data_KPN
# 
_chem_comp.id                                    KPN 
_chem_comp.name                                  "N-(2-aminoethyl)-N-(2,2'-bipyridin-5-ylacetyl)glycine" 
_chem_comp.type                                  PEPTIDE-LIKE 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C16 H18 N4 O3" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2010-04-20 
_chem_comp.pdbx_modified_date                    2023-11-03 
_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                        314.339 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     KPN 
_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        3MBU 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  RCSB 
# 
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.pdbx_backbone_atom_flag 
_chem_comp_atom.pdbx_n_terminal_atom_flag 
_chem_comp_atom.pdbx_c_terminal_atom_flag 
_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 
KPN C      "C'"   C 0 1 N N N Y N Y 15.465 25.662 3.831  -4.399 -1.849 0.030  "C'"   KPN 1  
KPN C1     C1     C 0 1 Y N N N N N 11.905 20.391 2.078  0.983  0.238  1.356  C1     KPN 2  
KPN N1     N1     N 0 1 Y N N N N N 11.613 19.959 0.851  2.276  0.394  1.163  N1     KPN 3  
KPN C2     C2     C 0 1 Y N N N N N 12.099 21.749 2.348  0.235  -0.581 0.530  C2     KPN 4  
KPN N2     N2     N 0 1 Y N N N N N 11.167 21.172 -2.546 5.005  -0.635 -0.992 N2     KPN 5  
KPN C3     C3     C 0 1 Y N N N N N 11.997 22.640 1.297  0.860  -1.246 -0.515 C3     KPN 6  
KPN C4     C4     C 0 1 Y N N N N N 11.654 22.159 0.019  2.220  -1.064 -0.695 C4     KPN 7  
KPN C5     C5     C 0 1 Y N N N N N 11.477 20.804 -0.189 2.911  -0.224 0.175  C5     KPN 8  
KPN C6     C6     C 0 1 Y N N N N N 11.149 20.358 -1.485 4.370  -0.018 -0.005 C6     KPN 9  
KPN C7     C7     C 0 1 Y N N N N N 10.853 19.016 -1.720 5.061  0.823  0.865  C7     KPN 10 
KPN C8     C8     C 0 1 Y N N N N N 10.434 18.624 -2.974 6.421  1.005  0.685  C8     KPN 11 
KPN C9     C9     C 0 1 Y N N N N N 10.487 19.507 -4.061 7.046  0.340  -0.360 C9     KPN 12 
KPN N      "N1'"  N 0 1 N N N Y Y N 12.300 22.790 7.153  -4.994 3.623  -0.612 "N1'"  KPN 13 
KPN O      "O1'"  O 0 1 N N N Y N Y 16.689 25.827 3.719  -4.056 -1.898 -1.128 "O1'"  KPN 14 
KPN C10    C10    C 0 1 Y N N N N N 10.772 20.854 -3.782 6.298  -0.479 -1.186 C10    KPN 15 
KPN "C2'"  "C2'"  C 0 1 N N N Y N N 12.429 24.237 6.916  -4.258 2.603  0.148  "C2'"  KPN 16 
KPN "C3'"  "C3'"  C 0 1 N N N Y N N 12.285 24.701 5.464  -4.078 1.354  -0.717 "C3'"  KPN 17 
KPN "N4'"  "N4'"  N 0 1 N N N Y N N 13.426 24.274 4.627  -3.345 0.337  0.041  "N4'"  KPN 18 
KPN "C5'"  "C5'"  C 0 1 N N N Y N N 14.715 24.959 4.915  -4.074 -0.634 0.860  "C5'"  KPN 19 
KPN "C7'"  "C7'"  C 0 1 N N N N N N 13.529 23.180 3.868  -1.999 0.295  -0.016 "C7'"  KPN 20 
KPN "O7'"  "O7'"  O 0 1 N N N N N N 14.581 22.914 3.299  -1.395 1.099  -0.694 "O7'"  KPN 21 
KPN "C8'"  "C8'"  C 0 1 N N N N N N 12.435 22.110 3.820  -1.244 -0.751 0.763  "C8'"  KPN 22 
KPN OXT    O3     O 0 1 N Y N Y N Y 14.665 26.218 2.784  -5.073 -2.873 0.574  O3     KPN 23 
KPN H1     H1     H 0 1 N N N N N N 11.994 19.675 2.882  0.501  0.754  2.173  H1     KPN 24 
KPN H3     H3     H 0 1 N N N N N N 12.178 23.693 1.454  0.297  -1.892 -1.173 H3     KPN 25 
KPN H4     H4     H 0 1 N N N N N N 11.529 22.851 -0.801 2.739  -1.566 -1.498 H4     KPN 26 
KPN H7     H7     H 0 1 N N N N N N 10.951 18.290 -0.927 4.542  1.325  1.668  H7     KPN 27 
KPN H8     H8     H 0 1 N N N N N N 10.059 17.622 -3.121 6.984  1.651  1.344  H8     KPN 28 
KPN H9     H9     H 0 1 N N N N N N 10.316 19.166 -5.071 8.106  0.461  -0.527 H9     KPN 29 
KPN H      "HN1'" H 0 0 N N N Y Y N 12.410 22.600 8.129  -5.125 4.459  -0.062 "HN1'" KPN 30 
KPN H2     HN1A   H 0 0 N Y N Y Y N 11.397 22.483 6.854  -4.527 3.832  -1.482 HN1A   KPN 31 
KPN H10    H10    H 0 1 N N N N N N 10.674 21.612 -4.546 6.781  -0.998 -2.000 H10    KPN 32 
