Lead discovery for Alzheimer's disease related target protein RbAp48 from traditional Chinese medicine

BioMed Research International

Volumn 2014, Issue , 2014, Pages

  Huang, Hung Jin ^a   Lee, Cheng Chun ^b   Chen, Calvin Yu Chian ^b,c  

^a CHINA MEDICAL UNIVERSITY   (Taiwan)

^b CHINA MEDICAL UNIVERSITY   (Taiwan)

^c ASIA UNIVERSITY   (Taiwan)

Author keywords

[No Author keywords available]

Indexed keywords

5 METHOXY N METHYLTRYPTAMINE; BITTERSWEET ALKALOID II; CYTOCHROME P450 2D6; DOCOSANDIOIC ACID; EICOSANDIOIC ACID; FOG 1; HERBACEOUS AGENT; ISOLOBELANINE; N METHYLMESCALINE; PERIVINE; QUININONE; RETINOBLASTOMA BINDING PROTEIN 4; UNCLASSIFIED DRUG; VINCAMINE; LIGAND; MULTIPROTEIN COMPLEX; NUCLEAR PROTEIN; PROTEIN BINDING; RBBP4 PROTEIN, HUMAN; TRANSCRIPTION FACTOR; ZFPM1 PROTEIN, HUMAN;

ALZHEIMER DISEASE; ARTICLE; BINDING AFFINITY; BINDING SITE; BLOOD BRAIN BARRIER; CHINESE MEDICINE; CONTROLLED STUDY; DRUG ABSORPTION; DRUG PENETRATION; DRUG PROTEIN BINDING; DRUG SCREENING; DRUG SOLUBILITY; DRUG STABILITY; LIGAND BINDING; MOLECULAR DOCKING; MOLECULAR DYNAMICS; PROTEIN STRUCTURE; CHEMISTRY; DRUG EFFECTS; HUMAN; MEMORY DISORDERS; METABOLISM; PATHOLOGY;

ALZHEIMER DISEASE; BINDING SITES; HUMANS; LIGANDS; MEDICINE, CHINESE TRADITIONAL; MEMORY DISORDERS; MOLECULAR DOCKING SIMULATION; MOLECULAR DYNAMICS SIMULATION; MULTIPROTEIN COMPLEXES; NUCLEAR PROTEINS; PROTEIN BINDING; RETINOBLASTOMA-BINDING PROTEIN 4; TRANSCRIPTION FACTORS;

EID: 84903558226     PISSN: 23146133     EISSN: 23146141     Source Type: Journal    
DOI: 10.1155/2014/764946     Document Type: Article

References (46)

