data_Y37
# 
_chem_comp.id                                    Y37 
_chem_comp.name                                  "(1R,4R)-4-fluoro-3-[({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methyl)amino]cyclopent-2-ene-1-carboxylic acid" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C14 H18 F N2 O7 P" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2021-02-01 
_chem_comp.pdbx_modified_date                    2024-09-27 
_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                        376.274 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     Y37 
_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        7LK1 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  RCSB 
_chem_comp.pdbx_pcm                              Y 
# 
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 
Y37 C20 C1  C 0 1 N N N N N N -4.568 -20.547 -32.899 4.545  -1.002 -1.322 C20 Y37 1  
Y37 C21 C2  C 0 1 N N R N N N -5.073 -21.055 -31.511 4.263  -1.315 0.166  C21 Y37 2  
Y37 C19 C3  C 0 1 N N N N N N -3.938 -21.027 -30.517 3.007  -0.539 0.491  C19 Y37 3  
Y37 C18 C4  C 0 1 N N R N N N -3.097 -20.108 -32.648 3.134  -0.636 -1.835 C18 Y37 4  
Y37 C17 C5  C 0 1 N N N N N N -2.758 -20.490 -31.231 2.387  -0.167 -0.608 C17 Y37 5  
Y37 C01 C6  C 0 1 N N N N N N -1.667 -19.151 -29.374 0.563  0.965  0.618  C01 Y37 6  
Y37 C02 C7  C 0 1 Y N N N N N -1.057 -19.962 -28.243 -0.695 1.737  0.312  C02 Y37 7  
Y37 C03 C8  C 0 1 Y N N N N N 0.321  -19.987 -28.066 -1.912 1.086  0.176  C03 Y37 8  
Y37 C04 C9  C 0 1 N N N N N N 1.289  -19.235 -28.986 -1.997 -0.410 0.333  C04 Y37 9  
Y37 C05 C10 C 0 1 Y N N N N N 0.811  -20.735 -27.015 -3.045 1.826  -0.103 C05 Y37 10 
Y37 C07 C11 C 0 1 Y N N N N N -1.301 -21.396 -26.367 -1.845 3.793  -0.115 C07 Y37 11 
Y37 C08 C12 C 0 1 N N N N N N -2.197 -22.186 -25.413 -1.828 5.291  -0.283 C08 Y37 12 
Y37 C09 C13 C 0 1 Y N N N N N -1.885 -20.672 -27.387 -0.665 3.119  0.165  C09 Y37 13 
Y37 C33 C14 C 0 1 N N N N N N -6.033 -22.229 -31.450 5.407  -0.846 1.027  C33 Y37 14 
Y37 F22 F1  F 0 1 N N N N N N -2.628 -18.933 -33.160 2.509  -1.761 -2.385 F22 Y37 15 
Y37 N06 N1  N 0 1 Y N N N N N 0.009  -21.411 -26.215 -2.981 3.136  -0.242 N06 Y37 16 
Y37 N11 N2  N 0 1 N N N N N N -1.590 -19.971 -30.563 1.204  0.561  -0.636 N11 Y37 17 
Y37 O10 O1  O 0 1 N N N N N N -3.276 -20.664 -27.545 0.503  3.801  0.295  O10 Y37 18 
Y37 O13 O2  O 0 1 N N N N N N 2.952  -17.316 -30.599 -3.125 -3.212 -0.947 O13 Y37 19 
Y37 O14 O3  O 0 1 N N N N N N 1.039  -17.859 -28.973 -3.350 -0.831 0.147  O14 Y37 20 
Y37 O15 O4  O 0 1 N N N N N N 1.357  -15.524 -29.980 -5.412 -2.463 0.113  O15 Y37 21 
Y37 O16 O5  O 0 1 N N N N N N 0.637  -17.369 -31.468 -3.389 -2.931 1.548  O16 Y37 22 
Y37 O34 O6  O 0 1 N N N N N N -6.375 -22.685 -30.328 5.362  -1.022 2.357  O34 Y37 23 
