Discovery: An interactive resource for the rational selection and comparison of putative drug target proteins in malaria

Malaria Journal

Volumn 8, Issue 1, 2009, Pages

  Joubert, Fourie ^a   Harrison, Claudia M ^a   Koegelenberg, Riaan J ^a   Odendaal, Christiaan J ^a   De Beer, Tjaart A P ^a  

^a UNIVERSITY OF PRETORIA   (South Africa)

Author keywords

[No Author keywords available]

Indexed keywords

2 AMINO 1,4 DIHYDRO 4,4,7,8 TETRAMETHYLTRIAZINO(1,2 A)BENZIMIDAZOLE; 3 AMINO 1 METHYL 5H PYRIDO[4,3 B]INDOLE; 4,6 DIAMINO 1,2 DIHYDRO 2,2 DIMETHYL 1 [3 (2,4,5 TRICHLOROPHENOXY)PROPOXY] 1,3,5 TRIAZINE; AMINOPTERIN; ANTIMALARIAL AGENT; DIHYDROFOLATE REDUCTASE THYMIDYLATE SYNTHASE; FOLIC ACID ANTAGONIST; METHOTREXATE; PROGUANIL; PYRIMETHAMINE; THYMIDYLATE SYNTHASE; UNCLASSIFIED DRUG; PROTOZOAL PROTEIN;

ARTICLE; CLINICAL TRIAL; COMPUTER MODEL; DRUG INHIBITION; DRUG TARGETING; HOST PATHOGEN INTERACTION; HUMAN; MALARIA; MEDICAL INFORMATION; MEDICAL RESEARCH; PLASMODIUM FALCIPARUM; PROTEIN DOMAIN; PROTEIN MOTIF; PROTEIN PROTEIN INTERACTION; ANIMAL; CHEMISTRY; DRUG DEVELOPMENT; FACTUAL DATABASE; GENETICS; HUMAN GENOME; MALARIA FALCIPARUM; METHODOLOGY; MOSQUITO; PHYSIOLOGY; PROTEIN DATABASE;

ANIMALS; CULICIDAE; DATABASES, FACTUAL; DATABASES, PROTEIN; DRUG DISCOVERY; GENOME, HUMAN; HUMANS; MALARIA, FALCIPARUM; PLASMODIUM FALCIPARUM; PROTOZOAN PROTEINS;

EID: 68949205803     PISSN: None     EISSN: 14752875     Source Type: Journal    
DOI: 10.1186/1475-2875-8-178     Document Type: Article

References (35)

