data_3D2
# 
_chem_comp.id                                    3D2 
_chem_comp.name                                  "N~2~-[3-(pyridin-3-yl)benzyl]-L-lysinamide" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C18 H24 N4 O" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2014-07-28 
_chem_comp.pdbx_modified_date                    2015-05-08 
_chem_comp.pdbx_ambiguous_flag                   N 
_chem_comp.pdbx_release_status                   REL 
_chem_comp.pdbx_replaced_by                      ? 
_chem_comp.pdbx_replaces                         ? 
_chem_comp.formula_weight                        312.409 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     3D2 
_chem_comp.pdbx_model_coordinates_details        ? 
_chem_comp.pdbx_model_coordinates_missing_flag   N 
_chem_comp.pdbx_ideal_coordinates_details        Corina 
_chem_comp.pdbx_ideal_coordinates_missing_flag   N 
_chem_comp.pdbx_model_coordinates_db_code        4U5U 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  EBI 
# 
loop_
_chem_comp_atom.comp_id 
_chem_comp_atom.atom_id 
_chem_comp_atom.alt_atom_id 
_chem_comp_atom.type_symbol 
_chem_comp_atom.charge 
_chem_comp_atom.pdbx_align 
_chem_comp_atom.pdbx_aromatic_flag 
_chem_comp_atom.pdbx_leaving_atom_flag 
_chem_comp_atom.pdbx_stereo_config 
_chem_comp_atom.model_Cartn_x 
_chem_comp_atom.model_Cartn_y 
_chem_comp_atom.model_Cartn_z 
_chem_comp_atom.pdbx_model_Cartn_x_ideal 
_chem_comp_atom.pdbx_model_Cartn_y_ideal 
_chem_comp_atom.pdbx_model_Cartn_z_ideal 
_chem_comp_atom.pdbx_component_atom_id 
_chem_comp_atom.pdbx_component_comp_id 
_chem_comp_atom.pdbx_ordinal 
3D2 C19 C1  C 0 1 Y N N -0.983 29.983 13.082 6.378  0.664  1.237  C19 3D2 1  
3D2 C14 C2  C 0 1 Y N N -0.029 34.325 10.634 2.696  -2.283 -0.629 C14 3D2 2  
3D2 C15 C3  C 0 1 Y N N 0.464  33.740 11.794 2.823  -0.922 -0.359 C15 3D2 3  
3D2 C16 C4  C 0 1 Y N N 0.013  32.474 12.199 4.087  -0.390 0.208  C16 3D2 4  
3D2 C17 C5  C 0 1 Y N N 0.604  31.803 13.264 5.159  -1.244 0.477  C17 3D2 5  
3D2 C18 C6  C 0 1 Y N N 0.141  30.552 13.673 6.317  -0.698 1.005  C18 3D2 6  
3D2 C13 C7  C 0 1 Y N N 0.410  35.591 10.250 1.520  -2.772 -1.161 C13 3D2 7  
3D2 C12 C8  C 0 1 Y N N 1.273  36.343 11.048 0.469  -1.913 -1.428 C12 3D2 8  
3D2 C11 C9  C 0 1 Y N N 1.729  35.796 12.238 0.589  -0.561 -1.161 C11 3D2 9  
3D2 C22 C10 C 0 1 Y N N 1.296  34.512 12.603 1.759  -0.062 -0.624 C22 3D2 10 
3D2 C10 C11 C 0 1 N N N 2.602  36.432 13.148 -0.560 0.369  -1.455 C10 3D2 11 
3D2 N20 N1  N 0 1 Y N N -1.625 30.675 12.052 5.350  1.446  0.969  N20 3D2 12 
3D2 C21 C12 C 0 1 Y N N -1.131 31.923 11.623 4.227  0.971  0.471  C21 3D2 13 
3D2 N09 N2  N 0 1 N N N 3.642  37.475 12.870 -1.428 0.463  -0.274 N09 3D2 14 
3D2 C03 C13 C 0 1 N N S 3.410  38.882 12.396 -2.561 1.363  -0.524 C03 3D2 15 
3D2 C02 C14 C 0 1 N N N 2.254  39.563 13.166 -2.144 2.785  -0.251 C02 3D2 16 
3D2 O23 O1  O 0 1 N N N 1.383  40.200 12.567 -1.013 3.025  0.116  O23 3D2 17 
