

PFRMAT DKF1
TARGET T0034
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 .4
HETATM    1  N1  AML     1      29.485  12.228  20.013                
HETATM    2  C2  AML     1      29.433  13.347  19.261                
HETATM    3  C3  AML     1      29.864  13.301  17.927                
HETATM    4  N4  AML     1      30.321  12.135  17.422                
HETATM    5  C5  AML     1      30.371  11.018  18.177                
HETATM    6  C6  AML     1      29.941  11.063  19.511                
HETATM    7  N21 AML     1      28.963  14.478  19.836                
HETATM    8 H211 AML     1      28.911  15.348  19.288                
HETATM    9 H212 AML     1      28.653  14.481  20.821                
HETATM   10  N61 AML     1      29.961   9.984  20.329                
HETATM   11 H611 AML     1      30.306   9.081  19.971                
HETATM   12 H612 AML     1      29.639  10.045  21.305                
HETATM   13  CL  AML     1      30.978   9.547  17.445                
HETATM   14  C31 AML     1      29.834  14.518  17.027                
HETATM   15  O31 AML     1      29.417  15.566  17.497                
HETATM   16  N32 AML     1      30.251  14.401  15.793                
HETATM   17 HN32 AML     1      30.583  13.471  15.497                
HETATM   18  C33 AML     1      30.268  15.391  14.930                
HETATM   19  N34 AML     1      29.861  16.596  15.241                
HETATM   20  N35 AML     1      30.705  15.173  13.716                
HETATM   21 H341 AML     1      29.509  16.814  16.184                
HETATM   22 H342 AML     1      29.885  17.356  14.546                
HETATM   23 H351 AML     1      30.730  15.930  13.017                
HETATM   24 H352 AML     1      31.035  14.241  13.427                
ENDMDL
