data_Y33
# 
_chem_comp.id                                    Y33 
_chem_comp.name                                  "(5R)-3-{[(3S,5S)-5-(dimethylcarbamoyl)pyrrolidin-3-yl]sulfanyl}-5-[(2S,3R)-3-hydroxy-1-oxobutan-2-yl]-5-methyl-4,5-dihydro-1H-pyrrole-2-carboxylic acid" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C17 H27 N3 O6 S" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-01-03 
_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                        401.478 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     Y33 
_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        8FAJ 
_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 
Y33 C1  C1  C 0 1 N N N N N N 3.265  -15.980 3.654  -1.651 0.763  -0.142 C1  Y33 1  
Y33 C2  C2  C 0 1 N N N N N N 4.671  -15.995 3.044  -0.849 -0.462 0.234  C2  Y33 2  
Y33 C3  C3  C 0 1 N N N N N N 4.500  -16.818 1.797  -1.475 -1.555 -0.240 C3  Y33 3  
Y33 N4  N1  N 0 1 N N N N N N 3.283  -16.855 1.449  -2.661 -1.246 -0.927 N4  Y33 4  
Y33 C5  C4  C 0 1 N N R N N N 2.422  -16.133 2.382  -2.859 0.212  -0.920 C5  Y33 5  
Y33 C6  C5  C 0 1 N N S N N N 1.177  -16.980 2.612  -4.163 0.570  -0.204 C6  Y33 6  
Y33 C7  C6  C 0 1 N N N N N N 0.944  -17.850 1.394  -4.416 2.050  -0.329 C7  Y33 7  
Y33 C26 C7  C 0 1 N N N N N N 2.085  -14.742 1.849  -2.872 0.756  -2.351 C26 Y33 8  
Y33 C31 C8  C 0 1 N N N N N N 5.522  -17.375 0.918  -0.992 -2.873 -0.065 C31 Y33 9  
Y33 C61 C9  C 0 1 N N R N N N -0.061 -16.150 2.908  -4.051 0.195  1.276  C61 Y33 10 
Y33 C62 C10 C 0 1 N N N N N N -1.285 -17.060 2.906  -5.283 0.705  2.026  C62 Y33 11 
Y33 O31 O1  O 0 1 N N N N N N 5.302  -17.322 -0.324 -0.010 -3.074 0.625  O31 Y33 12 
Y33 O32 O2  O 0 1 N N N N N N 6.561  -17.845 1.406  -1.619 -3.907 -0.665 O32 Y33 13 
Y33 O62 O3  O 0 1 N N N N N N 0.126  -15.525 4.182  -3.971 -1.226 1.402  O62 Y33 14 
Y33 O7  O4  O 0 1 N N N N N N 1.186  -19.055 1.442  -3.487 2.823  -0.337 O7  Y33 15 
Y33 C1A C11 C 0 1 N N S N N N 6.358  -14.855 4.781  1.720  0.449  -0.009 C1A Y33 16 
Y33 C2A C12 C 0 1 N N N N N N 6.613  -13.963 3.582  2.134  -0.444 -1.205 C2A Y33 17 
Y33 C4A C13 C 0 1 N N N N N N 7.685  -14.860 5.504  3.095  0.768  0.634  C4A Y33 18 
Y33 C5A C14 C 0 1 N N S N N N 8.724  -14.461 4.453  4.032  0.884  -0.587 C5A Y33 19 
Y33 C6A C15 C 0 1 N N N N N N 9.790  -15.498 4.258  5.375  0.282  -0.262 C6A Y33 20 
Y33 C8A C16 C 0 1 N N N N N N 11.631 -16.811 5.104  7.582  0.404  0.764  C8A Y33 21 
Y33 C9A C17 C 0 1 N N N N N N 10.852 -14.939 6.439  5.951  2.343  0.903  C9A Y33 22 
Y33 N3A N2  N 0 1 N N N N N N 7.988  -14.302 3.176  3.401  0.141  -1.693 N3A Y33 23 
Y33 N7A N3  N 0 1 N N N N N N 10.690 -15.718 5.222  6.276  0.989  0.448  N7A Y33 24 
Y33 O6A O5  O 0 1 N N N N N N 9.834  -16.130 3.209  5.644  -0.839 -0.638 O6A Y33 25 
Y33 S21 S1  S 0 1 N N N N N N 5.991  -16.448 4.136  0.660  -0.459 1.143  S21 Y33 26 
Y33 H1  H1  H 0 1 N N N N N N 3.055  -15.033 4.172  -1.983 1.289  0.753  H1  Y33 27 
Y33 H2  H2  H 0 1 N N N N N N 3.112  -16.819 4.349  -1.060 1.425  -0.775 H2  Y33 28 