1. Nussbaum R. L., Ellis C. E., Alzheimer's disease and Parkinson's disease. The New England Journal of Medicine 2003 348 14 1356 1364 2-s2.0-0037417254 10.1056/NEJM2003ra020003 (Pubitemid 36384104)
2. Thies W., Bleiler L., 2012 Alzheimer's disease facts and figures. Alzheimer's and Dementia 2012 8 2 131 168 2-s2.0-84858225391 10.1016/j.jalz.2012.02.001
3. Lam B., Masellis M., Freedman M., Stuss D. T., Black S. E., Clinical, imaging, and pathological heterogeneity of the Alzheimer's disease syndrome. Alzheimer's Research and Therapy 2013 5 1, article 1 2-s2.0-84872102350 10.1186/alzrt155
4. Oakley H., Cole S. L., Logan S., Maus E., Shao P., Craft J., Guillozet-Bongaarts A., Ohno M., Disterhoft J., van Eldik L., Berry R., Vassar R., Intraneuronal β -amyloid aggregates, neurodegeneration, and neuron loss in transgenic mice with five familial Alzheimer's disease mutations: potential factors in amyloid plaque formation. Journal of Neuroscience 2006 26 40 10129 10140 2-s2.0-33749521100 10.1523/JNEUROSCI.1202-06.2006 (Pubitemid 44527407)
5. Tiraboschi P., Hansen L. A., Thal L. J., Corey-Bloom J., The importance of neuritic plaques and tangles to the development and evolution of AD. Neurology 2004 62 11 1984 1989 2-s2.0-2942561028 (Pubitemid 38738208)
6. Yaari R., Corey-Bloom J., Alzheimer's disease. Seminars in Neurology 2007 27 1 32 41 2-s2.0-33846939769 10.1055/s-2006-956753 (Pubitemid 46239037)
7. Thies W., Bleiler L., 2013 Alzheimer's disease facts and figures. Alzheimer's & Dementia 2013 9 2 208 245 10.1016/j.jalz.2013.02.003
8. Yin M.-C., Anti-glycative potential of triterpenes: a mini-review. BioMedicine 2012 2 1 2 9 2-s2.0-84861190837 10.1016/j.biomed.2011.12.001
9. Pavlopoulos E., Jones S., Kosmidis S., Molecular mechanism for age-related memory loss: the histone-binding protein RbAp48. Science Translational Medicine 2013 5 200 200ra115 10.1126/scitranslmed.3006373
10. Denslow S. A., Wade P. A., The human Mi-2/NuRD complex and gene regulation. Oncogene 2007 26 37 5433 5438 2-s2.0-34547856653 10.1038/sj.onc.1210611 (Pubitemid 47255925)
11. Bowen N. J., Fujita N., Kajita M., Wade P. A., Mi-2/NuRD: multiple complexes for many purposes. Biochimica et Biophysica Acta: Gene Structure and Expression 2004 1677 1-3 52 57 2-s2.0-1542268361 10.1016/j.bbaexp.2003.10.010 (Pubitemid 38327088)
12. Yang S.-C., Chang S.-S., Chen C. Y.-C., Identifying HER2 inhibitors from natural products database. PLoS ONE 2011 6 12 2-s2.0-83155183294 10.1371/journal.pone.0028793 e28793
13. Hsieh C.-L., Acupuncture as treatment for nervous system diseases. BioMedicine 2012 2 2 51 57 2-s2.0-84862776179 10.1016/j.biomed.2012.04.004
14. Chen K.-C., Chang K.-W., Chen H.-Y., Chen C. Y.-C., Traditional Chinese medicine, a solution for reducing dual stroke risk factors at once? Molecular BioSystems 2011 7 9 2711 2719 2-s2.0-80051760684 10.1039/c1mb05164d
15. Hsu S.-C., Chung J.-G., Anticancer potential of emodin. BioMedicine 2012 2 3 108 116 2-s2.0-84866514183 10.1016/j.biomed.2012.03.003
16. Chen C. Y.-C., A novel integrated framework and improved methodology of computer-aided drug design. Current Topics in Medicinal Chemistry 2013 13 9 965 988 2-s2.0-84878775187 10.2174/1568026611313090002
17. Huang H.-J., Yu H. W., Chen C.-Y., Hsu C.-H., Chen H.-Y., Lee K.-J., Tsai F.-J., Chen C. Y.-C., Current developments of computer-aided drug design. Journal of the Taiwan Institute of Chemical Engineers 2010 41 6 623 635 2-s2.0-78649451630 10.1016/j.jtice.2010.03.017
