Executing save_all.py... Opening model.000.03.pdb... The following problems occurred while reading PDB file for model.000.03.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.000.03.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.000.03.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa481849418>, <_molecule.Molecule object at 0x7fa481849440>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.000.03.pdb Opening model.000.02.pdb... The following problems occurred while reading PDB file for model.000.02.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.000.02.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.000.02.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa481913328>, <_molecule.Molecule object at 0x7fa481913350>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.000.02.pdb Opening model.006.01.pdb... The following problems occurred while reading PDB file for model.006.01.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.006.01.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.006.01.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa48108edc8>, <_molecule.Molecule object at 0x7fa48108edf0>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.006.01.pdb Opening model.004.10.pdb... The following problems occurred while reading PDB file for model.004.10.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.004.10.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.004.10.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa4809228a0>, <_molecule.Molecule object at 0x7fa4809228c8>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.004.10.pdb Opening model.006.08.pdb... The following problems occurred while reading PDB file for model.006.08.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.006.08.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.006.08.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa480970378>, <_molecule.Molecule object at 0x7fa4809703a0>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.006.08.pdb Opening model.004.03.pdb... The following problems occurred while reading PDB file for model.004.03.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.004.03.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.004.03.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa48095be18>, <_molecule.Molecule object at 0x7fa48095be40>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.004.03.pdb Opening model.004.11.pdb... The following problems occurred while reading PDB file for model.004.11.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.004.11.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.004.11.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa4809e88f0>, <_molecule.Molecule object at 0x7fa4809e8918>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.004.11.pdb Opening model.000.04.pdb... The following problems occurred while reading PDB file for model.000.04.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.000.04.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.000.04.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa4809dd3c8>, <_molecule.Molecule object at 0x7fa4809dd3f0>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.000.04.pdb Opening model.002.05.pdb... The following problems occurred while reading PDB file for model.002.05.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.002.05.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.002.05.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa481521e68>, <_molecule.Molecule object at 0x7fa481521e90>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.002.05.pdb Opening model.006.00.pdb... The following problems occurred while reading PDB file for model.006.00.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.006.00.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.006.00.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa48152a940>, <_molecule.Molecule object at 0x7fa48152a968>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.006.00.pdb Opening model.002.14.pdb... The following problems occurred while reading PDB file for model.002.14.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.002.14.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.002.14.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa4808c6bc0>, <_molecule.Molecule object at 0x7fa4808c6be8>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.002.14.pdb Opening model.006.02.pdb... The following problems occurred while reading PDB file for model.006.02.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.006.02.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.006.02.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa4815c6eb8>, <_molecule.Molecule object at 0x7fa4815c6ee0>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.006.02.pdb Opening model.004.06.pdb... The following problems occurred while reading PDB file for model.004.06.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.004.06.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.004.06.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa481511990>, <_molecule.Molecule object at 0x7fa4815119b8>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.004.06.pdb Opening model.004.04.pdb... The following problems occurred while reading PDB file for model.004.04.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.004.04.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.004.04.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa481525468>, <_molecule.Molecule object at 0x7fa481525490>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.004.04.pdb Opening model.006.06.pdb... The following problems occurred while reading PDB file for model.006.06.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.006.06.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.006.06.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa481522f08>, <_molecule.Molecule object at 0x7fa481522f30>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.006.06.pdb Opening model.006.04.pdb... The following problems occurred while reading PDB file for model.006.04.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.006.04.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.006.04.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa4815139e0>, <_molecule.Molecule object at 0x7fa481513a08>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.006.04.pdb Opening model.002.07.pdb... The following problems occurred while reading PDB file for model.002.07.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.002.07.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.002.07.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa48150a4b8>, <_molecule.Molecule object at 0x7fa48150a4e0>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.002.07.pdb Opening model.002.03.pdb... The following problems occurred while reading PDB file for model.002.03.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.002.03.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.002.03.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa480508f58>, <_molecule.Molecule object at 0x7fa480508f80>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.002.03.pdb Opening model.004.12.pdb... The following problems occurred while reading PDB file for model.004.12.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.004.12.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.004.12.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa48015ca30>, <_molecule.Molecule object at 0x7fa48015ca58>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.004.12.pdb Opening model.000.13.pdb... The following problems occurred while reading PDB file for model.000.13.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.000.13.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.000.13.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa4805e0508>, <_molecule.Molecule object at 0x7fa4805e0530>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.000.13.pdb Opening model.002.10.pdb... The following problems occurred while reading PDB file for model.002.10.