data_Y7L
# 
_chem_comp.id                                    Y7L 
_chem_comp.name                                  "N-{5-[5-(2-amino-4-oxo-3,4-dihydro-5H-pyrrolo[3,2-d]pyrimidin-5-yl)pentyl]thiophene-2-carbonyl}-L-glutamic acid" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C21 H25 N5 O6 S" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-01-10 
_chem_comp.pdbx_modified_date                    2023-09-01 
_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                        475.518 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     Y7L 
_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        8FJX 
_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.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 
Y7L C8  C1  C 0 1 Y N N 25.647 -12.682 -22.922 -6.650 -0.278 0.180  C8  Y7L 1  
Y7L N7  N1  N 0 1 Y N N 26.321 -13.631 -22.231 -6.292 1.044  0.334  N7  Y7L 2  
Y7L C5  C2  C 0 1 Y N N 27.529 -11.789 -22.114 -7.998 1.021  -1.075 C5  Y7L 3  
Y7L C6  C3  C 0 1 Y N N 27.446 -13.127 -21.740 -7.116 1.812  -0.431 C6  Y7L 4  
Y7L N1  N2  N 0 1 N N N 25.829 -10.444 -23.527 -8.281 -1.502 -1.037 N1  Y7L 5  
Y7L C2  C4  C 0 1 N N N 24.673 -10.517 -24.173 -7.819 -2.622 -0.534 C2  Y7L 6  
Y7L N3  N3  N 0 1 N N N 23.959 -11.636 -24.234 -6.762 -2.642 0.329  N3  Y7L 7  
Y7L C4  C5  C 0 1 N N N 24.411 -12.725 -23.627 -6.165 -1.490 0.706  C4  Y7L 8  
Y7L C13 C6  C 0 1 Y N N 25.997 -11.061 -16.245 3.177  1.870  -0.439 C13 Y7L 9  
Y7L C14 C7  C 0 1 Y N N 26.926 -11.692 -17.087 2.687  3.113  -0.728 C14 Y7L 10 
Y7L C15 C8  C 0 1 Y N N 26.497 -12.977 -17.562 1.484  3.378  -0.120 C15 Y7L 11 
Y7L C16 C9  C 0 1 Y N N 25.235 -13.372 -17.086 1.002  2.389  0.642  C16 Y7L 12 
Y7L C17 C10 C 0 1 N N N 26.073 -9.698  -15.559 4.438  1.316  -0.939 C17 Y7L 13 
Y7L C20 C11 C 0 1 N N S 27.196 -7.552  -15.017 6.079  -0.480 -1.078 C20 Y7L 14 
Y7L C21 C12 C 0 1 N N N 28.320 -7.513  -13.983 6.588  -1.548 -0.107 C21 Y7L 15 
Y7L C22 C13 C 0 1 N N N 27.884 -8.294  -12.739 6.935  -0.895 1.232  C22 Y7L 16 
Y7L C23 C14 C 0 1 N N N 28.987 -8.499  -11.703 7.436  -1.947 2.189  C23 Y7L 17 
Y7L C26 C15 C 0 1 N N N 27.327 -6.442  -16.051 5.853  -1.100 -2.433 C26 Y7L 18 
Y7L C29 C16 C 0 1 N N N 25.855 -14.995 -22.073 -5.205 1.541  1.181  C29 Y7L 19 
Y7L C30 C17 C 0 1 N N N 26.097 -15.456 -20.641 -3.886 1.477  0.407  C30 Y7L 20 
Y7L C31 C18 C 0 1 N N N 24.851 -15.296 -19.774 -2.751 1.997  1.292  C31 Y7L 21 
Y7L C32 C19 C 0 1 N N N 25.191 -15.597 -18.313 -1.432 1.933  0.519  C32 Y7L 22 
Y7L C33 C20 C 0 1 N N N 24.459 -14.656 -17.367 -0.297 2.452  1.403  C33 Y7L 23 
Y7L C9  C21 C 0 1 Y N N 26.355 -11.512 -22.884 -7.730 -0.316 -0.710 C9  Y7L 24 
Y7L N11 N4  N 0 1 N N N 24.171 -9.332  -24.841 -8.409 -3.809 -0.894 N11 Y7L 25 
Y7L N19 N5  N 0 1 N N N 27.222 -8.833  -15.706 4.819  0.074  -0.578 N19 Y7L 26 
Y7L O10 O1  O 0 1 N N N 23.680 -13.918 -23.675 -5.225 -1.501 1.484  O10 Y7L 27 
Y7L O18 O2  O 0 1 N N N 25.159 -9.345  -14.897 5.142  1.976  -1.681 O18 Y7L 28 
Y7L O24 O3  O 0 1 N N N 28.804 -8.020  -10.397 7.802  -1.602 3.433  O24 Y7L 29 