KPN "H2'"  "H2'"  H 0 1 N N N Y N N 11.639 24.735 7.498  -3.280 2.995  0.429  "H2'"  KPN 33 
KPN "H2'A" "H2'A" H 0 0 N N N Y N N 13.432 24.536 7.256  -4.818 2.346  1.047  "H2'A" KPN 34 
KPN "H3'"  "H3'"  H 0 1 N N N Y N N 11.363 24.269 5.047  -5.056 0.963  -0.998 "H3'"  KPN 35 
KPN "H3'A" "H3'A" H 0 0 N N N Y N N 12.232 25.800 5.451  -3.518 1.612  -1.616 "H3'A" KPN 36 
KPN "H5'"  "H5'"  H 0 1 N N N Y N N 15.392 24.179 5.293  -4.998 -0.183 1.221  "H5'"  KPN 37 
KPN "H5'A" "H5'A" H 0 0 N N N Y N N 14.486 25.727 5.669  -3.458 -0.928 1.709  "H5'A" KPN 38 
KPN "H8'"  "H8'"  H 0 1 N N N N N N 11.530 22.495 4.313  -1.553 -1.743 0.434  "H8'"  KPN 39 
KPN "H8'A" "H8'A" H 0 0 N N N N N N 12.788 21.208 4.342  -1.459 -0.638 1.826  "H8'A" KPN 40 
KPN HXT    H18    H 0 1 N Y N Y N Y 15.227 26.641 2.146  -5.262 -3.629 0.001  H18    KPN 41 
# 
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 
KPN C     O      DOUB N N 1  
KPN C     "C5'"  SING N N 2  
KPN C     OXT    SING N N 3  
KPN C1    N1     DOUB Y N 4  
KPN C1    C2     SING Y N 5  
KPN C1    H1     SING N N 6  
KPN N1    C5     SING Y N 7  
KPN C2    C3     DOUB Y N 8  
KPN C2    "C8'"  SING N N 9  
KPN N2    C6     DOUB Y N 10 
KPN N2    C10    SING Y N 11 
KPN C3    C4     SING Y N 12 
KPN C3    H3     SING N N 13 
KPN C4    C5     DOUB Y N 14 
KPN C4    H4     SING N N 15 
KPN C5    C6     SING Y N 16 
KPN C6    C7     SING Y N 17 
KPN C7    C8     DOUB Y N 18 
KPN C7    H7     SING N N 19 
KPN C8    C9     SING Y N 20 
KPN C8    H8     SING N N 21 
KPN C9    C10    DOUB Y N 22 
KPN C9    H9     SING N N 23 
KPN N     "C2'"  SING N N 24 
KPN N     H      SING N N 25 
KPN N     H2     SING N N 26 
KPN C10   H10    SING N N 27 
KPN "C2'" "C3'"  SING N N 28 
KPN "C2'" "H2'"  SING N N 29 
KPN "C2'" "H2'A" SING N N 30 
KPN "C3'" "N4'"  SING N N 31 
KPN "C3'" "H3'"  SING N N 32 
KPN "C3'" "H3'A" SING N N 33 
KPN "N4'" "C5'"  SING N N 34 
KPN "N4'" "C7'"  SING N N 35 
KPN "C5'" "H5'"  SING N N 36 
KPN "C5'" "H5'A" SING N N 37 
KPN "C7'" "O7'"  DOUB N N 38 
KPN "C7'" "C8'"  SING N N 39 
KPN "C8'" "H8'"  SING N N 40 
KPN "C8'" "H8'A" SING N N 41 
KPN OXT   HXT    SING N N 42 
# 
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 
KPN SMILES           ACDLabs              12.01 "O=C(O)CN(C(=O)Cc2cnc(c1ncccc1)cc2)CCN"                                                                                     
KPN SMILES_CANONICAL CACTVS               3.370 "NCCN(CC(O)=O)C(=O)Cc1ccc(nc1)c2ccccn2"                                                                                     
KPN SMILES           CACTVS               3.370 "NCCN(CC(O)=O)C(=O)Cc1ccc(nc1)c2ccccn2"                                                                                     
KPN SMILES_CANONICAL "OpenEye OEToolkits" 1.7.0 "c1ccnc(c1)c2ccc(cn2)CC(=O)N(CCN)CC(=O)O"                                                                                   
KPN SMILES           "OpenEye OEToolkits" 1.7.0 "c1ccnc(c1)c2ccc(cn2)CC(=O)N(CCN)CC(=O)O"                                                                                   
KPN InChI            InChI                1.03  "InChI=1S/C16H18N4O3/c17-6-8-20(11-16(22)23)15(21)9-12-4-5-14(19-10-12)13-3-1-2-7-18-13/h1-5,7,10H,6,8-9,11,17H2,(H,22,23)" 
KPN InChIKey         InChI                1.03  AYWFQSXGKGSEHN-UHFFFAOYSA-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 
KPN "SYSTEMATIC NAME" ACDLabs              12.01 "N-(2-aminoethyl)-N-(2,2'-bipyridin-5-ylacetyl)glycine"                        
KPN "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.0 "2-[2-azanylethyl-[2-(6-pyridin-2-ylpyridin-3-yl)ethanoyl]amino]ethanoic acid" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
KPN "Create component"     2010-04-20 RCSB 
KPN "Modify aromatic_flag" 2011-06-04 RCSB 
KPN "Modify descriptor"    2011-06-04 RCSB 
KPN "Modify backbone"      2023-11-03 PDBE 
# 
