data_A1APU
# 
_chem_comp.id                                    A1APU 
_chem_comp.name                                  "Nalpha-[({(1M)-1-[5-(benzyloxy)pyridin-3-yl]naphthalen-2-yl}sulfanyl)acetyl]-3-methoxy-N,4-dimethyl-L-phenylalaninamide" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C36 H35 N3 O4 S" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2024-04-26 
_chem_comp.pdbx_modified_date                    2024-07-12 
_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                        605.746 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     A1APU 
_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        9BJK 
_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_n_terminal_atom_flag 
_chem_comp_atom.pdbx_backbone_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 
A1APU C14 C1  C 0 1 Y N N N N N 123.812 117.077 123.257 3.396  0.199  0.030  C14 A1APU 1  
A1APU C13 C2  C 0 1 Y N N N N N 124.893 116.359 123.724 3.689  -1.082 0.510  C13 A1APU 2  
A1APU C12 C3  C 0 1 Y N N N N N 124.826 115.681 124.945 3.128  -2.280 -0.154 C12 A1APU 3  
A1APU C11 C4  C 0 1 Y N N N N N 124.656 114.296 127.304 2.030  -4.541 -1.402 C11 A1APU 4  
A1APU C10 C5  C 0 1 Y N N N N N 124.376 113.684 126.098 1.224  -3.636 -0.785 C10 A1APU 5  
A1APU C15 C6  C 0 1 Y N N N N N 123.924 117.780 122.085 3.951  1.289  0.685  C15 A1APU 6  
A1APU C17 C7  C 0 1 N N N N N N 122.139 119.353 122.369 4.304  3.621  0.984  C17 A1APU 7  
A1APU C01 C8  C 0 1 N N N N N N 126.805 106.509 123.867 -5.509 -0.709 5.153  C01 A1APU 8  
A1APU N02 N1  N 0 1 N N N N N N 126.349 107.705 124.532 -5.367 -0.366 3.736  N02 A1APU 9  
A1APU C03 C9  C 0 1 N N N N N N 124.958 108.009 124.425 -4.479 -1.029 2.968  C03 A1APU 10 
A1APU C04 C10 C 0 1 N N S N N N 124.379 109.234 125.087 -4.333 -0.677 1.510  C04 A1APU 11 
A1APU N05 N2  N 0 1 N N N N N N 124.439 110.450 124.269 -3.313 -1.534 0.901  N05 A1APU 12 
A1APU C06 C11 C 0 1 N N N N N N 125.607 111.128 123.695 -2.011 -1.195 0.981  C06 A1APU 13 
A1APU C07 C12 C 0 1 N N N N N N 125.462 112.406 122.885 -0.962 -2.077 0.354  C07 A1APU 14 
A1APU S08 S1  S 0 1 N N N N N N 124.059 113.413 123.419 0.679  -1.355 0.631  S08 A1APU 15 
A1APU C09 C13 C 0 1 Y N N N N N 124.453 114.352 124.902 1.755  -2.505 -0.159 C09 A1APU 16 
A1APU O16 O1  O 0 1 N N N N N N 122.848 118.481 121.540 3.695  2.553  0.256  O16 A1APU 17 
A1APU C18 C14 C 0 1 Y N N N N N 121.360 120.321 121.471 3.909  4.939  0.367  C18 A1APU 18 
A1APU C19 C15 C 0 1 Y N N N N N 120.753 119.875 120.328 4.678  5.488  -0.641 C19 A1APU 19 
A1APU C20 C16 C 0 1 Y N N N N N 120.056 120.738 119.516 4.313  6.694  -1.210 C20 A1APU 20 
A1APU C21 C17 C 0 1 Y N N N N N 119.965 122.063 119.836 3.178  7.350  -0.771 C21 A1APU 21 
A1APU C22 C18 C 0 1 Y N N N N N 120.578 122.517 120.970 2.409  6.800  0.237  C22 A1APU 22 
A1APU C23 C19 C 0 1 Y N N N N N 121.268 121.649 121.782 2.774  5.595  0.807  C23 A1APU 23 
A1APU C24 C20 C 0 1 Y N N N N N 125.101 117.777 121.410 4.771  1.073  1.784  C24 A1APU 24 
A1APU N25 N3  N 0 1 Y N N N N N 126.119 117.121 121.886 5.027  -0.148 2.211  N25 A1APU 25 
A1APU C26 C21 C 0 1 Y N N N N N 126.057 116.444 123.007 4.518  -1.212 1.624  C26 A1APU 26 