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.002.10.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.002.10.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa4818befa8>, <_molecule.Molecule object at 0x7fa4818befd0>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.002.10.pdb Opening model.004.13.pdb... The following problems occurred while reading PDB file for model.004.13.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.004.13.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.004.13.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa4810aca80>, <_molecule.Molecule object at 0x7fa4810acaa8>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.004.13.pdb Opening model.002.11.pdb... The following problems occurred while reading PDB file for model.002.11.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.002.11.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.002.11.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa4810ad558>, <_molecule.Molecule object at 0x7fa4810ad580>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.002.11.pdb Opening model.004.05.pdb... The following problems occurred while reading PDB file for model.004.05.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.004.05.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.004.05.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa481885030>, <_molecule.Molecule object at 0x7fa481885058>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.004.05.pdb Opening model.000.12.pdb... The following problems occurred while reading PDB file for model.000.12.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.000.12.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.000.12.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa4818b2ad0>, <_molecule.Molecule object at 0x7fa4818b2af8>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.000.12.pdb Opening model.000.10.pdb... The following problems occurred while reading PDB file for model.000.10.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.000.10.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.000.10.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa4818bc5a8>, <_molecule.Molecule object at 0x7fa4818bc5d0>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.000.10.pdb Opening model.004.02.pdb... The following problems occurred while reading PDB file for model.004.02.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.004.02.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.004.02.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa481888080>, <_molecule.Molecule object at 0x7fa4818880a8>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.004.02.pdb Opening model.002.02.pdb... The following problems occurred while reading PDB file for model.002.02.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.002.02.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.002.02.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa4810ebb20>, <_molecule.Molecule object at 0x7fa4810ebb48>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.002.02.pdb Opening model.006.03.pdb... The following problems occurred while reading PDB file for model.006.03.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.006.03.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.006.03.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa480ddc5f8>, <_molecule.Molecule object at 0x7fa480ddc620>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.006.03.pdb Opening model.002.15.pdb... The following problems occurred while reading PDB file for model.002.15.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.002.15.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.002.15.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa480de10d0>, <_molecule.Molecule object at 0x7fa480de10f8>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.002.15.pdb Opening model.004.09.pdb... The following problems occurred while reading PDB file for model.004.09.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.004.09.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.004.09.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa4810d0b70>, <_molecule.Molecule object at 0x7fa4810d0b98>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.004.09.pdb Opening model.002.09.pdb... The following problems occurred while reading PDB file for model.002.09.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.002.09.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.002.09.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa4810f2648>, <_molecule.Molecule object at 0x7fa4810f2670>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.002.09.pdb Opening model.000.00.pdb... The following problems occurred while reading PDB file for model.000.00.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.000.00.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.000.00.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa4810e5120>, <_molecule.Molecule object at 0x7fa4810e5148>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.000.00.pdb Opening model.000.11.pdb... The following problems occurred while reading PDB file for model.000.11.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.000.11.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.000.11.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa480ddfbc0>, <_molecule.Molecule object at 0x7fa480ddfbe8>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.000.11.pdb Opening model.000.06.pdb... The following problems occurred while reading PDB file for model.000.06.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.000.06.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.000.06.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa47fd09620>, <_molecule.Molecule object at 0x7fa47fd09648>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.000.06.pdb Opening model.002.08.pdb... The following problems occurred while reading PDB file for model.002.08.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.002.08.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.002.08.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa47fc42170>, <_molecule.Molecule object at 0x7fa47fc42198>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.002.08.pdb Opening model.004.01.pdb... The following problems occurred while reading PDB file for model.004.01.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.004.01.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.004.01.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa4810ffc10>, <_molecule.Molecule object at 0x7fa4810ffc38>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.004.01.pdb Opening model.006.09.pdb... The following problems occurred while reading PDB file for model.006.09.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.006.09.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.006.09.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa4810dc6e8>, <_molecule.Molecule object at 0x7fa4810dc710>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.006.09.pdb Opening model.000.01.pdb... The following problems occurred while reading PDB file for model.000.01.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.000.01.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.000.01.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa47f91d1c0>, <_molecule.Molecule object at 0x7fa47f91d1e8>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.000.01.pdb Opening model.004.14.pdb... The following problems occurred while reading PDB file for model.004.14.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.004.14.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.004.14.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa47f90fc60>, <_molecule.Molecule object at 0x7fa47f90fc88>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.004.14.pdb Opening model.004.00.pdb... The following problems occurred while reading PDB file for model.004.00.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.004.00.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.004.00.