黄仁亮(Huang R L), 齐崴(Qi W), 苏荣欣(Su R X), 何志敏(He Z M). 化学进展(Progress in Chemistry), 2010, 22: 2328-2337
[2]
Koutsopoulos S, Kaiser L, Eriksson H M, Zhang S. Chem. Soc. Rev., 2012, 41: 1721-1728
[3]
Zhou P, Tian F, Li Z. Chem. Biol. Drug Des., 2007, 69: 56-67
[4]
Zhou P, Chen X, Wu Y, Shang Z. Amino Acids, 2010, 38: 199-212
[5]
Tian F, Lv Y, Zhou P, Yang L. J. Comput. Aided Mol. Des., 2011, 25: 947-958
[6]
Tian F, Lv F, Luo X, Pan Y. Amino Acids, 2011, 40: 493-503
[7]
Tian F, Yang L, Lv F, Yang Q, Zhou P. Amino Acids, 2009, 36: 535-554
[8]
Peters B, Sidney J, Bourne P, Bui H H, Buus S, Doh G, Fleri W, Kronenberg M, Kubo R, Lund O, Nemazee D, Ponomarenko J V, Sathiamurthy M, Schoenberger S, Stewart S, Surko P, Way S, Wilson S, Sette A. PLoS Biol., 2005, 3: art.no. e91
[9]
Iwaniak A, Dziuba J, Niklewicz M. Acta Alimentaria, 2005, 34: 417-425
[10]
Ceol A, Chatr-Aryamontri A, Santonico E, Sacco R, Castagnoli L, Cesareni G. Nucleic Acids Res., 2007, 35: D557-D560
[11]
Huang J, Ru B, Zhu P, Nie F, Yang J, Wang X, Dai P, Lin H, Guo F B, Rao N. Nucleic Acids Res., 2012, 40: D271-D277
[12]
Hulo N, Bairoch A, Bulliard V, Cerutti L, Cuche B, De Castro E, Lachaize C, Langendijk-Genevaux P S, Sigrist C J A. Nucleic Acids Res., 2007, 36: D245-D249
[13]
Stein A, Russell R B, Aloy P. Nucleic Acids Res., 2005, 33: D413-D417
Berman H M, Westbrook J, Feng Z, Gilliland G, Bhat T N, Weissig H, Shindyalov I N, Bourne P E. Nucleic Acids Res., 2000, 28: 235-242
[16]
Davey N E, Haslam N J, Shields D C, Edwards R J. Nucleic Acids Res., 2011, 39: W56-W60
[17]
丁俊杰(Ding J J), 丁晓琴(Ding X Q), 赵立峰(Zhao L F), 陈冀胜(Chen J S). 化学进展(Progress in Chemistry), 2005, 15: 130-136
[18]
Hellberg S, Sjostrom M, Skagerberg B, Wold S. J. Med. Chem., 1987, 30: 1126-1135
[19]
Collantes E R, Dunn W J. J. Med. Chem., 1995, 38: 2705-2713
[20]
Schueler-Furman O, Altuvia Y, Sette A, Margalit H. Protein Sci., 2000, 9: 1838-1846
[21]
Hou T, Li N, Li Y, Wang W. J. Proteome Res., 2012, 11: 2982-2995
[22]
Hou T, Xu Z, Zhang W, McLaughlin W A, Case D A, Xu Y, Wang W. Mol. Cell. Proteomics, 2009, 8: 639-649
[23]
Xu Z, Hou T, Li N, Xu Y, Wang W. Mol. Cell. Proteomics, 2012, 11(1): doi: 10.1074/mcp.O111.010389
[24]
London N, Movshovitz-Attias D, Schueler-Furman O. Structure, 2010, 18: 188-199
[25]
Killian B J, Kravitz J Y, Somani S, Dasgupta P, Pang Y P, Gilson M K. J. Mol. Biol., 2009, 389: 315-335
[26]
Chang C A, Chen W, Gilson M K. Proc. Natl Acad. Sci. USA, 2007, 104: 1534-1539
[27]
Liu Z, Dominy B N, Shakhnovich E I. J. Am. Chem. Soc., 2004, 126: 8515-8528
[28]
Antes I. Proteins, 2010, 78: 1084-1104
[29]
London N, Raveh B, Cohen E, Fathi G, Schueler-Furman O. Nucleic Acids Res., 2011, 39: W249-W253
[30]
Raveh B, London N, Schueler-Furman O. Proteins, 2010, 78: 2029-2040
[31]
Donsky E, Wolfson H J. Bioinformatics, 2011, 27: 2836-2842
[32]
Staneva I, Wallin S. PLoS Comput. Biol., 2011, 7:art.no.e1002131
[33]
Daura X. Theor. Chem. Acc., 2006, 116: 297-306
[34]
Shaw D E, Maragakis P, Lindorff-Larsen K, Piana S, Dror R O, Eastwood M P, Bank J A, Jumper J M, Salmon J K, Shan Y, Wriggers W. Science, 2010, 330: 341-346
[35]
Lama D, Sankararamakrishnan R. J. Comput. Aided Mol. Des., 2011, 25: 413-426
[36]
Vanhee P, Stricher F, Baeten L, Verschueren E, Lenaerts T, Serrano L, Rousseau F, Schymkowitz J. Structure, 2009, 17: 1128-1136
