DOCK version 3.5.54, compiled on 20120216 CPU, Date, and Time: node-3-16.c.bkslab.org 13-Mar-12 14:16:24 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: /raid3/people/mysinger/pxc/dude/original/dud_lig_comt_0001.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 = 1686625 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 -26.55700 -33.95700 -30.93000 grid max 13.94300 8.543000 2.070000 using cluster number: 1 output file: test.eel1.gz Receptor spheres: 45 0 0 0 0 0 30 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 13.23535 mol# id_num matched nscored nhvy nconfs part.fcn Time E id_num nbr elect + vdW + polsol + apolsol = Total 1 C00021789 1262 521437 13 8 1188.8 0.88 E C00021789 4 -26.08 -14.01 5.62 2.52 -31.95 2 C00392003 3420 1204956 9 3 4901.2 2.86 E C00392003 2 -43.25 -11.22 4.86 -1.13 -50.75 3 C03801154 4469 2862673 14 32 3643.7 4.77 E C03801154 4 -35.20 -18.07 15.08 0.99 -37.20 4 C00330141 3147 2059656 9 8 4150.6 2.46 E C00330141 4 -28.24 -13.25 5.50 2.57 -33.41 5 C03814486 3165 5288578 29 15168 1741.5 9.45 E C03814486 5 -27.75 -24.25 7.59 2.13 -42.27 6 C03814486 3169 5171167 29 15232 2050.0 9.54 E C03814486 5 -31.38 -23.15 8.20 3.84 -42.49 7 C03814484 1154 433428 11 2 1321.1 1.04 E C03814484 2 -62.07 -10.23 20.84 0.12 -51.34 8 C00392003 3128 539719 9 1 4636.0 2.22 E C00392003 1 -69.17 -10.76 40.08 -1.28 -41.12 9 C03814480 3165 1803789 15 32 2918.9 2.81 E C03814480 5 -27.14 -14.29 6.37 2.82 -32.25 10 C03814485 1115 709243 12 8 958.2 0.97 E C03814485 4 -74.59 -9.15 32.43 0.05 -51.26 read error on database (Molecule name or count) Attempting read recovery @ C03814487 11 C03814487 3162 6064255 30 23808 2197.9 12.27 E C03814487 5 -25.24 -24.80 7.93 3.63 -38.48 12 C03814483 4403 2574024 12 27 5513.8 4.45 E C03814483 2 -67.86 -9.22 34.58 1.51 -40.99 13 C03814483 3430 2123218 12 27 1171.4 3.64 E C03814483 2 -82.06 -7.70 36.64 1.95 -51.17 14 C03814483 2985 1677412 12 27 1933.9 2.90 E C03814483 2 -62.70 -8.21 32.75 1.53 -36.63 15 C03814483 2377 1176098 12 18 1488.5 2.07 E C03814483 2 -79.92 -7.48 35.97 1.90 -49.53 16 C03814483 4401 2482907 12 27 1588.8 4.31 E C03814483 2 -83.07 -4.95 39.31 1.99 -46.71 17 C03814483 3521 1829617 12 27 4127.5 3.25 E C03814483 2 -47.34 -11.61 28.13 1.53 -29.30 18 C03814483 3911 1964049 12 27 3568.2 3.49 E C03814483 2 -79.69 -7.46 38.75 2.21 -46.19 19 C03814483 3739 1638515 12 18 2456.8 3.00 E C03814483 2 -46.11 -8.77 27.60 1.97 -25.32 20 C03814484 1184 532548 11 4 1268.8 0.93 E C03814484 3 -21.20 -16.44 5.35 0.66 -31.63 21 C03814482 3165 3959467 27 5312 457.5 6.33 E C03814482 5 -28.89 -25.69 8.41 2.94 -43.24 22 C03814482 3168 3905336 27 5312 1258.7 6.09 E C03814482 5 -21.94 -26.33 7.68 3.13 -37.46 EOF: /raid3/people/mysinger/pxc/dude/original/dud_lig_comt_0001.db.gz end of file encountered total minimization steps = 4678058 for debugging, time = 91.78000 solvation corrected scores: (a) 1 C03814484 score: -51.341 nathvy = 11 nconfs = 2 2 C03814485 score: -51.259 nathvy = 12 nconfs = 8 3 C03814483 score: -51.169 nathvy = 12 nconfs = 27 4 C00392003 score: -50.749 nathvy = 9 nconfs = 3 5 C03814483 score: -49.534 nathvy = 12 nconfs = 18 6 C03814483 score: -46.714 nathvy = 12 nconfs = 27 7 C03814483 score: -46.189 nathvy = 12 nconfs = 27 8 C03814482 score: -43.235 nathvy = 27 nconfs = 5312 9 C03814486 score: -42.491 nathvy = 29 nconfs = 15232 10 C03814486 score: -42.273 nathvy = 29 nconfs = 15168 11 C00392003 score: -41.125 nathvy = 9 nconfs = 1 12 C03814483 score: -40.995 nathvy = 12 nconfs = 27 13 C03814487 score: -38.477 nathvy = 30 nconfs = 23808 14 C03814482 score: -37.463 nathvy = 27 nconfs = 5312 15 C03801154 score: -37.200 nathvy = 14 nconfs = 32 16 C03814483 score: -36.631 nathvy = 12 nconfs = 27 17 C00330141 score: -33.414 nathvy = 9 nconfs = 8 18 C03814480 score: -32.249 nathvy = 15 nconfs = 32 19 C00021789 score: -31.949 nathvy = 13 nconfs = 8 20 C03814484 score: -31.631 nathvy = 11 nconfs = 4 21 C03814483 score: -29.297 nathvy = 12 nconfs = 27 22 C03814483 score: -25.316 nathvy = 12 nconfs = 18 Date and Time: 13-Mar-12 14:18:16 elapsed time (sec): 91.8000