3D2 N01 N3  N 0 1 N N N 2.305  39.449 14.493 -3.027 3.790  -0.415 N01 3D2 18 
3D2 C04 C15 C 0 1 N N N 3.231  39.215 10.901 -3.724 0.988  0.397  C04 3D2 19 
3D2 C05 C16 C 0 1 N N N 4.528  38.882 10.160 -4.229 -0.411 0.036  C05 3D2 20 
3D2 C06 C17 C 0 1 N N N 4.410  39.327 8.700  -5.392 -0.786 0.957  C06 3D2 21 
3D2 C07 C18 C 0 1 N N N 4.175  40.849 8.674  -5.898 -2.184 0.595  C07 3D2 22 
3D2 N08 N4  N 0 1 N N N 5.278  41.590 9.313  -7.014 -2.545 1.480  N08 3D2 23 
3D2 H1  H1  H 0 1 N N N -1.352 29.024 13.414 7.279  1.093  1.649  H1  3D2 24 
3D2 H2  H2  H 0 1 N N N -0.753 33.798 10.030 3.517  -2.954 -0.426 H2  3D2 25 
3D2 H3  H3  H 0 1 N N N 1.435  32.258 13.783 5.087  -2.303 0.278  H3  3D2 26 
3D2 H4  H4  H 0 1 N N N 0.660  30.020 14.456 7.163  -1.329 1.233  H4  3D2 27 
3D2 H5  H5  H 0 1 N N N 0.073  36.001 9.309  1.421  -3.827 -1.370 H5  3D2 28 
3D2 H6  H6  H 0 1 N N N 1.580  37.333 10.744 -0.449 -2.299 -1.845 H6  3D2 29 
3D2 H7  H7  H 0 1 N N N 1.621  34.105 13.549 1.852  0.993  -0.417 H7  3D2 30 
3D2 H8  H8  H 0 1 N N N 1.936  36.897 13.890 -0.173 1.357  -1.702 H8  3D2 31 
3D2 H9  H9  H 0 1 N N N 3.157  35.608 13.620 -1.134 -0.018 -2.298 H9  3D2 32 
3D2 H10 H10 H 0 1 N N N -1.645 32.459 10.839 3.407  1.644  0.264  H10 3D2 33 
3D2 H11 H11 H 0 1 N N N 4.238  37.066 12.179 -0.904 0.758  0.537  H11 3D2 34 
3D2 H13 H13 H 0 1 N N N 4.310  39.437 12.699 -2.876 1.270  -1.563 H13 3D2 35 
3D2 H14 H14 H 0 1 N N N 1.612  39.894 15.060 -3.931 3.598  -0.708 H14 3D2 36 
3D2 H15 H15 H 0 1 N N N 3.036  38.919 14.922 -2.758 4.706  -0.239 H15 3D2 37 
3D2 H16 H16 H 0 1 N N N 3.004  40.285 10.786 -3.384 0.994  1.433  H16 3D2 38 
3D2 H17 H17 H 0 1 N N N 2.405  38.618 10.486 -4.532 1.709  0.275  H17 3D2 39 
3D2 H18 H18 H 0 1 N N N 4.705  37.797 10.200 -4.569 -0.417 -1.000 H18 3D2 40 
3D2 H19 H19 H 0 1 N N N 5.368  39.408 10.637 -3.421 -1.132 0.157  H19 3D2 41 
3D2 H20 H20 H 0 1 N N N 3.564  38.812 8.222  -5.052 -0.779 1.992  H20 3D2 42 
3D2 H21 H21 H 0 1 N N N 5.338  39.085 8.162  -6.200 -0.065 0.835  H21 3D2 43 
3D2 H22 H22 H 0 1 N N N 4.086  41.177 7.628  -6.238 -2.191 -0.440 H22 3D2 44 
3D2 H23 H23 H 0 1 N N N 3.240  41.073 9.209  -5.089 -2.906 0.717  H23 3D2 45 
3D2 H24 H24 H 0 1 N N N 5.087  42.571 9.275  -7.749 -1.856 1.433  H24 3D2 46 
3D2 H25 H25 H 0 1 N N N 5.363  41.304 10.267 -7.365 -3.465 1.261  H25 3D2 47 
# 
loop_
_chem_comp_bond.comp_id 
_chem_comp_bond.atom_id_1 
_chem_comp_bond.atom_id_2 
_chem_comp_bond.value_order 
_chem_comp_bond.pdbx_aromatic_flag 
_chem_comp_bond.pdbx_stereo_config 
_chem_comp_bond.pdbx_ordinal 
3D2 C07 C06 SING N N 1  
3D2 C07 N08 SING N N 2  
3D2 C06 C05 SING N N 3  
3D2 C05 C04 SING N N 4  
3D2 C13 C14 DOUB Y N 5  
3D2 C13 C12 SING Y N 6  
3D2 C14 C15 SING Y N 7  
3D2 C04 C03 SING N N 8  
3D2 C12 C11 DOUB Y N 9  
3D2 C21 N20 DOUB Y N 10 
3D2 C21 C16 SING Y N 11 
3D2 C15 C16 SING N N 12 
3D2 C15 C22 DOUB Y N 13 
3D2 N20 C19 SING Y N 14 
3D2 C16 C17 DOUB Y N 15 
3D2 C11 C22 SING Y N 16 
3D2 C11 C10 SING N N 17 