A1APU C27 C22 C 0 1 Y N N N N N 125.118 116.315 126.163 3.982  -3.208 -0.796 C27 A1APU 27 
A1APU C28 C23 C 0 1 Y N N N N N 125.029 115.625 127.314 3.423  -4.347 -1.425 C28 A1APU 28 
A1APU C29 C24 C 0 1 Y N N N N N 125.314 116.256 128.529 4.273  -5.271 -2.056 C29 A1APU 29 
A1APU C30 C25 C 0 1 Y N N N N N 125.692 117.588 128.518 5.618  -5.055 -2.061 C30 A1APU 30 
A1APU C31 C26 C 0 1 Y N N N N N 125.790 118.315 127.339 6.166  -3.931 -1.448 C31 A1APU 31 
A1APU C32 C27 C 0 1 Y N N N N N 125.498 117.678 126.155 5.372  -3.019 -0.821 C32 A1APU 32 
A1APU O33 O2  O 0 1 N N N N N N 126.693 110.706 123.827 -1.684 -0.179 1.558  O33 A1APU 33 
A1APU C34 C28 C 0 1 N N N N N N 122.921 108.945 125.331 -5.670 -0.888 0.797  C34 A1APU 34 
A1APU C35 C29 C 0 1 Y N N N N N 122.417 109.888 126.384 -5.557 -0.420 -0.631 C35 A1APU 35 
A1APU C36 C30 C 0 1 Y N N N N N 121.280 110.629 126.176 -5.850 0.891  -0.953 C36 A1APU 36 
A1APU C37 C31 C 0 1 Y N N N N N 120.830 111.485 127.163 -5.745 1.321  -2.267 C37 A1APU 37 
A1APU O38 O3  O 0 1 N N N N N N 119.673 112.233 126.977 -6.032 2.611  -2.586 O38 A1APU 38 
A1APU C39 C32 C 0 1 N N N N N N 119.004 111.909 125.806 -6.436 3.469  -1.518 C39 A1APU 39 
A1APU C40 C33 C 0 1 Y N N N N N 121.530 111.598 128.341 -5.347 0.434  -3.256 C40 A1APU 40 
A1APU C41 C34 C 0 1 N N N N N N 121.049 112.541 129.420 -5.232 0.898  -4.685 C41 A1APU 41 
A1APU C42 C35 C 0 1 Y N N N N N 122.665 110.865 128.544 -5.055 -0.877 -2.929 C42 A1APU 42 
A1APU C43 C36 C 0 1 Y N N N N N 123.109 110.006 127.559 -5.155 -1.302 -1.617 C43 A1APU 43 
A1APU O44 O4  O 0 1 N N N N N N 124.282 107.275 123.822 -3.800 -1.910 3.450  O44 A1APU 44 
A1APU H1  H1  H 0 1 N N N N N N 122.884 117.086 123.810 2.757  0.335  -0.831 H1  A1APU 45 
A1APU H2  H2  H 0 1 N N N N N N 124.584 113.742 128.228 1.599  -5.408 -1.880 H2  A1APU 46 
A1APU H3  H3  H 0 1 N N N N N N 124.086 112.644 126.096 0.155  -3.797 -0.775 H3  A1APU 47 
A1APU H4  H4  H 0 1 N N N N N N 122.838 119.914 123.007 3.971  3.591  2.021  H4  A1APU 48 
A1APU H5  H5  H 0 1 N N N N N N 121.441 118.784 123.001 5.388  3.514  0.947  H5  A1APU 49 
A1APU H6  H6  H 0 1 N N N N N N 127.887 106.391 124.026 -5.810 -1.752 5.246  H6  A1APU 50 
A1APU H7  H7  H 0 1 N N N N N N 126.277 105.637 124.279 -4.557 -0.558 5.661  H7  A1APU 51 
A1APU H8  H8  H 0 1 N N N N N N 126.599 106.588 122.789 -6.268 -0.071 5.606  H8  A1APU 52 
A1APU H9  H9  H 0 1 N N N N N N 126.976 108.293 125.043 -5.910 0.339  3.350  H9  A1APU 53 
A1APU H10 H10 H 0 1 N N N N N N 124.885 109.403 126.049 -4.032 0.367  1.417  H10 A1APU 54 
A1APU H11 H11 H 0 1 N N N N N N 123.557 110.879 124.074 -3.575 -2.346 0.439  H11 A1APU 55 
A1APU H12 H12 H 0 1 N N N N N N 125.321 112.139 121.827 -1.004 -3.068 0.805  H12 A1APU 56 
A1APU H13 H13 H 0 1 N N N N N N 126.382 112.998 122.994 -1.148 -2.157 -0.717 H13 A1APU 57 
A1APU H14 H14 H 0 1 N N N N N N 120.823 118.831 120.060 5.565  4.976  -0.985 H14 A1APU 58 
A1APU H15 H15 H 0 1 N N N N N N 119.578 120.367 118.621 4.915  7.123  -1.998 H15 A1APU 59 
A1APU H16 H16 H 0 1 N N N N N N 119.416 122.743 119.201 2.894  8.292  -1.215 H16 A1APU 60 
A1APU H17 H17 H 0 1 N N N N N N 120.520 123.564 121.229 1.522  7.312  0.580  H17 A1APU 61 
A1APU H18 H18 H 0 1 N N N N N N 121.744 122.021 122.677 2.171  5.163  1.592  H18 A1APU 62 
