Primary Citation PubMed: 10956187
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Ligation site in proteins recognized in silico.
(2006) Bioinformation 1
PubMed: 17597871 | PubMedCentral: PMC1891674 | DOI: null
Methodology Data Complexes selected for analysis presented in this paper are: cAMP-dependent protein kinase (PDB ID: 1CDK), cyclin-dependent protein kinase 2 (PDB ID: 1E1V), proto-oncogene tyrosine-pr... tein kinase ABL (PDB ID: 1IEP), S-lectin (PDB ID: 1SLT).
Publication Year: 2006
EDULISS: a small-molecule database with data-mining and pharmacophore searching capabilities.
(2011) Nucleic Acids Res 39
PubMed: 21051336 | PubMedCentral: PMC3013767 | DOI: 10.1093/nar/gkq878
Case study 1: identifying cyclin dependent kinases inhibitors As a test for the pharmacaphore searching routine we used the eight available structures of CDK complexes stored in the PDBbind database (... 27 ) with PDB codes 1AQ1, 1DI8, 1DM2, 1E1V, 1E1X, 1FVV, 1UNH and 2A4L.
Publication Year: 2011
Prediction of molecular targets of cancer preventing flavonoid compounds using computational methods.
(2012) PLoS One 7
PubMed: 22693608 | PubMedCentral: PMC3365021 | DOI: 10.1371/journal.pone.0038261
Protein PDB ID Ligand Code Shape SimilarityScore Reported Inhibitor Average SimilarityScore Hits Pim-1 2O3P QUE 0.90 yes 0.82 8 ** 2O63 MYC 0.88 yes 2O64 MYU 0.86 yes GSK-3β 3D... 8 553 0.83 yes 0.79 5 ** 1Q41 IXM 0.80 yes 3ZRL ZRL 0.78 yes PI3-K * 3PRZ 3RZ 0.81 yes 0.77 6 ** 3DPD 41A 0.79 yes 3PS6 3PS 0.78 yes Cdk2 1E1V CMG 0.83 yes 0.76 16 ** 1H0W 207 0.82 yes 1E1X NW1 0.80 yes Raf * 3PPJ FOI 0.73 yes 0.72 2 3C4C 324 0.71 yes MEK1 * 3EQH ADP 0.71 yes 0.71 1 * , Protein targets that been validated in our laboratory.
Publication Year: 2012
PubMed ID is not available.
Published in 2015
PDB ID Resolution (Å) 1GZ8 1.30 1JVP 1.53 1H00 1.60 1OIT 1.60 1URW 1.60 1H01 1.79 1H08 1.80 1E1X 1.85 1H07 1.85 1H0V 1.90 1OIR 1.91 1E1V 1.95 1PXI 1.95 1JSV 1.96 1PXO 1.96 1AQ1 2.00 1GII 2.00 ... KE6 2.00 1KE7 2.00 1KE8 2.00 1KE9 2.00 1PYE 2.00 1R78 2.00 1CKP 2.05 1DM2 2.10 1H0W 2.10 1DI8 2.20 1FVT 2.20 1GIJ 2.20 1KE5 2.20 1W0X 2.20 1VYZ 2.21 1PXJ 2.30 1PXP 2.30 1OIQ 2.31 1V1K 2.31 1P2A 2.50 1PXL 2.50 1PXN 2.50 1PF8 2.51 1PXM 2.53 1G5S 2.61 1GIH 2.80 1PXK 2.80 The final score used to rank compounds was purposely designed to be the average score across these 44 structures of CDK2 so as to account for structural variability.
Publication Year: 2015
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