data_Y5Z
# 
_chem_comp.id                                    Y5Z 
_chem_comp.name                                  "N-{4-[4-(2-amino-4-oxo-3,4-dihydro-5H-pyrrolo[3,2-d]pyrimidin-5-yl)butyl]-2-fluorobenzoyl}-L-gamma-glutamyl-L-glutamic acid" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C27 H31 F N6 O9" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-06-12 
_chem_comp.pdbx_modified_date                    2024-02-16 
_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                        602.568 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     Y5Z 
_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        8T4P 
_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 
Y5Z O10 O1  O 0 1 N N N N N N -36.371 65.943 2.710  -8.345  -0.745 -1.125 O10 Y5Z 1  
Y5Z C02 C1  C 0 1 N N N N N N -39.473 64.378 3.512  -11.252 1.153  -1.060 C02 Y5Z 2  
Y5Z C04 C2  C 0 1 N N N N N N -37.289 65.575 3.362  -9.180  0.069  -0.766 C04 Y5Z 3  
Y5Z C05 C3  C 0 1 Y N N N N N -38.238 65.864 6.918  -9.497  2.406  1.931  C05 Y5Z 4  
Y5Z C06 C4  C 0 1 Y N N N N N -37.029 66.547 6.914  -8.293  1.883  2.237  C06 Y5Z 5  
Y5Z C08 C5  C 0 1 Y N N N N N -37.361 65.882 4.862  -8.975  0.850  0.386  C08 Y5Z 6  
Y5Z C09 C6  C 0 1 Y N N N N N -38.448 65.439 5.598  -9.960  1.772  0.758  C09 Y5Z 7  
Y5Z C12 C7  C 0 1 Y N N N N N -39.192 73.196 2.710  0.236   -1.620 -0.527 C12 Y5Z 8  
Y5Z C13 C8  C 0 1 Y N N N N N -37.949 73.695 3.061  -0.766  -1.879 -1.467 C13 Y5Z 9  
Y5Z C14 C9  C 0 1 Y N N N N N -39.584 71.943 3.155  0.053   -0.608 0.418  C14 Y5Z 10 
Y5Z C15 C10 C 0 1 Y N N N N N -37.098 72.943 3.858  -1.929  -1.131 -1.455 C15 Y5Z 11 
Y5Z C16 C11 C 0 1 Y N N N N N -38.733 71.190 3.954  -1.112  0.130  0.417  C16 Y5Z 12 
Y5Z C17 C12 C 0 1 N N N N N N -40.121 74.040 1.828  1.479   -2.417 -0.528 C17 Y5Z 13 
Y5Z C20 C13 C 0 1 N N S N N N -42.438 74.572 0.969  3.676   -2.956 0.379  C20 Y5Z 14 
Y5Z C21 C14 C 0 1 N N N N N N -43.838 73.956 0.971  4.805   -2.141 1.013  C21 Y5Z 15 
Y5Z C22 C15 C 0 1 N N N N N N -43.804 72.431 0.876  5.106   -0.921 0.141  C22 Y5Z 16 
Y5Z C23 C16 C 0 1 N N N N N N -45.173 71.845 0.529  6.218   -0.118 0.766  C23 Y5Z 17 
Y5Z C26 C17 C 0 1 N N N N N N -42.461 76.016 1.470  3.463   -4.220 1.171  C26 Y5Z 18 
Y5Z C29 C18 C 0 1 N N N N N N -35.275 67.168 5.318  -6.724  0.152  1.308  C29 Y5Z 19 
Y5Z C30 C19 C 0 1 N N N N N N -35.324 68.674 5.594  -5.692  0.828  0.402  C30 Y5Z 20 
Y5Z C31 C20 C 0 1 N N N N N N -36.357 69.417 4.738  -4.403  0.004  0.395  C31 Y5Z 21 
Y5Z C32 C21 C 0 1 N N N N N N -36.537 70.868 5.192  -3.371  0.680  -0.510 C32 Y5Z 22 
Y5Z C33 C22 C 0 1 Y N N N N N -37.486 71.689 4.305  -2.101  -0.131 -0.517 C33 Y5Z 23 
Y5Z C35 C23 C 0 1 N N S N N N -47.363 72.084 -0.783 7.735   1.788  0.775  C35 Y5Z 24 
Y5Z C36 C24 C 0 1 N N N N N N -47.217 70.842 -1.665 8.453   2.595  -0.308 C36 Y5Z 25 
Y5Z C37 C25 C 0 1 N N N N N N -48.250 70.783 -2.788 9.143   1.638  -1.283 C37 Y5Z 26 
Y5Z C38 C26 C 0 1 N N N N N N -49.670 70.555 -2.274 9.850   2.433  -2.351 C38 Y5Z 27 