A1APU H19 H19 H 0 1 N N N N N N 125.193 118.318 120.480 5.210  1.918  2.295  H19 A1APU 63 
A1APU H20 H20 H 0 1 N N N N N N 126.941 115.943 123.372 4.752  -2.195 2.004  H20 A1APU 64 
A1APU H21 H21 H 0 1 N N N N N N 125.241 115.714 129.460 3.862  -6.147 -2.535 H21 A1APU 65 
A1APU H22 H22 H 0 1 N N N N N N 125.917 118.076 129.455 6.269  -5.767 -2.547 H22 A1APU 66 
A1APU H23 H23 H 0 1 N N N N N N 126.088 119.353 127.351 7.236  -3.783 -1.465 H23 A1APU 67 
A1APU H24 H24 H 0 1 N N N N N N 125.559 118.217 125.221 5.810  -2.154 -0.345 H24 A1APU 68 
A1APU H25 H25 H 0 1 N N N N N N 122.353 109.091 124.400 -5.926 -1.947 0.813  H25 A1APU 69 
A1APU H26 H26 H 0 1 N N N N N N 122.801 107.907 125.675 -6.447 -0.318 1.306  H26 A1APU 70 
A1APU H27 H27 H 0 1 N N N N N N 120.740 110.543 125.245 -6.160 1.580  -0.181 H27 A1APU 71 
A1APU H28 H28 H 0 1 N N N N N N 118.101 112.531 125.715 -7.340 3.073  -1.055 H28 A1APU 72 
A1APU H29 H29 H 0 1 N N N N N N 119.663 112.091 124.945 -5.641 3.522  -0.774 H29 A1APU 73 
A1APU H30 H30 H 0 1 N N N N N N 118.717 110.847 125.830 -6.634 4.467  -1.908 H30 A1APU 74 
A1APU H31 H31 H 0 1 N N N N N N 120.364 112.008 130.095 -4.223 1.268  -4.866 H31 A1APU 75 
A1APU H32 H32 H 0 1 N N N N N N 121.911 112.913 129.992 -5.438 0.064  -5.356 H32 A1APU 76 
A1APU H33 H33 H 0 1 N N N N N N 120.522 113.389 128.958 -5.950 1.697  -4.866 H33 A1APU 77 
A1APU H34 H34 H 0 1 N N N N N N 123.212 110.957 129.471 -4.745 -1.569 -3.698 H34 A1APU 78 
A1APU H35 H35 H 0 1 N N N N N N 124.006 109.425 127.716 -4.922 -2.325 -1.363 H35 A1APU 79 
# 
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 
A1APU C20 C21 DOUB Y N 1  
A1APU C20 C19 SING Y N 2  
A1APU C21 C22 SING Y N 3  
A1APU C19 C18 DOUB Y N 4  
A1APU C22 C23 DOUB Y N 5  
A1APU C24 N25 DOUB Y N 6  
A1APU C24 C15 SING Y N 7  
A1APU C18 C23 SING Y N 8  
A1APU C18 C17 SING N N 9  
A1APU O16 C15 SING N N 10 
A1APU O16 C17 SING N N 11 
A1APU N25 C26 SING Y N 12 
A1APU C15 C14 DOUB Y N 13 
A1APU C07 S08 SING N N 14 
A1APU C07 C06 SING N N 15 
A1APU C26 C13 DOUB Y N 16 
A1APU C14 C13 SING Y N 17 
A1APU S08 C09 SING N N 18 
A1APU C06 O33 DOUB N N 19 
A1APU C06 N05 SING N N 20 
A1APU C13 C12 SING N N 21 
A1APU O44 C03 DOUB N N 22 
A1APU C01 N02 SING N N 23 
A1APU N05 C04 SING N N 24 
A1APU C03 N02 SING N N 25 
A1APU C03 C04 SING N N 26 
A1APU C09 C12 DOUB Y N 27 
A1APU C09 C10 SING Y N 28 
A1APU C12 C27 SING Y N 29 
A1APU C04 C34 SING N N 30 
A1APU C34 C35 SING N N 31 
A1APU C39 O38 SING N N 32 
A1APU C10 C11 DOUB Y N 33 
A1APU C32 C27 DOUB Y N 34 
A1APU C32 C31 SING Y N 35 
A1APU C27 C28 SING Y N 36 
A1APU C36 C35 DOUB Y N 37 
A1APU C36 C37 SING Y N 38 
A1APU C35 C43 SING Y N 39 
A1APU O38 C37 SING N N 40 
A1APU C37 C40 DOUB Y N 41 
A1APU C11 C28 SING Y N 42 
A1APU C28 C29 DOUB Y N 43 
A1APU C31 C30 DOUB Y N 44 
A1APU C43 C42 DOUB Y N 45 
A1APU C40 C42 SING Y N 46 
A1APU C40 C41 SING N N 47 
A1APU C30 C29 SING Y N 48 
A1APU C14 H1  SING N N 49 
A1APU C11 H2  SING N N 50 
A1APU C10 H3  SING N N 51 
A1APU C17 H4  SING N N 52 
A1APU C17 H5  SING N N 53 
A1APU C01 H6  SING N N 54 
A1APU C01 H7  SING N N 55 
A1APU C01 H8  SING N N 56 
A1APU N02 H9  SING N N 57 
A1APU C04 H10 SING N N 58 
A1APU N05 H11 SING N N 59 