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa47f91e738>, <_molecule.Molecule object at 0x7fa47f91e760>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.004.00.pdb Opening model.000.08.pdb... The following problems occurred while reading PDB file for model.000.08.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.000.08.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.000.08.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa47f929e18>, <_molecule.Molecule object at 0x7fa47f929da0>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.000.08.pdb Opening model.002.04.pdb... The following problems occurred while reading PDB file for model.002.04.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.002.04.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.002.04.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa47f5e5cb0>, <_molecule.Molecule object at 0x7fa47f5e5cd8>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.002.04.pdb Opening model.002.12.pdb... The following problems occurred while reading PDB file for model.002.12.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.002.12.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.002.12.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa47f9b5788>, <_molecule.Molecule object at 0x7fa47f9b57b0>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.002.12.pdb Opening model.002.13.pdb... The following problems occurred while reading PDB file for model.002.13.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.002.13.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.002.13.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa47f98f260>, <_molecule.Molecule object at 0x7fa47f98f288>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.002.13.pdb Opening model.000.07.pdb... The following problems occurred while reading PDB file for model.000.07.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.000.07.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.000.07.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa47f9a2d00>, <_molecule.Molecule object at 0x7fa47f9a2d28>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.000.07.pdb Opening model.006.12.pdb... The following problems occurred while reading PDB file for model.006.12.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.006.12.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.006.12.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa47f9ad7d8>, <_molecule.Molecule object at 0x7fa47f9ad800>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.006.12.pdb Opening model.000.05.pdb... The following problems occurred while reading PDB file for model.000.05.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.000.05.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.000.05.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa47f1612b0>, <_molecule.Molecule object at 0x7fa47f1612d8>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.000.05.pdb Opening model.002.06.pdb... The following problems occurred while reading PDB file for model.002.06.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.002.06.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.002.06.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa47f9a3d50>, <_molecule.Molecule object at 0x7fa47f9a3d78>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.002.06.pdb Opening model.004.07.pdb... The following problems occurred while reading PDB file for model.004.07.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.004.07.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.004.07.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa47f5da828>, <_molecule.Molecule object at 0x7fa47f5da850>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.004.07.pdb Opening model.004.08.pdb... The following problems occurred while reading PDB file for model.004.08.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.004.08.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.004.08.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa47f1d9300>, <_molecule.Molecule object at 0x7fa47f1d9328>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.004.08.pdb Opening model.006.11.pdb... The following problems occurred while reading PDB file for model.006.11.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.006.11.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.006.11.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa47f5e8288>, <_molecule.Molecule object at 0x7fa47f5e8210>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.006.11.pdb Opening model.002.01.pdb... The following problems occurred while reading PDB file for model.002.01.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.002.01.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.002.01.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa47f1dc878>, <_molecule.Molecule object at 0x7fa47f1dc8a0>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.002.01.pdb Opening model.000.09.pdb... The following problems occurred while reading PDB file for model.000.09.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.000.09.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.000.09.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa47f194350>, <_molecule.Molecule object at 0x7fa47f194378>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.000.09.pdb Opening model.006.05.pdb... The following problems occurred while reading PDB file for model.006.05.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.006.05.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.006.05.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa47f5e2df0>, <_molecule.Molecule object at 0x7fa47f5e2e18>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.006.05.pdb Opening model.006.07.pdb... The following problems occurred while reading PDB file for model.006.07.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.006.07.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.006.07.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa47f1838c8>, <_molecule.Molecule object at 0x7fa47f1838f0>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.006.07.pdb Opening model.006.10.pdb... The following problems occurred while reading PDB file for model.006.10.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.006.10.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.006.10.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa47f5c83a0>, <_molecule.Molecule object at 0x7fa47f5c83c8>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.006.10.pdb Opening model.002.00.pdb... The following problems occurred while reading PDB file for model.002.00.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.002.00.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.002.00.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa47f129e40>, <_molecule.Molecule object at 0x7fa47f129e68>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.002.00.pdb Opening model.000.14.pdb... The following problems occurred while reading PDB file for model.000.14.pdb warning: Ignored bad PDB record found on line 2 Model 0.1 (model.000.14.pdb) appears to be a protein without secondary structure assignments. Automatically computing assignments using 'ksdssp' and parameter values: energy cutoff -0.5 minimum helix length 3 minimum strand length 3 Use command 'help ksdssp' for more information. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) Model 0.2 (model.000.14.pdb) has no secondary structure assignments. Running ksdssp. Computing secondary structure assignments... Computed secondary structure assignments (see reply log) 2 models opened Computing secondary structure assignments for model(s) #0.1, #0.2 using ksdssp (Kabsch and Sander Define Secondary Structure of Proteins) with the parameters: energy cutoff minimum helix length minimum strand length ('Models_in file:', [<_molecule.Molecule object at 0x7fa47e999918>, <_molecule.Molecule object at 0x7fa47e999940>]) Wrote /home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/ch_model.000.14.pdb ('Files saved at:', '/home/raquel/Documents/corelabs/venenos/cluspro/Crot_7AMZ_R/cluspro.961019/chimera_output/')