로고
    • Reduced surface: an efficient way to compute molecular surfaces
    • Sanner MF, Olson AJ, Spehner JC. Reduced surface: an efficient way to compute molecular surfaces. Biopolymers 1996; 38: 305-320.
    • (1996) Biopolymers , vol.38 , pp. 305-320
    • Sanner, M.F.1    Olson, A.J.2    Spehner, J.C.3
  • 46
    • 83555179830 scopus 로고    scopus 로고
    • LIBSVM: a library for support vector machines
    • Chang CC, Lin CJ. LIBSVM: a library for support vector machines. 2001.
    • (2001)
    • Chang, C.C.1    Lin, C.J.2
  • 47
    • 51349159085 scopus 로고    scopus 로고
    • Probability estimates for multi-class classification by pairwise coupling
    • Wu TF, Lin CJ, Weng RC. Probability estimates for multi-class classification by pairwise coupling. J Mach Learn Res 2004; 5: 975-1005.
    • (2004) J Mach Learn Res , vol.5 , pp. 975-1005
    • Wu, T.F.1    Lin, C.J.2    Weng, R.C.3
  • 50
    • 0016772212 scopus 로고
    • Comparison of the predicted and observed secondary structure of T4 phage lysozyme
    • Matthews BW. Comparison of the predicted and observed secondary structure of T4 phage lysozyme. Biochim Biophys Acta 1975; 405: 442-451.
    • (1975) Biochim Biophys Acta , vol.405 , pp. 442-451
    • Matthews, B.W.1
  • 51
    • 77950651626 scopus 로고    scopus 로고
    • APIS: accurate prediction of hot spots in protein interfaces by combining protrusion index with solvent accessibility
    • Xia JF, Zhao XM, Song J, Huang DS. APIS: accurate prediction of hot spots in protein interfaces by combining protrusion index with solvent accessibility. BMC Bioinformatics 2010; 11: 174.
    • (2010) BMC Bioinformatics , vol.11 , pp. 174
    • Xia, J.F.1    Zhao, X.M.2    Song, J.3    Huang, D.S.4
  • 52
    • 0034730415 scopus 로고    scopus 로고
    • A fast method to predict protein interaction sites from sequences
    • Gallet X, Charloteaux B, Thomas A, Brasseur R. A fast method to predict protein interaction sites from sequences. J Mol Biol 2000; 302: 917-926.
    • (2000) J Mol Biol , vol.302 , pp. 917-926
    • Gallet, X.1    Charloteaux, B.2    Thomas, A.3    Brasseur, R.4
  • 53
    • 0032522670 scopus 로고    scopus 로고
    • Morphology of protein-protein interfaces
    • Larsen TA, Olson AJ, Goodsell DS. Morphology of protein-protein interfaces. Structure 1998; 6: 421-427.
    • (1998) Structure , vol.6 , pp. 421-427
    • Larsen, T.A.1    Olson, A.J.2    Goodsell, D.S.3
  • 54
    • 1842765629 scopus 로고    scopus 로고
    • Prediction of protein-protein interaction sites using support vector machines
    • Koike A, Takagi T. Prediction of protein-protein interaction sites using support vector machines. Protein Eng Des Sel 2004; 17: 165-173.
    • (2004) Protein Eng Des Sel , vol.17 , pp. 165-173
    • Koike, A.1    Takagi, T.2
  • 55
    • 0003187567 scopus 로고    scopus 로고
    • The atomic structure of protein-protein recognition sites
    • Lo Conte L, Chothia C, Janin J. The atomic structure of protein-protein recognition sites. J Mol Biol 1999; 285: 2177-2198.
    • (1999) J Mol Biol , vol.285 , pp. 2177-2198
    • Lo Conte, L.1    Chothia, C.2    Janin, J.3
  • 56
    • 44949217572 scopus 로고    scopus 로고
    • On defining the dynamics of hydrophobic patches on protein surfaces
    • Lijnzaad P, Feenstra KA, Heringa J, Holstege FC. On defining the dynamics of hydrophobic patches on protein surfaces. Proteins 2008; 72: 105-114.
    • (2008) Proteins , vol.72 , pp. 105-114
    • Lijnzaad, P.1    Feenstra, K.A.2    Heringa, J.3    Holstege, F.C.4
  • 57
    • 0346733329 scopus 로고    scopus 로고
    • Are protein-protein interfaces more conserved in sequence than the rest of the protein surface?
    • Caffrey DR, Somaroo S, Hughes JD, Mintseris J, Huang ES. Are protein-protein interfaces more conserved in sequence than the rest of the protein surface? Protein Sci 2004; 13: 190-202.
    • (2004) Protein Sci , vol.13 , pp. 190-202
    • Caffrey, D.R.1    Somaroo, S.2    Hughes, J.D.3    Mintseris, J.4    Huang, E.S.5
  • 58
    • 27344440132 scopus 로고    scopus 로고
    • Conservation and relative importance of residues across protein-protein interfaces
    • Guharoy M, Chakrabarti P. Conservation and relative importance of residues across protein-protein interfaces. Proc Natl Acad Sci USA 2005; 102: 15447-15452.