18. Chen C. Y.-C., Tou W. I., How to design a drug for the disordered proteins? Drug Discovery Today 2013 18 19-20 910 915 10.1016/j.drudis.2013.04. 008
19. Chang K.-W., Tsai T.-Y., Chen K.-C., Yang S.-C., Huang H.-J., Chang T.-T., Sun M.-F., Chen H.-Y., Tsai F.-J., Chen C. Y.-C., iSMART: an integrated cloud computing web server for traditional Chinese medicine for online virtual screening, de novo evolution and drug design. Journal of Biomolecular Structure and Dynamics 2011 29 1 243 250 2-s2.0-79959444251
20. Tsai T.-Y., Chang K.-W., Chen C. Y.-C., IScreen: world's first cloud-computing web server for virtual screening and de novo drug design based on TCM Database@Taiwan. Journal of Computer-Aided Molecular Design 2011 25 6 525 531 2-s2.0-80051545693 10.1007/s10822-011-9438-9
21. Li C.-C., Lo H.-Y., Hsiang C.-Y., Ho T.-Y., DNA microarray analysis as a tool to investigate the therapeutic mechanisms and drug development of Chinese medicinal herbs. BioMedicine 2012 2 1 10 16 2-s2.0-84862784657 10.1016/j.biomed.2012.02.002
22. Huang H. J., Jian Y. R., Chen C. Y.-C., Traditional Chinese medicine application in HIV: an in silico study. Journal of Biomolecular Structure and Dynamics 2014 32 1 1 12 10.1080/07391102.2012.745168
23. Yang G. Y., Luo H., Liao X., Liu J. P., Chinese herbal medicine for the treatment of recurrent miscarriage: a systematic review of randomized clinical trials. BMC Complementary and Alternative Medicine 2013 13, article 320 10.1186/1472-6882-13-320
24. Lin P.-C., Liu P.-Y., Lin S.-Z., Harn H.-J., Angelica sinensis: a Chinese herb for brain cancer therapy. BioMedicine 2012 2 1 30 35 2-s2.0-84862829538 10.1016/j.biomed.2011.12.003
25. Hsu S.-C., Lin J.-H., Weng S.-W., Chueh F.-S., Yu C.-C., Lu K.-W., Wood W. G., Chung J.-G., Crude extract of Rheum palmatum inhibits migration and invasion of U-2 OS human osteosarcoma cells by suppression of matrix metalloproteinase-2 and -9. BioMedicine 2013 3 3 120 129 2-s2.0-84881357953 10.1016/j.biomed.2013.04.008
26. Chang S.-S., Huang H.-J., Chen C. Y.-C., Two birds with one stone? Possible dual-targeting H1N1 inhibitors from traditional Chinese medicine. PLoS Computational Biology 2011 7 12 2-s2.0-84855282742 10.1371/journal.pcbi.1002315 e1002315
27. Chang S.-S., Huang H.-J., Chen C. Y.-C., High performance screening, structural and molecular dynamics analysis to identify H1 inhibitors from TCM Database@Taiwan. Molecular BioSystems 2011 7 12 3366 3374 2-s2.0-80755182421 10.1039/c1mb05320e
28. Chang T.-T., Sun M.-F., Chen H.-Y., Tsai F.-J., Fisher M., Lin J.-G., Chen C. Y.-C., Screening from the world's largest TCM database against H1N1 virus. Journal of Biomolecular Structure and Dynamics 2011 28 5 773 786 2-s2.0-79952209193
29. Chang T.-T., Chen K.-C., Chang K.-W., Chen H.-Y., Tsai F.-J., Sun M.-F., Chen C. Y.-C., In silico pharmacology suggests ginger extracts may reduce stroke risks. Molecular BioSystems 2011 7 9 2702 2710 2-s2.0-80051767195 10.1039/c1mb05228d
30. Chen K.-C., Chen C. Y.-C., Stroke prevention by traditional Chinese medicine? A genetic algorithm, support vector machine and molecular dynamics approach. Soft Matter 2011 7 8 4001 4008 2-s2.0-79953746295 10.1039/c0sm01548b
31. Chen C. Y.-C., Computational screening and design of Traditional Chinese Medicine (TCM) to block phosphodiesterase-5. Journal of Molecular Graphics and Modelling 2009 28 3 261 269 2-s2.0-70349512313 10.1016/j.jmgm.2009.08.004
