

PFRMAT DKF1
TARGET T0041
AUTHOR 6682-2204-3506 Bernd Kramer, GMD-SCAI, Bernd.Kramer@gmd.de
AUTHOR 6682-2204-3506 Thomas Lengauer, GMD-SCAI, Lengauer@gmd.de
AUTHOR 6682-2204-3506 Matthias Rarey, GMD-SCAI, Rarey@gmd.de
REMARK ===================================================================
REMARK 1.Preparation of input data
REMARK   The ligand is generated and energy minimized to fall in an 
REMARK   arbitrary low-energy conformation. Favorable torsion angles at 
REMARK   rotatable bonds, interaction types, and interaction geometries 
REMARK   are automatically assigned.
REMARK   The active site of the protein is selected manually by comparing
REMARK   the protein structure to complexes where the same protein is
REMARK   involved (typically 8-10 A around the ligand). Hydrogens at
REMARK   hydrogen bond donors and acceptors are added in standard 
REMARK   geometries automatically. Interaction types and interaction 
REMARK   geometries are also assigned automatically.
REMARK 2.Docking
REMARK   Complexes are generated using our docking software FlexX (see
REMARK   Ref.). FlexX is a docking tool based on an incremental 
REMARK   construction algorithm producing results in approximately
REMARK   1-3 minutes for one pair of a receptor and a ligand molecule. 
REMARK   No refinement of the produced structures is performed.
REMARK 3.Selection of models
REMARK   The selection of a set of models and the assignment of 
REMARK   confidences is done manually again. Here we have considered
REMARK   phenomena like intramolecular hydrogen bonds which are not 
REMARK   modeled yet. FlexX' energy predictions for the different models
REMARK   are used as a guideline for the selection.
REMARK ===================================================================
REMARK References: 
REMARK   Matthias Rarey, Stephan Wefing and Thomas Lengauer:
REMARK   Placement of medium-sized molecular fragments into active sites
REMARK   of proteins, JCAMD (1996) 10, 41--54
REMARK
REMARK   Matthias Rarey, Bernd Kramer, Thomas Lengauer and Gerhard Klebe: 
REMARK   A Fast Flexible Docking Method using an Incremental Construction 
REMARK   Algorithm, JMB (1996) 261, 470--489
REMARK ===================================================================
MODEL     2 CONFIDENCE 0.3
ATOM      1 N12  INI     1      -4.053  18.580  17.165                
ATOM      2 C13  INI     1      -4.475  17.751  18.293                
ATOM      3 C30  INI     1      -3.252  17.463  19.204                
ATOM      4 C14  INI     1      -5.607  18.440  19.013                
ATOM      5 O17  INI     1      -6.493  17.815  19.575                
ATOM      6 O25  INI     1      -5.536  19.779  18.975                
ATOM      7 C16  INI     1      -6.604  20.474  19.653                
ATOM      8 C34  INI     1      -6.009  21.816  20.154                
ATOM      9 C35  INI     1      -7.793  20.750  18.692                
ATOM     10 C21  INI     1      -2.522  16.216  18.732                
ATOM     11 C22  INI     1      -1.372  15.765  19.418                
ATOM     12 C23  INI     1      -0.698  14.608  18.978                
ATOM     13 C24  INI     1      -1.170  13.900  17.854                
ATOM     14 C25  INI     1      -2.318  14.349  17.168                
ATOM     15 C26  INI     1      -2.995  15.506  17.606                
ATOM     16 C27  INI     1      -2.826  13.585  15.956                
ATOM     17 N28  INI     1      -2.904  12.280  16.003                
ATOM     18 N29  INI     1      -3.178  14.247  14.884                
ATOM     19 C11  INI     1      -3.606  19.796  17.341                
ATOM     20 C10  INI     1      -2.594  20.350  16.367                
ATOM     21 N9   INI     1      -1.394  19.524  16.373                
ATOM     22 O20  INI     1      -3.985  20.515  18.253                
ATOM     23 C1   INI     1       3.084  23.609  14.014                
ATOM     24 C33  INI     1       4.256  21.237  14.911                
ATOM     25 C32  INI     1       5.012  22.106  14.126                
ATOM     26 C31  INI     1       4.417  23.302  13.675                
ATOM     27 C2   INI     1       2.327  22.723  14.809                
ATOM     28 C3   INI     1       0.995  23.049  15.137                
ATOM     29 C4   INI     1       0.228  22.172  15.931                
ATOM     30 C5   INI     1       0.795  20.965  16.398                
ATOM     31 C6   INI     1       2.130  20.640  16.069                
ATOM     32 C7   INI     1       2.894  21.519  15.275                
ATOM     33 S8   INI     1      -0.169  19.857  17.400                
ATOM     34 O18  INI     1       0.599  18.646  17.620                
ATOM     35 O19  INI     1      -0.704  20.580  18.537                
TER      36      INI     1
ENDMDL