    • (2005) Proc Natl Acad Sci USA , vol.102 , pp. 15447-15452
    • Guharoy, M.1    Chakrabarti, P.2
  • 59
    • 33947360625 scopus 로고    scopus 로고
    • PIER: protein interface recognition for structural proteomics
    • Kufareva I, Budagyan L, Raush E, Totrov M, Abagyan R. PIER: protein interface recognition for structural proteomics. Proteins 2007; 67: 400-417.
    • (2007) Proteins , vol.67 , pp. 400-417
    • Kufareva, I.1    Budagyan, L.2    Raush, E.3    Totrov, M.4    Abagyan, R.5
  • 60
    • 0036681416 scopus 로고    scopus 로고
    • Scoring residue conservation
    • Valdar WS. Scoring residue conservation. Proteins 2002; 48: 227-241.
    • (2002) Proteins , vol.48 , pp. 227-241
    • Valdar, W.S.1
  • 61
    • 77957958450 scopus 로고    scopus 로고
    • i-Patch: interprotein contact prediction using local network information
    • Hamer R, Luo Q, Armitage JP, Reinert G, Deane CM. i-Patch: interprotein contact prediction using local network information. Proteins 2010; 78: 2781-2797.
    • (2010) Proteins , vol.78 , pp. 2781-2797
    • Hamer, R.1    Luo, Q.2    Armitage, J.P.3    Reinert, G.4    Deane, C.M.5
  • 62
    • 34250164675 scopus 로고    scopus 로고
    • Exploiting residue-level and profile-level interface propensities for usage in binding sites prediction of proteins
    • Dong Q, Wang X, Lin L, Guan Y. Exploiting residue-level and profile-level interface propensities for usage in binding sites prediction of proteins. BMC Bioinformatics 2007; 8: 147.
    • (2007) BMC Bioinformatics , vol.8 , pp. 147
    • Dong, Q.1    Wang, X.2    Lin, L.3    Guan, Y.4
  • 63
    • 0038356582 scopus 로고    scopus 로고
    • Predicted protein-protein interaction sites from local sequence information
    • Ofran Y, Rost B. Predicted protein-protein interaction sites from local sequence information. FEBS Lett 2003; 544: 236-239.
    • (2003) FEBS Lett , vol.544 , pp. 236-239
    • Ofran, Y.1    Rost, B.2
  • 64
    • 41349116548 scopus 로고    scopus 로고
    • Weinstein JN. A postgenomic visual icon
    • Weinstein JN. Weinstein JN. A postgenomic visual icon. Science 2008; 319: 1772-1773.
    • (2008) Science , vol.319 , pp. 1772-1773
    • Weinstein, J.N.1
  • 65
    • 34548751368 scopus 로고    scopus 로고
    • meta-PPISP: a meta web server for protein-protein interaction site prediction
    • Qin S, Zhou HX. meta-PPISP: a meta web server for protein-protein interaction site prediction. Bioinformatics 2007; 23: 3386-3387.
    • (2007) Bioinformatics , vol.23 , pp. 3386-3387
    • Qin, S.1    Zhou, H.X.2
  • 66
    • 0028916599 scopus 로고
    • A hot spot of binding energy in a hormone-receptor interface
    • Clackson T, Wells JA. A hot spot of binding energy in a hormone-receptor interface. Science 1995; 267: 383-386.
    • (1995) Science , vol.267 , pp. 383-386
    • Clackson, T.1    Wells, J.A.2
  • 67
    • 0029913807 scopus 로고    scopus 로고
    • An evolutionary trace method defines binding surfaces common to protein families
    • Lichtarge O, Bourne HR, Cohen FE. An evolutionary trace method defines binding surfaces common to protein families. J Mol Biol 1996; 257: 342-358.
    • (1996) J Mol Biol , vol.257 , pp. 342-358
    • Lichtarge, O.1    Bourne, H.R.2    Cohen, F.E.3
  • 68
    • 66349094681 scopus 로고    scopus 로고
    • Identification of computational hot spots in protein interfaces: combining solvent accessibility and inter-residue potentials improves the accuracy
    • Tuncbag N, Gursoy A, Keskin O. Identification of computational hot spots in protein interfaces: combining solvent accessibility and inter-residue potentials improves the accuracy. Bioinformatics 2009; 25: 1513-1520.
    • (2009) Bioinformatics , vol.25 , pp. 1513-1520
    • Tuncbag, N.1    Gursoy, A.2    Keskin, O.3
  • 69
    • 84855356471 scopus 로고    scopus 로고
    • Schrödinger.: Schrödinger Inc.
    • Schrödinger. PyMOL 1.3: Schrödinger Inc.; 2011.
    • (2011) PyMOL 1.3
  • 71
    • 33745597909 scopus 로고    scopus 로고
    • Predicting protein interaction sites: binding hot-spots in protein-protein and protein-ligand interfaces
    • Burgoyne NJ, Jackson RM. Predicting protein interaction sites: binding hot-spots in protein-protein and protein-ligand interfaces. Bioinformatics 2006; 22: 1335-1342.
