

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     3 CONFIDENCE 0.2
ATOM      1 N12  INI     1      -0.616  19.710  16.866                
ATOM      2 C13  INI     1      -1.414  18.520  17.158                
ATOM      3 C30  INI     1      -0.906  17.872  18.475                
ATOM      4 C14  INI     1      -2.871  18.905  17.204                
ATOM      5 O17  INI     1      -3.752  18.083  17.401                
ATOM      6 O25  INI     1      -3.090  20.215  17.015                
ATOM      7 C16  INI     1      -4.475  20.621  17.053                
ATOM      8 C34  INI     1      -5.005  20.248  18.462                
ATOM      9 C35  INI     1      -4.617  22.151  16.824                
ATOM     10 C21  INI     1      -1.089  16.364  18.427                
ATOM     11 C22  INI     1      -0.694  15.567  19.524                
ATOM     12 C23  INI     1      -0.865  14.168  19.477                
ATOM     13 C24  INI     1      -1.430  13.564  18.336                
ATOM     14 C25  INI     1      -1.825  14.358  17.239                
ATOM     15 C26  INI     1      -1.656  15.757  17.283                
ATOM     16 C27  INI     1      -2.435  13.706  16.009                
ATOM     17 N28  INI     1      -2.588  12.407  15.978                
ATOM     18 N29  INI     1      -2.796  14.456  15.000                
ATOM     19 C11  INI     1       0.687  19.653  16.771                
ATOM     20 C10  INI     1       1.396  20.621  15.854                
ATOM     21 N9   INI     1       0.645  21.866  15.769                
ATOM     22 O20  INI     1       1.363  18.857  17.404                
ATOM     23 C1   INI     1       2.809  21.365   9.657                
ATOM     24 C33  INI     1       0.564  23.024   9.563                
ATOM     25 C32  INI     1       1.330  22.864   8.410                
ATOM     26 C31  INI     1       2.463  22.026   8.461                
ATOM     27 C2   INI     1       2.027  21.533  10.818                
ATOM     28 C3   INI     1       2.391  20.863  12.004                
ATOM     29 C4   INI     1       1.617  21.023  13.172                
ATOM     30 C5   INI     1       0.476  21.856  13.153                
ATOM     31 C6   INI     1       0.112  22.527  11.964                
ATOM     32 C7   INI     1       0.889  22.365  10.798                
ATOM     33 S8   INI     1      -0.503  22.061  14.624                
ATOM     34 O18  INI     1      -0.986  23.427  14.672                
ATOM     35 O19  INI     1      -1.447  20.965  14.727                
TER      36      INI     1
ENDMDL