32. Chen K.-C., Chang S.-S., Huang H.-J., Lin T.-L., Wu Y.-J., Chen C. Y.-C., Three-in-one agonists for PPAR-a, PPAR- γ and PPAR-d from traditional Chinese medicine. Journal of Biomolecular Structure and Dynamics 2012 30 6 662 683 2-s2.0-84871181814 10.1080/07391102.2012.689699
33. Chen K.-Y., Chang S.-S., Chen C. Y.-C., In silico identification of potent pancreatic triacylglycerol lipase inhibitors from traditional Chinese medicine. PLoS ONE 2012 7 9 2-s2.0-84866065800 10.1371/journal.pone.0043932 e43932
34. Chen K.-C., Chang S. S., Tsai F. J., Chen C. Y.-C., Han ethnicity-specific type 2 diabetic treatment from traditional Chinese medicine? Journal of Biomolecular Structure and Dynamics 2013 31 11 1219 1235 10.1080/07391102.2012.732340
35. Chen K.-C., Jian Y. R., Sun M. F., Investigation of silent information regulator 1 (Sirt1) agonists from Traditional Chinese Medicine. Journal of Biomolecular Structure and Dynamics 2013 31 11 1207 1218 10.1080/07391102.2012. 726191
36. Chen K.-C., Sun M.-F., Yang S.-C., Chang S.-S., Chen H.-Y., Tsai F.-J., Chen C. Y.-C., Investigation into potent inflammation inhibitors from traditional Chinese medicine. Chemical Biology and Drug Design 2011 78 4 679 688 2-s2.0-80052619174 10.1111/j.1747-0285.2011.01202.x
37. Huang H.-J., Lee C.-C., Chen C. Y.-C., Pharmacological chaperone design for reducing risk factor of Parkinson's disease from traditional Chinese medicine. Evidence-Based Complementary and Alternative Medicine 2014 2014 12 830490 10.1155/2014/830490
38. Tsou Y.-A., Chen K.-C., Lin H.-C., Chang S.-S., Chen C. Y.-C., Uroporphyrinogen decarboxylase as a potential target for specific components of traditional Chinese medicine: a virtual screening and molecular dynamics study. PLoS ONE 2012 7 11 2-s2.0-84870550823 10.1371/journal.pone.0050087 e50087
39. Yang S.-C., Chang S.-S., Chen H.-Y., Chen C. Y.-C., Identification of potent EGFR inhibitors from TCM Database@Taiwan. PLoS Computational Biology 2011 7 10 2-s2.0-80055077153 10.1371/journal.pcbi.1002189 e1002189
40. Chen C. Y.-C., TCM Database@Taiwan: the world's largest traditional Chinese medicine database for drug screening in silico. PLoS ONE 2011 6 1 2-s2.0-79251561193 10.1371/journal.pone.0015939 e15939
41. Lejon S., Thong S. Y., Murthy A., AlQarni S., Murzina N. V., Blobel G. A., Laue E. D., Mackay J. P., Insights into association of the NuRD complex with FOG-1 from the crystal structure of an RbAp48·FOG-1 complex. Journal of Biological Chemistry 2011 286 2 1196 1203 2-s2.0-78651380341 10.1074/jbc.M110.195842
42. Accelerys, Discovery Studio Client V2.5 2009 San Diego, Calif, USA Accelrys
43. Xue B., Dunbrack R. L., Williams R. W., Dunker A. K., Uversky V. N., PONDR-FIT: a meta-predictor of intrinsically disordered amino acids. Biochimica et Biophysica Acta: Proteins and Proteomics 2010 1804 4 996 1010 2-s2.0-76849087968 10.1016/j.bbapap.2010.01.011
44. Pronk S., Páll S., Schulz R., Larsson P., Bjelkmar P., Apostolov R., Shirts M. R., Smith J. C., Kasson P. M., Van Der Spoel D., Hess B., Lindahl E., GROMACS 4.5: a high-throughput and highly parallel open source molecular simulation toolkit. Bioinformatics 2013 29 7 845 854 2-s2.0-84875592758 10.1093/bioinformatics/btt055
45. Zoete V., Cuendet M. A., Grosdidier A., Michielin O., SwissParam: a fast force field generation tool for small organic molecules. Journal of Computational Chemistry 2011 32 11 2359 2368 2-s2.0-79958841703 10.1002/jcc.21816
46. Tou W. I., Chen C. Y.-C., May disordered protein cause serious drug side effect? Drug Discovery Today 2014 19 4 367 372 10.1016/j.drudis.2013.10.020