Y33 H5  H5  H 0 1 N N N N N N 3.194  -16.442 0.543  -3.254 -1.891 -1.342 H5  Y33 29 
Y33 H7  H7  H 0 1 N N N N N N 1.364  -17.637 3.474  -4.989 0.020  -0.656 H7  Y33 30 
Y33 H8  H8  H 0 1 N Y N N N N 0.628  -17.843 -0.538 -5.785 3.467  -0.510 H8  Y33 31 
Y33 H9  H9  H 0 1 N N N N N N 1.437  -14.220 2.569  -3.684 0.289  -2.909 H9  Y33 32 
Y33 H10 H10 H 0 1 N N N N N N 3.013  -14.169 1.709  -3.021 1.835  -2.328 H10 Y33 33 
Y33 H11 H11 H 0 1 N N N N N N 1.562  -14.835 0.886  -1.922 0.530  -2.834 H11 Y33 34 
Y33 H12 H12 H 0 1 N N N N N N -0.179 -15.389 2.123  -3.155 0.648  1.698  H12 Y33 35 
Y33 H13 H13 H 0 1 N N N N N N -2.185 -16.465 3.120  -6.179 0.251  1.603  H13 Y33 36 
Y33 H14 H14 H 0 1 N N N N N N -1.386 -17.536 1.920  -5.203 0.438  3.079  H14 Y33 37 
Y33 H15 H15 H 0 1 N N N N N N -1.166 -17.835 3.677  -5.344 1.789  1.929  H15 Y33 38 
Y33 H16 H16 H 0 1 N N N N N N 7.133  -18.143 0.708  -1.216 -4.768 -0.487 H16 Y33 39 
Y33 H17 H17 H 0 1 N N N N N N -0.636 -14.998 4.392  -3.144 -1.605 1.073  H17 Y33 40 
Y33 H18 H18 H 0 1 N N N N N N 5.525  -14.506 5.409  1.230  1.359  -0.353 H18 Y33 41 
Y33 H19 H19 H 0 1 N N N N N N 6.537  -12.902 3.860  2.293  -1.471 -0.874 H19 Y33 42 
Y33 H20 H20 H 0 1 N N N N N N 5.901  -14.181 2.773  1.373  -0.411 -1.985 H20 Y33 43 
Y33 H21 H21 H 0 1 N N N N N N 7.904  -15.863 5.900  3.056  1.711  1.180  H21 Y33 44 
Y33 H22 H22 H 0 1 N N N N N N 7.675  -14.134 6.330  3.412  -0.043 1.291  H22 Y33 45 
Y33 H23 H23 H 0 1 N N N N N N 9.185  -13.505 4.742  4.153  1.931  -0.864 H23 Y33 46 
Y33 H24 H24 H 0 1 N N N N N N 12.285 -16.830 5.988  8.289  0.645  -0.029 H24 Y33 47 
Y33 H25 H25 H 0 1 N N N N N N 11.082 -17.762 5.034  7.943  0.811  1.709  H25 Y33 48 
Y33 H26 H26 H 0 1 N N N N N N 12.242 -16.673 4.200  7.484  -0.678 0.848  H26 Y33 49 
Y33 H27 H27 H 0 1 N N N N N N 11.673 -15.360 7.038  5.075  2.308  1.551  H27 Y33 50 
Y33 H28 H28 H 0 1 N N N N N N 11.086 -13.896 6.178  6.796  2.754  1.456  H28 Y33 51 
Y33 H29 H29 H 0 1 N N N N N N 9.920  -14.971 7.022  5.740  2.976  0.041  H29 Y33 52 
Y33 H30 H30 H 0 1 N N N N N N 8.002  -15.153 2.652  4.018  -0.575 -2.047 H30 Y33 53 
Y33 O7A O7A O 0 1 N Y N N N N 0.619  -17.206 0.166  -5.673 2.510  -0.431 O7A Y33 54 
# 
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 
Y33 O31 C31 DOUB N N 1  
Y33 C31 O32 SING N N 2  
Y33 C31 C3  SING N N 3  
Y33 C7  O7  DOUB N N 4  
Y33 C7  C6  SING N N 5  
Y33 N4  C3  SING N N 6  
Y33 N4  C5  SING N N 7  
Y33 C3  C2  DOUB N N 8  
Y33 C26 C5  SING N N 9  
Y33 C5  C6  SING N N 10 
Y33 C5  C1  SING N N 11 
Y33 C6  C61 SING N N 12 
Y33 C62 C61 SING N N 13 
Y33 C61 O62 SING N N 14 
Y33 C2  C1  SING N N 15 
Y33 C2  S21 SING N N 16 
Y33 N3A C2A SING N N 17 
Y33 N3A C5A SING N N 18 
Y33 O6A C6A DOUB N N 19 
Y33 C2A C1A SING N N 20 
Y33 S21 C1A SING N N 21 
Y33 C6A C5A SING N N 22 
Y33 C6A N7A SING N N 23 
Y33 C5A C4A SING N N 24 
Y33 C1A C4A SING N N 25 
Y33 C8A N7A SING N N 26 
Y33 N7A C9A SING N N 27 
Y33 C1  H1  SING N N 28 
Y33 C1  H2  SING N N 29 
Y33 N4  H5  SING N N 30 
Y33 C6  H7  SING N N 31 
Y33 C26 H9  SING N N 32 
Y33 C26 H10 SING N N 33 
Y33 C26 H11 SING N N 34 
