Read libraries from system resource.
Wattos started at: January 19, 2007 10:16:56 AM CST
Program arguments [1] :[-at]
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Read libraries from system resource.
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Enter property name: 
Enter property value (watch value type) for interactiveSession: 

Enter property name: 
Enter property value (watch value type) for verbosity: 

Enter property name: 
Enter property value (watch value type) for writeSessionOnExit: 

Enter property name: 
Enter property value (watch value type) for stopOnError: 


Enter url to (gzipped) PDB formatted coordinate file: 
Doing ReadEntryPDB with arguments: [file:/dumpzone/pdb/nozip/data/structures/all/pdb/pdb1ju7.ent, PDB]
Read total number of atoms from PDB formatted coordinate list: 5060


Tolerance (0.1 Angstrom suggested)
Doing CalcBond with arguments: [0.1]

Done. Checked number of potential pairs: 642
Found number of new bond candidates: 543


Hydrogen bond distance between proton and acceptor cutoff (2.7 Angstroms suggested)
Hydrogen bond distance between donor and acceptor cutoff (3.35 Angstroms suggested)
Hydrogen bond angle (D-H-A) cutoff (90 degrees suggested)
Doing CalcHydrogenBond with arguments: [2.7, 3.35, 90.0]
Found number of new hydrogen bond candidates: 5
Found number of new hydrogen bonds: 5
Atom Res#(Nam) Mol# Atom Res#(Nam) Mol# Model# Entry# Value_1  Value_2 RefValue    RefSD Type   Minimum  Average  Maximum Under cutoff
N1      2(G  )    1 N3     15(C  )    1      1      1   2.741  145.375                       5
O2*     3(C  )    1 O5*     4(C  )    1      1      1   2.362  126.347                       5
O2*     5(C  )    1 O5*     6(U  )    1      1      1   2.393  157.711                       5
N1     12(G  )    1 N3      5(C  )    1      1      1   3.168  151.905                       5
N1     14(G  )    1 N3      3(C  )    1      1      1   3.326  171.755                       5



Angle cutoff (40.0 degrees suggested)
Use only Watson Crick basepairing (false suggested) (y/n): 
Enter cvs file name (with path) for output of CalcCoPlanarBasesSet.: 
Doing CalcCoPlanarBasesSet with arguments: [45.0, true, 1ju7_wc.csv]
Trying to match bases to eachother for number of bases: 16
Considering number of hydrogen bonds: 5
WARNING: requested less than 1 new rows in getNewRowIdList: 0
Results contains number of sets of co-planar bases: 0
Results:
Writing results to file: 1ju7_wc.csv


Wattos started at: January 19, 2007 10:16:56 AM CST
Wattos stopped at: January 19, 2007 10:16:57 AM CST
Wattos took (#ms): 965