Primary Citation PubMed: 12941325
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Combining docking with pharmacophore filtering for improved virtual screening.
(2009) J Cheminform 1
PubMed: 20298524 | PubMedCentral: PMC3152774 | DOI: 10.1186/1758-2946-1-6
This crystal structure, 1OIT , is in an active, open conformation and has a high crystallographic resolution of 1.6 Å [ 25 ].
To develop these filters, we proceeded in a similar way as for neuraminidase and docked a small set of 12 co-crystallized CDK2 ligands back into the 1OIT binding site [ 24 ].
Publication Year: 2009
Structure of a cyclin-dependent kinase from Giardia lamblia.
(2011) Acta Crystallogr Sect F Struct Biol Cryst Commun 67
PubMed: 21904054 | PubMedCentral: PMC3169406 | DOI: 10.1107/S1744309111018070
A search of the PDB for sequence homology yielded human cyclin-dependent kinase CDK2 (PDB entry 1oit ; Anderson et al. , 2003 ▶ ) as the closest homolog, with 56% sequence identity.
The search model was derived from monomer A of PDB entry 1oit using the CCP 4 (Winn et al. , 2011 ▶ ) program CHAINSAW (Stein, 2008 ▶ ).
Publication Year: 2011
A physicochemical descriptor-based scoring scheme for effective and rapid filtering of kinase-like chemical space.
(2012) J Cheminform 4
PubMed: 22316383 | PubMedCentral: PMC3299594 | DOI: 10.1186/1758-2946-4-4
The PDB codes for these proteins are 2FB8 [ 72 ], 2PZY [ 73 ], and 1OIT [ 74 ] respectively.
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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