DOCK version 3.5.54, compiled on 20120216 CPU, Date, and Time: node-5-02.c.bkslab.org 10-Apr-12 19:29:33 Solvation type: context-dependent ligand desolvation Internal Distance Clashes will be checked Receptor spheres: ../../sph/match2.sph Receptor cluster number(s): 1 Desolvation grid: ../../grids/solvmap_sev :dislim = 1.5000 maxnodes = 4 ratiom = 0.0000 minnodes = 3 :lbinsz = 0.4000 lovlap = 0.1000 sbinsz = 0.4000 sovlap = 0.1000 Input ligand: ../../lig/db.db.gz DelPhi grid: ../../grids/rec+sph.phi vdW parms: ../../grids/vdw.parms.amb.mindock chemgrid prefix: ../../grids/chem resolution = 0.3300000 number of points = 1845120 a maximum of 1 bad contacts will be allowed for each orientation random seed = 777 natmin = 5 natmax = 100 nsav = 50000 300000 molecules may be searched in this run hydrogens always written out zooming will not be done trilinear interpolation is always done Orientation minimization: best conformation Simplex parameters: Max energy to minimize: 0.100E+16 Max step-size for translation (A): 0.20 Max step-size for euler angles: 5.00 Min energy change for restart (kcal/mol): 1.00 Energy convergence tolerance (kcal/mol): 0.10 Max number of iterations: 200 database version: 5.2 7 colors used in ligand database file 12 colors used in receptor sphere file ligand color positive 1 merged number = 1 ligand color negative 2 merged number = 2 ligand color acceptor 3 merged number = 3 ligand color donor 4 merged number = 4 ligand color ester_o 5 merged number = 5 ligand color amide_o 6 merged number = 6 ligand color neutral 7 merged number = 7 receptor color positive 1 merged number = 1 receptor color negative 2 merged number = 2 receptor color acceptor 3 merged number = 3 receptor color donor 4 merged number = 4 receptor color ester_o 5 merged number = 5 receptor color amide_o 6 merged number = 6 receptor color neutral 7 merged number = 7 receptor color not_neutral 8 merged number = 8 receptor color positive_or_donor 9 merged number = 9 receptor color negative_or_acceptor 10 merged number = 10 receptor color neutral_or_acceptor_or_donor 11 merged number = 11 receptor color donacc 12 merged number = 12 12 colors in merged ligand-sphere color table this is a run with labeled color matching: match positive negative match positive negative_or_acceptor match positive not_neutral match negative positive match negative positive_or_donor match negative not_neutral match donor acceptor match donor donacc match donor negative_or_acceptor match donor neutral_or_acceptor_or_donor match donor not_neutral match acceptor donor match acceptor donacc match acceptor positive_or_donor match acceptor neutral_or_acceptor_or_donor match acceptor not_neutral match neutral neutral match neutral neutral_or_acceptor_or_donor match ester_o donor match ester_o donacc match ester_o positive_or_donor match ester_o not_neutral match amide_o donor match amide_o donacc match amide_o positive_or_donor match amide_o not_neutral 26 chemical matches specified grid min -1.862000 -43.74100 -16.24000 grid max 38.63800 -3.741000 22.76000 using cluster number: 1 output file: test.eel1.gz Receptor spheres: 45 0 0 0 0 0 33 non-zero colors in receptor sphere cluster cluster 1 with 45 spheres 9001 9002 9003 9004 9005 9006 9007 9008 9009 9010 9011 9012 9013 9014 9015 9016 9017 9018 9019 9020 9021 9022 9023 9024 9025 9026 9027 9028 9029 9030 9031 9032 9033 9034 9035 9036 9037 9038 9039 9040 9041 9042 9043 9044 9045 maximum receptor sphere-sphere distance 15.88705 mol# id_num matched nscored nhvy nconfs part.fcn Time E id_num nbr elect + vdW + polsol + apolsol = Total 1 P00000001 4944 1845606 43 13240 733.0 1.82 E P00000001 2 -7.25 -34.38 8.33 -3.77 -37.06 2 P00000001 2015 1483886 43 1379 940.3 1.77 E P00000001 2 0.49 -39.41 9.24 -4.69 -34.38 3 P00000001 3614 2638042 43 6063 1162.3 2.64 E P00000001 2 -18.80 -26.37 9.18 -3.58 -39.57 4 P00000001 2635 1747020 43 6232 790.0 1.81 E P00000001 3 -18.54 -26.16 7.29 -2.86 -40.27 5 P00000001 4944 1872926 43 13790 1190.0 1.83 E P00000001 2 -8.44 -28.63 8.62 -2.77 -31.23 6 P00000001 1422 1140281 43 1413 740.0 1.38 E P00000001 2 -2.22 -28.92 13.31 -3.11 -20.95 7 P00000001 3614 2781081 43 6096 938.1 2.99 E P00000001 2 -9.32 -29.04 8.05 -3.17 -33.48 8 P00000001 2635 1775654 43 6240 1105.1 2.00 E P00000001 3 -9.62 -28.14 7.16 -3.20 -33.79 EOF: ../../lig/db.db.gz end of file encountered total minimization steps = 603959 for debugging, time = 17.22000 solvation corrected scores: (a) 1 P00000001 score: -40.273 nathvy = 43 nconfs = 6232 2 P00000001 score: -39.572 nathvy = 43 nconfs = 6063 3 P00000001 score: -37.061 nathvy = 43 nconfs = 13240 4 P00000001 score: -34.380 nathvy = 43 nconfs = 1379 5 P00000001 score: -33.795 nathvy = 43 nconfs = 6240 6 P00000001 score: -33.480 nathvy = 43 nconfs = 6096 7 P00000001 score: -31.233 nathvy = 43 nconfs = 13790 8 P00000001 score: -20.948 nathvy = 43 nconfs = 1413 Date and Time: 10-Apr-12 19:29:53 elapsed time (sec): 17.2300