Y37 O35 O7  O 0 1 N N N N N N -6.471 -22.721 -32.523 6.365  -0.311 0.521  O35 Y37 24 
Y37 P12 P1  P 0 1 N N N N N N 1.507  -16.992 -30.293 -3.810 -2.372 0.244  P12 Y37 25 
Y37 H1  H1  H 0 1 N N N N N N -5.173 -19.696 -33.244 5.228  -0.157 -1.421 H1  Y37 26 
Y37 H2  H2  H 0 1 N N N N N N -4.610 -21.353 -33.646 4.934  -1.879 -1.839 H2  Y37 27 
Y37 H3  H3  H 0 1 N N N N N N -5.703 -20.218 -31.176 4.098  -2.383 0.304  H3  Y37 28 
Y37 H4  H4  H 0 1 N N N N N N -3.979 -21.339 -29.484 2.665  -0.321 1.492  H4  Y37 29 
Y37 H5  H5  H 0 1 N N N N N N -2.544 -20.866 -33.222 3.193  0.164  -2.572 H5  Y37 30 
Y37 H6  H6  H 0 1 N N N N N N -1.102 -18.219 -29.519 1.245  1.595  1.188  H6  Y37 31 
Y37 H7  H7  H 0 1 N N N N N N -2.716 -18.912 -29.146 0.313  0.079  1.201  H7  Y37 32 
Y37 H8  H8  H 0 1 N N N N N N 1.171  -19.611 -30.013 -1.362 -0.890 -0.412 H8  Y37 33 
Y37 H9  H9  H 0 1 N N N N N N 2.319  -19.415 -28.645 -1.663 -0.691 1.331  H9  Y37 34 
Y37 H10 H10 H 0 1 N N N N N N 1.877  -20.768 -26.843 -3.995 1.325  -0.211 H10 Y37 35 
Y37 H11 H11 H 0 1 N N N N N N -1.574 -22.702 -24.668 -2.001 5.766  0.683  H11 Y37 36 
Y37 H12 H12 H 0 1 N N N N N N -2.885 -21.497 -24.902 -0.858 5.601  -0.672 H12 Y37 37 
Y37 H13 H13 H 0 1 N N N N N N -2.776 -22.927 -25.983 -2.611 5.588  -0.980 H13 Y37 38 
Y37 H14 H14 H 0 1 N N N N N N -1.037 -20.767 -30.315 0.802  0.801  -1.486 H14 Y37 39 
Y37 H15 H15 H 0 1 N N N N N N -3.675 -21.202 -26.872 0.993  3.903  -0.533 H15 Y37 40 
Y37 H16 H16 H 0 1 N N N N N N 3.015  -17.691 -31.470 -3.358 -2.900 -1.832 H16 Y37 41 
Y37 H17 H17 H 0 1 N N N N N N 0.742  -15.131 -30.589 -5.760 -3.363 0.162  H17 Y37 42 
Y37 H18 H18 H 0 1 N N N N N N -6.976 -23.410 -30.450 6.119  -0.705 2.868  H18 Y37 43 
# 
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 
Y37 F22 C18 SING N N 1  
Y37 C20 C18 SING N N 2  
Y37 C20 C21 SING N N 3  
Y37 C18 C17 SING N N 4  
Y37 O35 C33 DOUB N N 5  
Y37 C21 C33 SING N N 6  
Y37 C21 C19 SING N N 7  
Y37 O16 P12 DOUB N N 8  
Y37 C33 O34 SING N N 9  
Y37 C17 N11 SING N N 10 
Y37 C17 C19 DOUB N N 11 
Y37 O13 P12 SING N N 12 
Y37 N11 C01 SING N N 13 
Y37 P12 O15 SING N N 14 
Y37 P12 O14 SING N N 15 
Y37 C01 C02 SING N N 16 
Y37 C04 O14 SING N N 17 
Y37 C04 C03 SING N N 18 
Y37 C02 C03 SING Y N 19 
Y37 C02 C09 DOUB Y N 20 
Y37 C03 C05 DOUB Y N 21 
Y37 O10 C09 SING N N 22 
Y37 C09 C07 SING Y N 23 
Y37 C05 N06 SING Y N 24 
Y37 C07 N06 DOUB Y N 25 
Y37 C07 C08 SING N N 26 
Y37 C20 H1  SING N N 27 
Y37 C20 H2  SING N N 28 
Y37 C21 H3  SING N N 29 
Y37 C19 H4  SING N N 30 
Y37 C18 H5  SING N N 31 
Y37 C01 H6  SING N N 32 
Y37 C01 H7  SING N N 33 
Y37 C04 H8  SING N N 34 
Y37 C04 H9  SING N N 35 
Y37 C05 H10 SING N N 36 
Y37 C08 H11 SING N N 37 
Y37 C08 H12 SING N N 38 
Y37 C08 H13 SING N N 39 