    • (2006) Bioinformatics , vol.22 , pp. 1335-1342
    • Burgoyne, N.J.1    Jackson, R.M.2
  • 73
    • 80051724197 scopus 로고    scopus 로고
    • Functional assignment of an enzyme catalyzing the synthesis of an Archaea-type ether lipid in Bacteria
    • Guldan H, Matysik F-M, Bocola M, Sterner R, Babinger P. Functional assignment of an enzyme catalyzing the synthesis of an Archaea-type ether lipid in Bacteria. Angew Chem Int Ed 2011; 50: 8188-8191.
    • (2011) Angew Chem Int Ed , vol.50 , pp. 8188-8191
    • Guldan, H.1    Matysik, F.-M.2    Bocola, M.3    Sterner, R.4    Babinger, P.5
  • 75
    • 76449120385 scopus 로고    scopus 로고
    • Identifying protein-protein interaction sites in transient complexes with temperature factor, sequence profile and accessible surface area
    • Liu R, Jiang W, Zhou Y. Identifying protein-protein interaction sites in transient complexes with temperature factor, sequence profile and accessible surface area. Amino Acids 2010; 38: 263-270.
    • (2010) Amino Acids , vol.38 , pp. 263-270
    • Liu, R.1    Jiang, W.2    Zhou, Y.3
  • 77
    • 61449091497 scopus 로고    scopus 로고
    • Prediction of protein-protein binding site by using core interface residue and support vector machine
    • Li N, Sun Z, Jiang F. Prediction of protein-protein binding site by using core interface residue and support vector machine. BMC Bioinformatics 2008; 9: 553.
    • (2008) BMC Bioinformatics , vol.9 , pp. 553
    • Li, N.1    Sun, Z.2    Jiang, F.3
  • 78
    • 33748779553 scopus 로고    scopus 로고
    • Insights into protein-protein interfaces using a Bayesian network prediction method
    • Bradford JR, Needham CJ, Bulpitt AJ, Westhead DR. Insights into protein-protein interfaces using a Bayesian network prediction method. J Mol Biol 2006; 362: 365-386.
    • (2006) J Mol Biol , vol.362 , pp. 365-386
    • Bradford, J.R.1    Needham, C.J.2    Bulpitt, A.J.3    Westhead, D.R.4
  • 79
    • 0029889988 scopus 로고    scopus 로고
    • PHD: predicting one-dimensional protein structure by profile-based neural networks
    • Rost B. PHD: predicting one-dimensional protein structure by profile-based neural networks. Methods Enzymol 1996; 266: 525-539.
    • (1996) Methods Enzymol , vol.266 , pp. 525-539
    • Rost, B.1
  • 80
    • 33847073796 scopus 로고    scopus 로고
    • Achieving 80% ten-fold cross-validated accuracy for secondary structure prediction by large-scale training
    • Dor O, Zhou Y. Achieving 80% ten-fold cross-validated accuracy for secondary structure prediction by large-scale training. Proteins 2007; 66: 838-845.
    • (2007) Proteins , vol.66 , pp. 838-845
    • Dor, O.1    Zhou, Y.2
  • 81
    • 75149112324 scopus 로고    scopus 로고
    • Prediction of protein-protein interaction sites using an ensemble method
    • Deng L, Guan J, Dong Q, Zhou S. Prediction of protein-protein interaction sites using an ensemble method. BMC Bioinformatics 2009; 10: 426.
    • (2009) BMC Bioinformatics , vol.10 , pp. 426
    • Deng, L.1    Guan, J.2    Dong, Q.3    Zhou, S.4
  • 82
    • 34047104592 scopus 로고    scopus 로고
    • Protein-protein interaction site prediction based on conditional random fields
    • Li MH, Lin L, Wang XL, Liu T. Protein-protein interaction site prediction based on conditional random fields. Bioinformatics 2007; 23: 597-604.
    • (2007) Bioinformatics , vol.23 , pp. 597-604
    • Li, M.H.1    Lin, L.2    Wang, X.L.3    Liu, T.4
  • 83
    • 78349271620 scopus 로고    scopus 로고
    • Geometrically centered region: a "wet" model of protein binding hot spots not excluding water molecules
    • Li Z, Li J. Geometrically centered region: a "wet" model of protein binding hot spots not excluding water molecules. Proteins 2010; 78: 3304-3316.
    • (2010) Proteins , vol.78 , pp. 3304-3316
    • Li, Z.1    Li, J.2
  • 84
    • 48449105393 scopus 로고    scopus 로고
    • The RosettaDock server for local protein-protein docking
    • Lyskov S, Gray JJ. The RosettaDock server for local protein-protein docking. Nucleic Acids Res 2008; 36: W233-W238.
    • (2008) Nucleic Acids Res , vol.36
    • Lyskov, S.1    Gray, J.J.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.