[37]
Jochim A L, Arora P S. ACS Chem. Biol., 2010, 5: 919-923
[38]
London N, Raveh B, Movshovitz-Attias D, Schueler-Furman O. Proteins, 2010, 78: 3140-3149
[39]
Stein A, Aloy P. PLoS ONE, 2008, 3:art.no.e2524
[40]
Unal E B, Gursoy A, Erman B. PLoS ONE, 2010, 5:art.no. e10926
[41]
Zhou P, Tian F, Shang Z. Chem. Biol. Drug Des., 2008, 72: 525-532
[42]
Edwards R J, Moran N, Devocelle M, Kiernan A, Meade G, Signac W, Foy M, Park S D, Dunne E, Kenny D, Shields D C. Nat. Chem. Biol., 2007, 3: 108-112
[43]
Shemesh R, Toporik A, Levine Z, Hecht I, Rotman G, Wool A, Dahary D, Gofer E, Kliger Y, Soffer M A, Rosenberg A, Eshel D, Cohen Y. J. Biol. Chem., 2008, 283: 34643-34649
[44]
Grigoryan G, Reinke A W, Keating A E. Nature, 2009, 458: 859-865
[45]
Smith G P, Petrenko V A. Chem. Rev., 1997, 97: 391-410
[46]
Hilpert K, Winkler D F H, Hancock R E W. Nat. Protocols, 2007, 2: 1333-1349
[47]
Neduva V, Linding R, Su-Angrand I, Stark A, de Masi F, Gibson T J, Lewis J, Serrano L, Russell R B. PLoS Biol., 2005, 3:art.no e405
[48]
Hou T, Chen K, McLaughlin W A, Lu B, Wang W. PLoS Comput. Biol., 2006, 2:art.no. e1
[49]
Spaller M R. ACS Chem. Biol., 2006, 1: 207-210
[50]
Gfeller D, Butty F, Wierzbicka M, Verschueren E, Vanhee P, Huang H, Ernst A, Dar N, Stagljar I, Serrano L, Sidhu S S, Bader G D, Kim P M. Mol. Syst. Biol., 2011, 7: art.no.484
[51]
Boonen K, Landuyt B, Baggerman G, Husson S J, Huybrechts J, Schoofs L. J. Sep. Sci., 2008, 31: 427-445
[52]
Menschaert G, Vandekerckhove T T, Baggerman G, Schoofs L, Luyten W, Van Criekinge W. J. Proteome Res., 2010, 9: 2051-2061
[53]
Kahvejian A, Quackenbush J, Thompson J F. Nat. Biotech., 2008, 26: 1125-1133
[54]
Neduva V, Russell R B. Curr. Opin. Biotechnol., 2006, 17: 465-471
[55]
Carter J M, Loomis-Price L. B Cell Epitope Mapping Using Synthetic Peptides. Curr. Protoc. Immunol., 2004, Chapter 9: Unit 9.4
[56]
Lucchese G, Stufano A, Trost B, Kusalik A, Kanduc D. Amino Acids, 2007, 33: 703-707
[57]
Dyson H J, Wright P E. Nat. Rev. Mol. Cell Biol., 2005, 6: 197-208
[58]
Vanhee P, van der Sloot A M, Verschueren E, Serrano L, Rousseau F, Schymkowitz J. Trends Biotech., 2011, 29: 231-239
[59]
Moellering R E, Cornejo M, Davis T N, Bianco C D, Aster J C, Blacklow S C, Kung A L, Gilliland D G, Verdine G L, Bradner J E. Nature, 2009, 462: 182-188
[60]
Dover J E, Hwang G M, Mullen E H, Prorok B C, Suh S J. J. Microbiol. Methods, 2009, 78: 10-19
Zhou P, Chen X, Shang Z. J. Comput. Aided Mol. Des., 2009, 23: 129-141
[64]
Tian F, Yang L, Lv F, Zhou P. Anal. Chim. Acta, 2009, 644: 10-16
[65]
Tian F, Zhou P, Li Z. J. Mol. Struct., 2007, 830: 106-115
[66]
Tian F, Zhou P, Lv F, Song R, Li Z. J. Pept. Sci., 2007, 13: 549-566
[67]
Ren Y, Chen X, Feng M, Wang Q, Zhou P. Protein Pept. Lett., 2011, 18: 670-678
[68]
Lonsdale R, Ranaghan K E, Mulholland A J. Chem. Commun., 2010, 46: 2354-2372
[69]
Wang Z, Wang G. Nucleic Acids Res., 2004, 32: D590-D592
[70]
Shtatland T, Guettler D, Kossodo M, Pivovarov M, Weissleder R. BMC Bioinformatics, 2007, 8: art. no. 280
[71]
Shi L, Zhang Q, Rui W, Lu M, Jing X, Shang T, Tang J. Regul. Pept., 2004, 120: 1-3
[72]
Valuev V P, Afonnikov D A, Ponomarenko M P, Milanesi L, Kolchanov N A. Nucleic Acids Res., 2002, 30: 200-202