Y33 C61 H12 SING N N 35 
Y33 C62 H13 SING N N 36 
Y33 C62 H14 SING N N 37 
Y33 C62 H15 SING N N 38 
Y33 O32 H16 SING N N 39 
Y33 O62 H17 SING N N 40 
Y33 C1A H18 SING N N 41 
Y33 C2A H19 SING N N 42 
Y33 C2A H20 SING N N 43 
Y33 C4A H21 SING N N 44 
Y33 C4A H22 SING N N 45 
Y33 C5A H23 SING N N 46 
Y33 C8A H24 SING N N 47 
Y33 C8A H25 SING N N 48 
Y33 C8A H26 SING N N 49 
Y33 C9A H27 SING N N 50 
Y33 C9A H28 SING N N 51 
Y33 C9A H29 SING N N 52 
Y33 N3A H30 SING N N 53 
Y33 C7  O7A SING N N 54 
Y33 O7A H8  SING N N 55 
# 
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 
Y33 SMILES           ACDLabs              12.01 "CC1(CC(SC2CC(NC2)C(=O)N(C)C)=C(N1)C(=O)O)C(C(O)C)C(=O)O"                                                                                                                       
Y33 InChI            InChI                1.06  "InChI=1S/C17H27N3O6S/c1-8(21)12(15(23)24)17(2)6-11(13(19-17)16(25)26)27-9-5-10(18-7-9)14(22)20(3)4/h8-10,12,18-19,21H,5-7H2,1-4H3,(H,23,24)(H,25,26)/t8-,9+,10+,12+,17-/m1/s1" 
Y33 InChIKey         InChI                1.06  VXMSHTHJORSDKD-YTOYJYLESA-N                                                                                                                                                     
Y33 SMILES_CANONICAL CACTVS               3.385 "C[C@@H](O)[C@@H](C(O)=O)[C@@]1(C)CC(=C(N1)C(O)=O)S[C@@H]2CN[C@@H](C2)C(=O)N(C)C"                                                                                               
Y33 SMILES           CACTVS               3.385 "C[CH](O)[CH](C(O)=O)[C]1(C)CC(=C(N1)C(O)=O)S[CH]2CN[CH](C2)C(=O)N(C)C"                                                                                                         
Y33 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@H]([C@@H](C(=O)O)[C@]1(CC(=C(N1)C(=O)O)S[C@H]2C[C@H](NC2)C(=O)N(C)C)C)O"                                                                                                   
Y33 SMILES           "OpenEye OEToolkits" 2.0.7 "CC(C(C(=O)O)C1(CC(=C(N1)C(=O)O)SC2CC(NC2)C(=O)N(C)C)C)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 
Y33 "SYSTEMATIC NAME" ACDLabs              12.01 "(5R)-5-[(1S,2R)-1-carboxy-2-hydroxypropyl]-3-{[(3S,5S)-5-(dimethylcarbamoyl)pyrrolidin-3-yl]sulfanyl}-5-methyl-4,5-dihydro-1H-pyrrole-2-carboxylic acid"                             
Y33 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(2~{R})-2-[(2~{S},3~{R})-1,3-bis(oxidanyl)-1-oxidanylidene-butan-2-yl]-4-[(3~{S},5~{S})-5-(dimethylcarbamoyl)pyrrolidin-3-yl]sulfanyl-2-methyl-1,3-dihydropyrrole-5-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 
Y33 "Create component" 2023-01-03 RCSB 
Y33 "Initial release"  2023-10-11 RCSB 
Y33 "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            Y33 
_pdbx_chem_comp_pcm.modified_residue_id                SER 
_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               C7 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom   OG 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession     ? 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      ? 
# 