3D2 C03 N09 SING N N 18 
3D2 C03 C02 SING N N 19 
3D2 O23 C02 DOUB N N 20 
3D2 N09 C10 SING N N 21 
3D2 C19 C18 DOUB Y N 22 
3D2 C02 N01 SING N N 23 
3D2 C17 C18 SING Y N 24 
3D2 C19 H1  SING N N 25 
3D2 C14 H2  SING N N 26 
3D2 C17 H3  SING N N 27 
3D2 C18 H4  SING N N 28 
3D2 C13 H5  SING N N 29 
3D2 C12 H6  SING N N 30 
3D2 C22 H7  SING N N 31 
3D2 C10 H8  SING N N 32 
3D2 C10 H9  SING N N 33 
3D2 C21 H10 SING N N 34 
3D2 N09 H11 SING N N 35 
3D2 C03 H13 SING N N 36 
3D2 N01 H14 SING N N 37 
3D2 N01 H15 SING N N 38 
3D2 C04 H16 SING N N 39 
3D2 C04 H17 SING N N 40 
3D2 C05 H18 SING N N 41 
3D2 C05 H19 SING N N 42 
3D2 C06 H20 SING N N 43 
3D2 C06 H21 SING N N 44 
3D2 C07 H22 SING N N 45 
3D2 C07 H23 SING N N 46 
3D2 N08 H24 SING N N 47 
3D2 N08 H25 SING N N 48 
# 
loop_
_pdbx_chem_comp_descriptor.comp_id 
_pdbx_chem_comp_descriptor.type 
_pdbx_chem_comp_descriptor.program 
_pdbx_chem_comp_descriptor.program_version 
_pdbx_chem_comp_descriptor.descriptor 
3D2 SMILES           ACDLabs              12.01 "O=C(N)C(NCc2cc(c1cccnc1)ccc2)CCCCN"                                                                                                               
3D2 InChI            InChI                1.03  "InChI=1S/C18H24N4O/c19-9-2-1-8-17(18(20)23)22-12-14-5-3-6-15(11-14)16-7-4-10-21-13-16/h3-7,10-11,13,17,22H,1-2,8-9,12,19H2,(H2,20,23)/t17-/m0/s1" 
3D2 InChIKey         InChI                1.03  HSVQHUWOLRPWEF-KRWDZBQOSA-N                                                                                                                        
3D2 SMILES_CANONICAL CACTVS               3.385 "NCCCC[C@H](NCc1cccc(c1)c2cccnc2)C(N)=O"                                                                                                           
3D2 SMILES           CACTVS               3.385 "NCCCC[CH](NCc1cccc(c1)c2cccnc2)C(N)=O"                                                                                                            
3D2 SMILES_CANONICAL "OpenEye OEToolkits" 1.9.2 "c1cc(cc(c1)c2cccnc2)CN[C@@H](CCCCN)C(=O)N"                                                                                                        
3D2 SMILES           "OpenEye OEToolkits" 1.9.2 "c1cc(cc(c1)c2cccnc2)CNC(CCCCN)C(=O)N"                                                                                                             
# 
loop_
_pdbx_chem_comp_identifier.comp_id 
_pdbx_chem_comp_identifier.type 
_pdbx_chem_comp_identifier.program 
_pdbx_chem_comp_identifier.program_version 
_pdbx_chem_comp_identifier.identifier 
3D2 "SYSTEMATIC NAME" ACDLabs              12.01 "N~2~-[3-(pyridin-3-yl)benzyl]-L-lysinamide"                    
3D2 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.9.2 "(2S)-6-azanyl-2-[(3-pyridin-3-ylphenyl)methylamino]hexanamide" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
3D2 "Create component"  2014-07-28 EBI  
3D2 "Modify descriptor" 2014-09-05 RCSB 
3D2 "Initial release"   2015-05-13 RCSB 
# 