Y37 N11 H14 SING N N 40 
Y37 O10 H15 SING N N 41 
Y37 O13 H16 SING N N 42 
Y37 O15 H17 SING N N 43 
Y37 O34 H18 SING N N 44 
# 
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 
Y37 SMILES           ACDLabs              12.01 "C1C(C(=CC1C(O)=O)NCc2c(cnc(C)c2O)COP(O)(O)=O)F"                                                                                                                  
Y37 InChI            InChI                1.03  "InChI=1S/C14H18FN2O7P/c1-7-13(18)10(9(4-16-7)6-24-25(21,22)23)5-17-12-3-8(14(19)20)2-11(12)15/h3-4,8,11,17-18H,2,5-6H2,1H3,(H,19,20)(H2,21,22,23)/t8-,11-/m1/s1" 
Y37 InChIKey         InChI                1.03  YUSFTNIOKSVGAN-LDYMZIIASA-N                                                                                                                                       
Y37 SMILES_CANONICAL CACTVS               3.385 "Cc1ncc(CO[P](O)(O)=O)c(CNC2=C[C@@H](C[C@H]2F)C(O)=O)c1O"                                                                                                         
Y37 SMILES           CACTVS               3.385 "Cc1ncc(CO[P](O)(O)=O)c(CNC2=C[CH](C[CH]2F)C(O)=O)c1O"                                                                                                            
Y37 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "Cc1c(c(c(cn1)COP(=O)(O)O)CNC2=C[C@@H](C[C@H]2F)C(=O)O)O"                                                                                                         
Y37 SMILES           "OpenEye OEToolkits" 2.0.7 "Cc1c(c(c(cn1)COP(=O)(O)O)CNC2=CC(CC2F)C(=O)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 
Y37 "SYSTEMATIC NAME" ACDLabs              12.01 "(1R,4R)-4-fluoro-3-[({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methyl)amino]cyclopent-2-ene-1-carboxylic acid"       
Y37 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(1~{R},4~{R})-4-fluoranyl-3-[[2-methyl-3-oxidanyl-5-(phosphonooxymethyl)pyridin-4-yl]methylamino]cyclopent-2-ene-1-carboxylic 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 
Y37 "Create component" 2021-02-01 RCSB 
Y37 "Initial release"  2022-02-16 RCSB 
Y37 "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            Y37 
_pdbx_chem_comp_pcm.modified_residue_id                LYS 
_pdbx_chem_comp_pcm.type                               None 
_pdbx_chem_comp_pcm.category                           "Covalent chemical modification" 
_pdbx_chem_comp_pcm.position                           "Amino-acid side chain" 
_pdbx_chem_comp_pcm.polypeptide_position               "Any position" 
_pdbx_chem_comp_pcm.comp_id_linking_atom               C01 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom   NZ 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession     ? 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      ? 
# 