Y7L O25 O4  O 0 1 N N N 30.165 -9.170  -12.049 7.507  -3.100 1.836  O25 Y7L 30 
Y7L O27 O5  O 0 1 N N N 26.902 -5.284  -15.794 6.875  -1.674 -3.087 O27 Y7L 31 
Y7L O28 O6  O 0 1 N N N 27.846 -6.697  -17.171 4.752  -1.081 -2.930 O28 Y7L 32 
Y7L S12 S1  S 0 1 Y N N 24.690 -12.112 -16.115 2.055  1.046  0.635  S12 Y7L 33 
Y7L H1  H1  H 0 1 N N N 28.322 -11.097 -21.871 -8.772 1.352  -1.752 H1  Y7L 34 
Y7L H2  H2  H 0 1 N N N 28.174 -13.664 -21.150 -7.071 2.888  -0.509 H2  Y7L 35 
Y7L H3  H3  H 0 1 N N N 23.092 -11.657 -24.731 -6.446 -3.487 0.683  H3  Y7L 36 
Y7L H4  H4  H 0 1 N N N 27.876 -11.252 -17.353 3.196  3.817  -1.371 H4  Y7L 37 
Y7L H5  H5  H 0 1 N N N 27.092 -13.586 -18.226 0.965  4.317  -0.247 H5  Y7L 38 
Y7L H6  H6  H 0 1 N N N 26.235 -7.434  -14.495 6.819  0.316  -1.161 H6  Y7L 39 
Y7L H7  H7  H 0 1 N N N 29.226 -7.971  -14.406 5.812  -2.299 0.045  H7  Y7L 40 
Y7L H8  H8  H 0 1 N N N 28.531 -6.469  -13.707 7.477  -2.022 -0.521 H8  Y7L 41 
Y7L H9  H9  H 0 1 N N N 27.060 -7.745  -12.260 7.710  -0.144 1.080  H9  Y7L 42 
Y7L H10 H10 H 0 1 N N N 27.527 -9.283  -13.062 6.046  -0.421 1.647  H10 Y7L 43 
Y7L H11 H11 H 0 1 N N N 24.779 -15.042 -22.296 -5.409 2.573  1.466  H11 Y7L 44 
Y7L H12 H12 H 0 1 N N N 26.402 -15.651 -22.766 -5.131 0.925  2.076  H12 Y7L 45 
Y7L H13 H13 H 0 1 N N N 26.388 -16.517 -20.653 -3.682 0.445  0.122  H13 Y7L 46 
Y7L H14 H14 H 0 1 N N N 26.911 -14.857 -20.207 -3.960 2.094  -0.488 H14 Y7L 47 
Y7L H15 H15 H 0 1 N N N 24.479 -14.264 -19.857 -2.955 3.029  1.577  H15 Y7L 48 
Y7L H16 H16 H 0 1 N N N 24.074 -15.994 -20.119 -2.677 1.380  2.188  H16 Y7L 49 
Y7L H17 H17 H 0 1 N N N 24.900 -16.633 -18.084 -1.228 0.900  0.234  H17 Y7L 50 
Y7L H18 H18 H 0 1 N N N 26.275 -15.480 -18.166 -1.506 2.549  -0.377 H18 Y7L 51 
Y7L H19 H19 H 0 1 N N N 23.491 -14.390 -17.817 -0.223 1.835  2.299  H19 Y7L 52 
Y7L H20 H20 H 0 1 N N N 24.289 -15.179 -16.414 -0.501 3.484  1.688  H20 Y7L 53 
Y7L H21 H21 H 0 1 N N N 24.694 -8.481  -24.809 -9.157 -3.811 -1.512 H21 Y7L 54 
Y7L H22 H22 H 0 1 N N N 23.301 -9.366  -25.334 -8.078 -4.645 -0.530 H22 Y7L 55 
Y7L H23 H23 H 0 1 N N N 28.007 -9.106  -16.262 4.258  -0.452 0.013  H23 Y7L 56 
Y7L H24 H24 H 0 1 N N N 29.567 -8.231  -9.872  8.117  -2.311 4.011  H24 Y7L 57 
Y7L H25 H25 H 0 1 N N N 27.045 -4.720  -16.545 6.681  -2.058 -3.953 H25 Y7L 58 
# 
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 
Y7L N11 C2  SING N N 1  
Y7L N3  C2  SING N N 2  
Y7L N3  C4  SING N N 3  
Y7L C2  N1  DOUB N N 4  
Y7L O10 C4  DOUB N N 5  
Y7L C4  C8  SING N N 6  
Y7L N1  C9  SING N N 7  
Y7L C8  C9  DOUB Y N 8  
Y7L C8  N7  SING Y N 9  
Y7L C9  C5  SING Y N 10 
Y7L N7  C29 SING N N 11 
Y7L N7  C6  SING Y N 12 
Y7L C5  C6  DOUB Y N 13 
Y7L C29 C30 SING N N 14 
Y7L C30 C31 SING N N 15 
Y7L C31 C32 SING N N 16 
Y7L C32 C33 SING N N 17 
Y7L C15 C14 SING Y N 18 
Y7L C15 C16 DOUB Y N 19 
Y7L C33 C16 SING N N 20 
Y7L O28 C26 DOUB N N 21 
Y7L C14 C13 DOUB Y N 22 
Y7L C16 S12 SING Y N 23 
Y7L C13 S12 SING Y N 24 
Y7L C13 C17 SING N N 25 
Y7L C26 O27 SING N N 26 
Y7L C26 C20 SING N N 27 