1. Public health impact of drug resistant Plasmodium falciparum malaria. A Bjorkman A Bhattarai, Acta Trop 2005 94 163 169 15893289
2. Computational prediction of host-pathogen protein-protein interactions. MD Dyer TM Murali BW Sobral, Bioinformatics 2007 23 i159 166 10.1093/bioinformatics/btm208 17646292
3. The grand assault. RF Doolittle, Nature 2002 419 493 494 10.1038/419493a 12368861
4. Genome sequence of the human malaria parasite Plasmodium falciparum. MJ Gardner N Hall E Fung O White M Berriman RW Hyman JM Carlton A Pain KE Nelson S Bowman IT Paulsen K James JA Eisen K Rutherford SL Salzberg A Craig S Kyes MS Chan V Nene SJ Shallom B Suh J Peterson S Angiuoli M Pertea J Allen J Selengut D Haft MW Mather AB Vaidya DM Martin AH Fairlamb MJ Fraunholz DS Roos SA Ralph GI McFadden LM Cummings GM Subramanian C Mungall JC Venter DJ Carucci SL Hoffman C Newbold RW Davis CM Fraser B Barrell, Nature 2002 419 498 511 10.1038/nature01097 12368864
5. Integration and mining of malaria molecular, functional and pharmacological data: how far are we from a chemogenomic knowledge space? LM Birkholtz O Bastien G Wells D Grando F Joubert V Kasam M Zimmermann P Ortet N Jacq N Saidani S Roy M Hofmann-Apitius V Breton AI Louw E Marechal, Malar J 2006 5 110 133 10.1186/1475-2875-5-110 17112376
6. Antimalarial drug discovery: in silico structural biology and rational drug design. TA de Beer GA Wells PB Burger F Joubert E Marechal L Birkholtz AI Louw, Infect Disord Drug Targets 2009 9 304 318 19519484
7. PlasmoDB. http://www.plasmodb.org
8. PlasmoDB: a functional genomic database for malaria parasites. C Aurrecoechea J Brestelli BP Brunk J Dommer S Fischer B Gajria X Gao A Gingle G Grant OS Harb M Heiges F Innamorato J Iodice JC Kissinger E Kraemer W Li JA Miller V Nayak C Pennington DF Pinney DS Roos C Ross CJ Stoeckert Jr C Treatman H Wang, Nucleic Acids Res 2009 37 D539 543 10.1093/nar/gkn814 18957442
9. PlasmoMap. http://www.cbil.upenn.edu/plasmoMAP
10. Computational modeling of the Plasmodium falciparum interactome reveals protein function on a genome-wide scale. SV Date CJ Stoeckert Jr, Genome Res 2006 16 542 549 10.1101/gr.4573206 16520460
11. MDT. http://www.bioinformatics.org/mdt
12. TDR Targets Database. http://tdrtargets.org
13. Genomic-scale prioritization of drug targets: the TDR Targets database. F Aguero B Al-Lazikani M Aslett M Berriman FS Buckner RK Campbell S Carmona IM Carruthers AW Chan F Chen GJ Crowther MA Doyle C Hertz-Fowler AL Hopkins G McAllister S Nwaka JP Overington A Pain GV Paolini U Pieper SA Ralph A Riechers DS Roos A Sali D Shanmugam T Suzuki WC Van Voorhis CL Verlinde, Nat Rev Drug Discov 2008 7 900 907 10.1038/nrd2684 18927591
14. PlasmoID. http://pfalciparum.atc.tcs.com/PlasmoID
15. TurboGears. http://www.turbogears.org
16. MySQL. http://www.mysql.com
17. Ensembl 2009. TJ Hubbard BL Aken S Ayling B Ballester K Beal E Bragin S Brent Y Chen P Clapham L Clarke G Coates S Fairley S Fitzgerald J Fernandez-Banet L Gordon S Graf S Haider M Hammond R Holland K Howe A Jenkinson N Johnson A Kahari D Keefe S Keenan R Kinsella F Kokocinski E Kulesha D Lawson I Longden K Megy P Meidl B Overduin A Parker B Pritchard D Rios M Schuster G Slater D Smedley W Spooner G Spudich S Trevanion A Vilella J Vogel S White S Wilder A Zadissa E Birney F Cunningham V Curwen R Durbin XM Fernandez-Suarez J Herrero A Kasprzyk G Proctor J Smith S Searle P Flicek, Nucleic Acids Res 2009 37 D690 697 10.1093/nar/gkn828 19033362
18. DrugBank: a knowledgebase for drugs, drug actions and drug targets. DS Wishart C Knox AC Guo D Cheng S Shrivastava D Tzur B Gautam M Hassanali, Nucleic Acids Res 2008 36 D901 906 10.1093/nar/gkm958 18048412
19. LIGAND: database of chemical compounds and reactions in biological pathways. S Goto Y Okuno M Hattori T Nishioka M Kanehisa, Nucleic Acids Res 2002 30 402 404 10.1093/nar/30.1.402 11752349
20. PDB-Ligand: a ligand database based on PDB for the automated and customized classification of ligand-binding structures. JM Shin DH Cho, Nucleic Acids Res 2005 33 D238 241 10.1093/nar/gki059 15608186
21. MINT: the Molecular INTeraction database. A Chatr-aryamontri A Ceol LM Palazzi G Nardelli MV Schneider L Castagnoli G Cesareni, Nucleic Acids Res 2007 35 D572 574 10.1093/nar/gkl950 17135203
22. The Database of Interacting Proteins: 2004 update. L Salwinski CS Miller AJ Smith FK Pettit JU Bowie D Eisenberg, Nucleic Acids Res 2004 32 D449 451 10.1093/nar/gkh086 14681454
23. InterPro: the integrative protein signature database. S Hunter R Apweiler TK Attwood A Bairoch A Bateman D Binns P Bork U Das L Daugherty L Duquenne RD Finn J Gough D Haft N Hulo D Kahn E Kelly A Laugraud I Letunic D Lonsdale R Lopez M Madera J Maslen C McAnulla J McDowall J Mistry A Mitchell N Mulder D Natale C Orengo AF Quinn JD Selengut CJ Sigrist M Thimma PD Thomas F Valentin D Wilson CH Wu C Yeats, Nucleic Acids Res 2009 37 D211 215 10.1093/nar/gkn785 18940856
24. InterProScan - an integration platform for the signature-recognition methods in InterPro. EM Zdobnov R Apweiler, Bioinformatics 2001 17 847 848 10.1093/bioinformatics/17.9.847 11590104
25. MODBASE, a database of annotated comparative protein structure models and associated resources. U Pieper N Eswar BM Webb D Eramian L Kelly DT Barkan H Carter P Mankoo R Karchin MA Marti-Renom FP Davis A Sali, Nucleic Acids Res 2009 37 D347 354 10.1093/nar/gkn791 18948282
26. OrthoMCL: identification of ortholog groups for eukaryotic genomes. L Li CJ Stoeckert Jr DS Roos, Genome Res 2003 13 2178 2189 10.1101/gr.1224503 12952885
27. ChemAxon. http://www.chemaxon.com
28. JMol. http://www.jmol.org
29. Jalview Version 2 - a multiple sequence alignment editor and analysis workbench. AM Waterhouse JB Procter DM Martin M Clamp GJ Barton, Bioinformatics 2009 25 1189 1191 10.1093/bioinformatics/btp033 19151095
30. T-Coffee: A novel method for fast and accurate multiple sequence alignment. C Notredame DG Higgins J Heringa, J Mol Biol 2000 302 205 217 10.1006/jmbi.2000.4042 10964570
31. The past, present and future of antifolates in the treatment of Plasmodium falciparum infection. A Nzila, J Antimicrob Chemother 2006 57 1043 1054 10.1093/jac/dkl104 16617066
32. Drug Targets for Plasmodium falciparum: a post-genomic review/survey. I Yeh RB Altman, Mini Rev Med Chem 2006 6 177 202 10.2174/138955706775475957 16472186
33. Essential protein-protein interactions between Plasmodium falciparum thymidylate synthase and dihydrofolate reductase domains. S Shallom K Zhang L Jiang PK Rathod, J Biol Chem 1999 274 37781 37786 10.1074/jbc.274.53.37781 10608839
34. Lead discovery of inhibitors of the dihydrofolate reductase domain of Plasmodium falciparum dihydrofolate reductase-thymidylate synthase. T Toyoda RK Brobey G Sano T Horii N Tomioka A Itai, Biochem Biophys Res Commun 1997 235 515 519 10.1006/bbrc.1997.6814 9207187
35. Insights into antifolate resistance from malarial DHFR-TS structures. J Yuvaniyama P Chitnumsub S Kamchonwongpaisan J Vanichtanankul W Sirawaraporn P Taylor MD Walkinshaw Y Yuthavong, Nat Struct Biol 2003 10 357 365 10.1038/nsb921 12704428