Y5Z C41 C27 C 0 1 N N N N N N -48.246 71.838 0.442  7.160   2.729  1.803  C41 Y5Z 28 
Y5Z F34 F1  F 0 1 N N N N N N -37.565 74.930 2.622  -0.597  -2.856 -2.385 F34 Y5Z 29 
Y5Z N01 N1  N 0 1 N N N N N N -39.538 64.673 4.944  -11.076 1.890  0.011  N01 Y5Z 30 
Y5Z N03 N2  N 0 1 N N N N N N -38.342 64.833 2.731  -10.323 0.241  -1.467 N03 Y5Z 31 
Y5Z N07 N3  N 0 1 Y N N N N N -36.535 66.539 5.688  -7.959  0.940  1.314  N07 Y5Z 32 
Y5Z N11 N4  N 0 1 N N N N N N -40.544 63.629 2.877  -12.406 1.301  -1.790 N11 Y5Z 33 
Y5Z N19 N5  N 0 1 N N N N N N -41.552 73.772 1.804  2.443   -2.165 0.380  N19 Y5Z 34 
Y5Z N25 N6  N 0 1 N N N N N N -46.042 72.565 -0.392 6.654   1.008  0.168  N25 Y5Z 35 
Y5Z O18 O2  O 0 1 N N N N N N -39.668 74.910 1.162  1.634   -3.301 -1.348 O18 Y5Z 36 
Y5Z O24 O3  O 0 1 N N N N N N -45.505 70.815 1.012  6.720   -0.486 1.806  O24 Y5Z 37 
Y5Z O27 O4  O 0 1 N N N N N N -42.391 76.969 0.649  2.391   -4.438 1.683  O27 Y5Z 38 
Y5Z O28 O5  O 0 1 N N N N N N -42.546 76.253 2.704  4.464   -5.104 1.306  O28 Y5Z 39 
Y5Z O39 O6  O 0 1 N N N N N N -50.448 71.532 -2.116 9.807   3.640  -2.334 O39 Y5Z 40 
Y5Z O40 O7  O 0 1 N N N N N N -50.061 69.388 -2.009 10.528  1.799  -3.321 O40 Y5Z 41 
Y5Z O42 O8  O 0 1 N N N N N N -48.903 72.788 0.943  5.969   2.745  2.007  O42 Y5Z 42 
Y5Z O43 O9  O 0 1 N N N N N N -48.325 70.686 0.944  7.971   3.547  2.492  O43 Y5Z 43 
Y5Z H1  H1  H 0 1 N N N N N N -38.885 65.694 7.766  -10.016 3.174  2.486  H1  Y5Z 44 
Y5Z H2  H2  H 0 1 N N N N N N -36.567 67.010 7.774  -7.686  2.169  3.084  H2  Y5Z 45 
Y5Z H3  H3  H 0 1 N N N N N N -40.552 71.552 2.880  0.822   -0.402 1.147  H3  Y5Z 46 
Y5Z H4  H4  H 0 1 N N N N N N -36.130 73.336 4.131  -2.704  -1.329 -2.180 H4  Y5Z 47 
Y5Z H5  H5  H 0 1 N N N N N N -39.042 70.215 4.302  -1.254  0.913  1.147  H5  Y5Z 48 
Y5Z H6  H6  H 0 1 N N N N N N -42.061 74.571 -0.065 3.944   -3.210 -0.647 H6  Y5Z 49 
Y5Z H7  H7  H 0 1 N N N N N N -44.399 74.351 0.111  4.501   -1.811 2.007  H7  Y5Z 50 
Y5Z H8  H8  H 0 1 N N N N N N -44.348 74.241 1.903  5.699   -2.760 1.093  H8  Y5Z 51 
Y5Z H9  H9  H 0 1 N N N N N N -43.479 72.023 1.844  5.410   -1.250 -0.853 H9  Y5Z 52 
Y5Z H10 H10 H 0 1 N N N N N N -43.086 72.140 0.095  4.212   -0.302 0.061  H10 Y5Z 53 
Y5Z H11 H11 H 0 1 N N N N N N -35.089 67.002 4.247  -6.935  -0.850 0.933  H11 Y5Z 54 
Y5Z H12 H12 H 0 1 N N N N N N -34.460 66.719 5.905  -6.330  0.085  2.322  H12 Y5Z 55 
Y5Z H13 H13 H 0 1 N N N N N N -34.330 69.099 5.388  -6.087  0.894  -0.612 H13 Y5Z 56 
Y5Z H14 H14 H 0 1 N N N N N N -35.575 68.826 6.654  -5.482  1.829  0.777  H14 Y5Z 57 
Y5Z H15 H15 H 0 1 N N N N N N -37.323 68.897 4.816  -4.009  -0.062 1.409  H15 Y5Z 58 
Y5Z H16 H16 H 0 1 N N N N N N -36.021 69.411 3.691  -4.614  -0.998 0.021  H16 Y5Z 59 
Y5Z H17 H17 H 0 1 N N N N N N -35.551 71.356 5.188  -3.765  0.747  -1.524 H17 Y5Z 60 
Y5Z H18 H18 H 0 1 N N N N N N -36.939 70.862 6.216  -3.160  1.682  -0.135 H18 Y5Z 61 
