Primary Citation PubMed: 12061878
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Automated docking screens: a feasibility study.
(2009) J Med Chem 52
PubMed: 19719084 | PubMedCentral: PMC2745826 | DOI: 10.1021/jm9006966
There were three nuclear receptors ( 1M2Z , 1N46 , 1SQN ), six kinases ( 1KE5 , 1OPK , 1YWR , 1V4S , 1PMN , 1T46 ), and seven other enzymes ( 1HWI , 1OF6 , 1LPZ , 1Q4G , 1JLA , 1R9O , 1VCJ ).
Publication Year: 2009
Development and validation of an improved algorithm for overlaying flexible molecules.
(2012) J Comput Aided Mol Des 26
PubMed: 22538643 | PubMedCentral: PMC3348445 | DOI: 10.1007/s10822-012-9573-y
In Factor Xa complexes, for instance, Asp189 often forms strong hydrogen bonds to ligand groups such as amidinium, but it can also interact with phenyl CH groups (for example, see PDB complexes 1lpz a... d 1iqm).
Publication Year: 2012
Variability in docking success rates due to dataset preparation.
PubMed: 22566074 | PubMedCentral: PMC3397132 | DOI: 10.1007/s10822-012-9570-1
Table 2 Complexes requiring capping of chain termini or chain breaks Complexes requiring capping of chain termini 1GKC 1MEH 1Q41 1V48 1GM8 1 MMV 1R55 1V4S 1G... K 1 MZC 1R9O 1W1P 1HNN 1N1M 1S19 1W2G 1HP0 1N2J 1SJ0 1XM6 1HWI 1N2V 1SQN 1XOQ 1HWW 1N46 1T46 1XOZ 1IG3 1OF1 1T9B 1Y6B 1J3J 1OF6 1TT1 1YGC 1JD0 1OPK 1TZ8 1YQY 1JJE 1OQ5 1U1C 1YV3 1JLA 1OYT 1U4D 1YVF 1K3U 1P2Y 1UML 1YWR 1LPZ 1P62 1UNL 2BM2 1LRH 1PMN 1UOU 2BR1 1M2Z 1Q1G 1V0P 2BSM Complexes requiring capping of chain breaks 1GPK 1N46 1SJ0 1V48 1HP0 1NAV 1SQ5 1W2G 1HWI 1OF1 1SQN 1XM6 1J3J 1OF6 1T46 1XOQ 1JLA 1OYT 1T9B 1Y6B 1KE5 1P62 1U1C 1YV3 1L2S 1PMN 1U4D 1YWR 1MEH 1Q41 1UOU 1Z95 1MMV 1R9O 1V0P 2BR1 The ‘corrected’ ACS-Astex dataset After the session transpired at the ACS meeting, 3 structures from the ACS-Astex set (1GPK, 1HVY and 1S3V) were identified as containing an inverted stereocenter in the original dataset given to the participants compared to the original PDB structure.
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