Y7L N19 C17 SING N N 28 
Y7L N19 C20 SING N N 29 
Y7L C17 O18 DOUB N N 30 
Y7L C20 C21 SING N N 31 
Y7L C21 C22 SING N N 32 
Y7L C22 C23 SING N N 33 
Y7L O25 C23 DOUB N N 34 
Y7L C23 O24 SING N N 35 
Y7L C5  H1  SING N N 36 
Y7L C6  H2  SING N N 37 
Y7L N3  H3  SING N N 38 
Y7L C14 H4  SING N N 39 
Y7L C15 H5  SING N N 40 
Y7L C20 H6  SING N N 41 
Y7L C21 H7  SING N N 42 
Y7L C21 H8  SING N N 43 
Y7L C22 H9  SING N N 44 
Y7L C22 H10 SING N N 45 
Y7L C29 H11 SING N N 46 
Y7L C29 H12 SING N N 47 
Y7L C30 H13 SING N N 48 
Y7L C30 H14 SING N N 49 
Y7L C31 H15 SING N N 50 
Y7L C31 H16 SING N N 51 
Y7L C32 H17 SING N N 52 
Y7L C32 H18 SING N N 53 
Y7L C33 H19 SING N N 54 
Y7L C33 H20 SING N N 55 
Y7L N11 H21 SING N N 56 
Y7L N11 H22 SING N N 57 
Y7L N19 H23 SING N N 58 
Y7L O24 H24 SING N N 59 
Y7L O27 H25 SING N N 60 
# 
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 
Y7L SMILES           ACDLabs              12.01 "O=C(O)C(CCC(=O)O)NC(=O)c1ccc(CCCCCn2ccc3N=C(N)NC(=O)c32)s1"                                                                                                                                                 
Y7L InChI            InChI                1.06  "InChI=1S/C21H25N5O6S/c22-21-24-13-9-11-26(17(13)19(30)25-21)10-3-1-2-4-12-5-7-15(33-12)18(29)23-14(20(31)32)6-8-16(27)28/h5,7,9,11,14H,1-4,6,8,10H2,(H,23,29)(H,27,28)(H,31,32)(H3,22,24,25,30)/t14-/m0/s1" 
Y7L InChIKey         InChI                1.06  RQAHNHUMMCUWMX-AWEZNQCLSA-N                                                                                                                                                                                  
Y7L SMILES_CANONICAL CACTVS               3.385 "NC1=Nc2ccn(CCCCCc3sc(cc3)C(=O)N[C@@H](CCC(O)=O)C(O)=O)c2C(=O)N1"                                                                                                                                            
Y7L SMILES           CACTVS               3.385 "NC1=Nc2ccn(CCCCCc3sc(cc3)C(=O)N[CH](CCC(O)=O)C(O)=O)c2C(=O)N1"                                                                                                                                              
Y7L SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1cc(sc1CCCCCn2ccc3c2C(=O)NC(=N3)N)C(=O)N[C@@H](CCC(=O)O)C(=O)O"                                                                                                                                            
Y7L SMILES           "OpenEye OEToolkits" 2.0.7 "c1cc(sc1CCCCCn2ccc3c2C(=O)NC(=N3)N)C(=O)NC(CCC(=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 
Y7L "SYSTEMATIC NAME" ACDLabs              12.01 "N-{5-[5-(2-amino-4-oxo-3,4-dihydro-5H-pyrrolo[3,2-d]pyrimidin-5-yl)pentyl]thiophene-2-carbonyl}-L-glutamic acid"                    
Y7L "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(2~{S})-2-[[5-[5-(2-azanyl-4-oxidanylidene-3~{H}-pyrrolo[3,2-d]pyrimidin-5-yl)pentyl]thiophen-2-yl]carbonylamino]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 
Y7L "Create component" 2023-01-10 RCSB 
Y7L "Initial release"  2023-09-06 RCSB 
# 