Y5Z H19 H19 H 0 1 N N N N N N -47.849 72.863 -1.389 8.444   1.114  1.256  H19 Y5Z 62 
Y5Z H20 H20 H 0 1 N N N N N N -47.334 69.948 -1.034 7.728   3.204  -0.848 H20 Y5Z 63 
Y5Z H21 H21 H 0 1 N N N N N N -46.212 70.846 -2.113 9.199   3.242  0.154  H21 Y5Z 64 
Y5Z H22 H22 H 0 1 N N N N N N -47.985 69.959 -3.466 9.868   1.029  -0.743 H22 Y5Z 65 
Y5Z H23 H23 H 0 1 N N N N N N -48.224 71.734 -3.340 8.398   0.991  -1.746 H23 Y5Z 66 
Y5Z H25 H25 H 0 1 N N N N N N -41.324 63.316 3.418  -13.078 1.943  -1.510 H25 Y5Z 67 
Y5Z H26 H26 H 0 1 N N N N N N -40.501 63.427 1.899  -12.550 0.763  -2.584 H26 Y5Z 68 
Y5Z H27 H27 H 0 1 N N N N N N -41.929 73.034 2.364  2.320   -1.459 1.034  H27 Y5Z 69 
Y5Z H28 H28 H 0 1 N N N N N N -45.718 73.430 -0.775 6.252   1.303  -0.664 H28 Y5Z 70 
Y5Z H29 H29 H 0 1 N N N N N N -42.545 77.192 2.847  4.279   -5.900 1.823  H29 Y5Z 71 
Y5Z H30 H30 H 0 1 N N N N N N -50.960 69.417 -1.703 10.966  2.351  -3.983 H30 Y5Z 72 
Y5Z H31 H31 H 0 1 N N N N N N -48.916 70.704 1.687  7.556   4.132  3.140  H31 Y5Z 73 
Y5Z H24 H24 H 0 1 N N N N N N -38.295 64.630 1.753  -10.483 -0.288 -2.264 H24 Y5Z 74 
# 
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 
Y5Z C37 C38 SING N N 1  
Y5Z C37 C36 SING N N 2  
Y5Z C38 O39 DOUB N N 3  
Y5Z C38 O40 SING N N 4  
Y5Z C36 C35 SING N N 5  
Y5Z C35 N25 SING N N 6  
Y5Z C35 C41 SING N N 7  
Y5Z N25 C23 SING N N 8  
Y5Z C41 O42 DOUB N N 9  
Y5Z C41 O43 SING N N 10 
Y5Z C23 C22 SING N N 11 
Y5Z C23 O24 DOUB N N 12 
Y5Z O27 C26 DOUB N N 13 
Y5Z C22 C21 SING N N 14 
Y5Z C20 C21 SING N N 15 
Y5Z C20 C26 SING N N 16 
Y5Z C20 N19 SING N N 17 
Y5Z O18 C17 DOUB N N 18 
Y5Z C26 O28 SING N N 19 
Y5Z N19 C17 SING N N 20 
Y5Z C17 C12 SING N N 21 
Y5Z F34 C13 SING N N 22 
Y5Z O10 C04 DOUB N N 23 
Y5Z C12 C13 DOUB Y N 24 
Y5Z C12 C14 SING Y N 25 
Y5Z N03 C04 SING N N 26 
Y5Z N03 C02 SING N N 27 
Y5Z N11 C02 SING N N 28 
Y5Z C13 C15 SING Y N 29 
Y5Z C14 C16 DOUB Y N 30 
Y5Z C04 C08 SING N N 31 
Y5Z C02 N01 DOUB N N 32 
Y5Z C15 C33 DOUB Y N 33 
Y5Z C16 C33 SING Y N 34 
Y5Z C33 C32 SING N N 35 
Y5Z C31 C32 SING N N 36 
Y5Z C31 C30 SING N N 37 
Y5Z C08 C09 DOUB Y N 38 
Y5Z C08 N07 SING Y N 39 
Y5Z N01 C09 SING N N 40 
Y5Z C29 C30 SING N N 41 
Y5Z C29 N07 SING N N 42 
Y5Z C09 C05 SING Y N 43 
Y5Z N07 C06 SING Y N 44 
Y5Z C06 C05 DOUB Y N 45 
Y5Z C05 H1  SING N N 46 
Y5Z C06 H2  SING N N 47 
Y5Z C14 H3  SING N N 48 
Y5Z C15 H4  SING N N 49 
Y5Z C16 H5  SING N N 50 
Y5Z C20 H6  SING N N 51 
Y5Z C21 H7  SING N N 52 
Y5Z C21 H8  SING N N 53 
Y5Z C22 H9  SING N N 54 
Y5Z C22 H10 SING N N 55 
Y5Z C29 H11 SING N N 56 
Y5Z C29 H12 SING N N 57 
Y5Z C30 H13 SING N N 58 
Y5Z C30 H14 SING N N 59 
Y5Z C31 H15 SING N N 60 
Y5Z C31 H16 SING N N 61 
Y5Z C32 H17 SING N N 62 
Y5Z C32 H18 SING N N 63 
Y5Z C35 H19 SING N N 64 
Y5Z C36 H20 SING N N 65 
Y5Z C36 H21 SING N N 66 
Y5Z C37 H22 SING N N 67 
Y5Z C37 H23 SING N N 68 
Y5Z N11 H25 SING N N 69 
Y5Z N11 H26 SING N N 70 
Y5Z N19 H27 SING N N 71 
Y5Z N25 H28 SING N N 72 
Y5Z O28 H29 SING N N 73 
Y5Z O40 H30 SING N N 74 