[73]
Aaslanda R, Abrams C, Ampe C, Balld L J, Bedforde M T, Cesarenif C, Gimonag M, Hurleyh J H, Jarchaui T, Lehtoj V P, Lemmonk M A, Linding R, Mayerm B J, Nagain M, Sudoln M, Walteri U, Windero S J. FEBS Lett., 2002, 513: 141-144
[74]
Puntervoll P, Linding R, Gemund C, Chabanis-Davidson S, Mattingsdal M, Cameron S, Martin D M, Ausiello G, Brannetti B, Costantini A, Ferrè F, Maselli V, Via A, Cesareni G, Diella F, Superti-Furga G, Wyrwicz L, Ramu C, McGuigan C, Gudavalli R, Letunic I, Bork P, Rychlewski L, Küster B, Helmer-Citterich M, Hunter W N, Aasland R, Gibson T J. Nucleic Acids Res., 2003, 31: 3625-3630
[75]
Mi T, Merlin J C, Deverasetty S, Gryk M R, Bill T J, Brooks A W, Lee L Y, Rathnayake V, Ross C A, Sargeant D P, Strong C L, Watts P, Rajasekaran S, Schiller M R. Nucleic Acids Res., 2012, 40: D252-D260
[76]
Baczek T. Curr. Pharm. Anal., 2005, 1: 31-40
[77]
Mei H, Liao Z H, Zhou Y, Li S Z. Biopolymers, 2005,80: 775-786
[78]
Wold S, Jonsson J, Sj?rstr?m M, Sandberg M, R?nnar S. Anal. Chim. Acta, 1993, 277: 239-253
[79]
Madden D R. Annu. Rev. Immunol., 1995, 13: 587-622
[80]
Hou T, McLaughlin W, Lu B, Chen K, Wang W. J. Proteome Res., 2006, 5: 32-43
[81]
Hou T, Zhang W, Case D A, Wang W. J. Mol. Biol., 2008, 376: 1201-1214
Ahmad S, Kono H, Arauzo-Bravo M J, Sarai A. Nucleic Acids Res., 2006, 4: W124-W127
[84]
Bursulaya B D, Totrov M, Abagyan R, Brooks C L. J. Comput. Aided Mol. Des., 2003, 17: 755-763
[85]
Kellenberger E, Rodrigo J, Muller P, Rognan D. Proteins, 2004, 57: 225-242
[86]
Hou T, Wang J, Chen L, Xu X. Protein Engin., 1999, 12: 639-648
[87]
Niv M Y, Weinstein H. J. Am. Chem. Soc., 2005, 127: 14072-14079
[88]
Ahmad M, Gu W, Helms V. Angew. Chem. Int. Ed., 2008, 47: 7626-7630
[89]
Fagerberg T, Cerottini J C, Michielin O. J. Mol. Biol., 2006, 356: 521-546
[90]
Petsalaki E, Stark A, García-Urdiales E, Russell R B. PLoS Comput. Biol., 2009, 5:art.no. e1000335
[91]
Voelz V A, Shell M S, Dill K A. PLoS Comput. Biol., 2009, 5:art.no. e1000281
[92]
Ganoth A, Friedman R, Nachliel E, Gutman M. Biophys. J., 2006, 91: 2436-2450
[93]
Freites J A, Choi Y, Tobias D J. Biophys. J., 2003, 84: 2169-2180
[94]
Slocik J M, Naik R R. Chem. Soc. Rev., 2010, 39: 3454-3463
[95]
Dagliyan O, Proctor E A, D’Auria K M, Ding F, Dokholyan N V. Structure, 2011, 19: 1837-1845
[96]
Stein A, Aloy P. PLoS Comput. Biol., 2010, 6:art.no. e1000789
[97]
Jochim A L, Arora P S. Mol. BioSyst., 2009, 5: 924-926
[98]
King C A, Bradley P. Proteins, 2010, 78: 3437-3449
[99]
Walshe V A, Hattotuwagama C K, Doytchinova I A, Wong M, Macdonald I K, Mulder A, Claas F H, Pellegrino P, Turner J, Williams I, Turnbull E L, Borrow P, Flower D R. PLoS ONE, 2009, 4:art.no. e8095
[100]
Kliger Y, Levy O, Oren A, Ashkenazy H, Tiran Z, Novik A, Rosenberg A, Amir A, Wool A, Toporik A, Schreiber E, Eshel D, Levine Z, Cohen Y, Nold-Petry C, Dinarello C A, Borukhov I. Proc. Natl. Acad. Sci. USA, 2009, 106: 13797-13801
[101]
Yin H, Slusky J S, Berger B W, Walters R S, Vilaire G, Litvinov R I, Lear J D, Caputo G A, Bennett J S, DeGrado W F. Science, 2007, 315: 1817-1822
[102]
Cui W, Wei Z, Chen Q, Cheng Y, Geng L, Zhang J, Chen J, Hou T, Ji M. J. Chem. Inf. Model., 2010, 50: 380-387
[103]
Sood V D, Baker D. J. Mol. Biol., 2006, 357: 917-927