A1APU C07 H12 SING N N 60 
A1APU C07 H13 SING N N 61 
A1APU C19 H14 SING N N 62 
A1APU C20 H15 SING N N 63 
A1APU C21 H16 SING N N 64 
A1APU C22 H17 SING N N 65 
A1APU C23 H18 SING N N 66 
A1APU C24 H19 SING N N 67 
A1APU C26 H20 SING N N 68 
A1APU C29 H21 SING N N 69 
A1APU C30 H22 SING N N 70 
A1APU C31 H23 SING N N 71 
A1APU C32 H24 SING N N 72 
A1APU C34 H25 SING N N 73 
A1APU C34 H26 SING N N 74 
A1APU C36 H27 SING N N 75 
A1APU C39 H28 SING N N 76 
A1APU C39 H29 SING N N 77 
A1APU C39 H30 SING N N 78 
A1APU C41 H31 SING N N 79 
A1APU C41 H32 SING N N 80 
A1APU C41 H33 SING N N 81 
A1APU C42 H34 SING N N 82 
A1APU C43 H35 SING N N 83 
# 
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 
A1APU SMILES           ACDLabs              12.01 "CNC(=O)C(Cc1ccc(C)c(OC)c1)NC(=O)CSc1ccc2ccccc2c1c1cncc(OCc2ccccc2)c1"                                                                                                                                                           
A1APU InChI            InChI                1.06  "InChI=1S/C36H35N3O4S/c1-24-13-14-26(18-32(24)42-3)17-31(36(41)37-2)39-34(40)23-44-33-16-15-27-11-7-8-12-30(27)35(33)28-19-29(21-38-20-28)43-22-25-9-5-4-6-10-25/h4-16,18-21,31H,17,22-23H2,1-3H3,(H,37,41)(H,39,40)/t31-/m0/s1" 
A1APU InChIKey         InChI                1.06  IBQRWMDLUKSOJL-HKBQPEDESA-N                                                                                                                                                                                                      
A1APU SMILES_CANONICAL CACTVS               3.385 "CNC(=O)[C@H](Cc1ccc(C)c(OC)c1)NC(=O)CSc2ccc3ccccc3c2c4cncc(OCc5ccccc5)c4"                                                                                                                                                       
A1APU SMILES           CACTVS               3.385 "CNC(=O)[CH](Cc1ccc(C)c(OC)c1)NC(=O)CSc2ccc3ccccc3c2c4cncc(OCc5ccccc5)c4"                                                                                                                                                        
A1APU SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "Cc1ccc(cc1OC)C[C@@H](C(=O)NC)NC(=O)CSc2ccc3ccccc3c2c4cc(cnc4)OCc5ccccc5"                                                                                                                                                        
A1APU SMILES           "OpenEye OEToolkits" 2.0.7 "Cc1ccc(cc1OC)CC(C(=O)NC)NC(=O)CSc2ccc3ccccc3c2c4cc(cnc4)OCc5ccccc5"                                                                                                                                                             
# 
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 
A1APU "SYSTEMATIC NAME" ACDLabs              12.01 "Nalpha-[({(1M)-1-[5-(benzyloxy)pyridin-3-yl]naphthalen-2-yl}sulfanyl)acetyl]-3-methoxy-N,4-dimethyl-L-phenylalaninamide"                  
A1APU "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(2~{S})-3-(3-methoxy-4-methyl-phenyl)-~{N}-methyl-2-[2-[1-(5-phenylmethoxypyridin-3-yl)naphthalen-2-yl]sulfanylethanoylamino]propanamide" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
A1APU "Create component" 2024-04-26 RCSB 
A1APU "Initial release"  2024-07-17 RCSB 
# 