Y5Z O43 H31 SING N N 75 
Y5Z N03 H24 SING N N 76 
# 
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 
Y5Z SMILES           ACDLabs              12.01 "O=C(O)C(CCC(=O)O)NC(=O)CCC(NC(=O)c1ccc(cc1F)CCCCn1ccc2N=C(N)NC(=O)c21)C(=O)O"                                                                                                                                                                                          
Y5Z InChI            InChI                1.06  "InChI=1S/C27H31FN6O9/c28-16-13-14(3-1-2-11-34-12-10-17-22(34)24(39)33-27(29)32-17)4-5-15(16)23(38)31-19(26(42)43)6-8-20(35)30-18(25(40)41)7-9-21(36)37/h4-5,10,12-13,18-19H,1-3,6-9,11H2,(H,30,35)(H,31,38)(H,36,37)(H,40,41)(H,42,43)(H3,29,32,33,39)/t18-,19-/m0/s1" 
Y5Z InChIKey         InChI                1.06  HMMICCIWWRSKPK-OALUTQOASA-N                                                                                                                                                                                                                                             
Y5Z SMILES_CANONICAL CACTVS               3.385 "NC1=Nc2ccn(CCCCc3ccc(c(F)c3)C(=O)N[C@@H](CCC(=O)N[C@@H](CCC(O)=O)C(O)=O)C(O)=O)c2C(=O)N1"                                                                                                                                                                              
Y5Z SMILES           CACTVS               3.385 "NC1=Nc2ccn(CCCCc3ccc(c(F)c3)C(=O)N[CH](CCC(=O)N[CH](CCC(O)=O)C(O)=O)C(O)=O)c2C(=O)N1"                                                                                                                                                                                  
Y5Z SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1cc(c(cc1CCCCn2ccc3c2C(=O)NC(=N3)N)F)C(=O)N[C@@H](CCC(=O)N[C@@H](CCC(=O)O)C(=O)O)C(=O)O"                                                                                                                                                                              
Y5Z SMILES           "OpenEye OEToolkits" 2.0.7 "c1cc(c(cc1CCCCn2ccc3c2C(=O)NC(=N3)N)F)C(=O)NC(CCC(=O)NC(CCC(=O)O)C(=O)O)C(=O)O"                                                                                                                                                                                        
# 
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 
Y5Z "SYSTEMATIC NAME" ACDLabs              12.01 "N-{4-[4-(2-amino-4-oxo-3,4-dihydro-5H-pyrrolo[3,2-d]pyrimidin-5-yl)butyl]-2-fluorobenzoyl}-L-gamma-glutamyl-L-glutamic acid"                                                                     
Y5Z "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(2~{S})-2-[[(4~{S})-4-[[4-[4-(2-azanyl-4-oxidanylidene-3~{H}-pyrrolo[3,2-d]pyrimidin-5-yl)butyl]-2-fluoranyl-phenyl]carbonylamino]-5-oxidanyl-5-oxidanylidene-pentanoyl]amino]pentanedioic 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 
Y5Z "Create component" 2023-06-12 RCSB 
Y5Z "Initial release"  2024-02-21 RCSB 
# 
