data_9D7B # _model_server_result.job_id BZw-eRYDcSrfNBYbQVtCIA _model_server_result.datetime_utc '2024-12-22 08:03:50' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 9d7b # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":301}' # _entry.id 9D7B # _exptl.entry_id 9D7B _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 401.478 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(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' _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 91.2 _cell.angle_gamma 90 _cell.entry_id 9D7B _cell.length_a 37.012 _cell.length_b 65.391 _cell.length_c 192.333 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9D7B _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 PISA monomeric 1 author_and_software_defined_assembly 3 PISA monomeric 1 author_and_software_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,E,J 1 1 B,F,G,K 2 1 C,H,L 3 1 D,I,M 4 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 E N N ? 2 G N N ? 2 H N N ? 2 I N N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order covale ? covale1 A OG SER 83 A SER 83 1_555 E C7 Y33 . A Y33 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.424 ? covale ? covale2 B OG SER 83 B SER 83 1_555 G C7 Y33 . B Y33 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.426 ? covale ? covale3 C OG SER 83 C SER 83 1_555 H C7 Y33 . C Y33 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.426 ? covale ? covale4 D OG SER 83 D SER 83 1_555 I C7 Y33 . D Y33 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? # _chem_comp.formula 'C17 H27 N3 O6 S' _chem_comp.formula_weight 401.478 _chem_comp.id Y33 _chem_comp.mon_nstd_flag . _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_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag O31 C31 Y33 doub 382 n n C31 O32 Y33 sing 383 n n C31 C3 Y33 sing 384 n n C7 O7 Y33 doub 385 n n C7 C6 Y33 sing 386 n n N4 C3 Y33 sing 387 n n N4 C5 Y33 sing 388 n n C3 C2 Y33 doub 389 n n C26 C5 Y33 sing 390 n n C5 C6 Y33 sing 391 n n C5 C1 Y33 sing 392 n n C6 C61 Y33 sing 393 n n C62 C61 Y33 sing 394 n n C61 O62 Y33 sing 395 n n C2 C1 Y33 sing 396 n n C2 S21 Y33 sing 397 n n N3A C2A Y33 sing 398 n n N3A C5A Y33 sing 399 n n O6A C6A Y33 doub 400 n n C2A C1A Y33 sing 401 n n S21 C1A Y33 sing 402 n n C6A C5A Y33 sing 403 n n C6A N7A Y33 sing 404 n n C5A C4A Y33 sing 405 n n C1A C4A Y33 sing 406 n n C8A N7A Y33 sing 407 n n N7A C9A Y33 sing 408 n n C1 H1 Y33 sing 409 n n C1 H2 Y33 sing 410 n n N4 H5 Y33 sing 411 n n C6 H7 Y33 sing 412 n n C26 H9 Y33 sing 413 n n C26 H10 Y33 sing 414 n n C26 H11 Y33 sing 415 n n C61 H12 Y33 sing 416 n n C62 H13 Y33 sing 417 n n C62 H14 Y33 sing 418 n n C62 H15 Y33 sing 419 n n O32 H16 Y33 sing 420 n n O62 H17 Y33 sing 421 n n C1A H18 Y33 sing 422 n n C2A H19 Y33 sing 423 n n C2A H20 Y33 sing 424 n n C4A H21 Y33 sing 425 n n C4A H22 Y33 sing 426 n n C5A H23 Y33 sing 427 n n C8A H24 Y33 sing 428 n n C8A H25 Y33 sing 429 n n C8A H26 Y33 sing 430 n n C9A H27 Y33 sing 431 n n C9A H28 Y33 sing 432 n n C9A H29 Y33 sing 433 n n N3A H30 Y33 sing 434 n n C7 O7A Y33 sing 435 n n O7A H8 Y33 sing 436 n n # _atom_sites.entry_id 9D7B _atom_sites.fract_transf_matrix[1][1] 0.027018 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000564 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015293 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.0052 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code E 2 Y33 A 1 301 301 Y33 Y33 . F 3 ACT B 1 301 302 ACT ACT . G 2 Y33 B 1 302 301 Y33 Y33 . H 2 Y33 C 1 301 301 Y33 Y33 . I 2 Y33 D 1 301 301 Y33 Y33 . J 4 HOH A 1 401 117 HOH HOH . J 4 HOH A 2 402 87 HOH HOH . J 4 HOH A 3 403 137 HOH HOH . J 4 HOH A 4 404 138 HOH HOH . J 4 HOH A 5 405 125 HOH HOH . J 4 HOH A 6 406 43 HOH HOH . J 4 HOH A 7 407 11 HOH HOH . J 4 HOH A 8 408 22 HOH HOH . J 4 HOH A 9 409 3 HOH HOH . J 4 HOH A 10 410 56 HOH HOH . J 4 HOH A 11 411 170 HOH HOH . J 4 HOH A 12 412 144 HOH HOH . J 4 HOH A 13 413 78 HOH HOH . J 4 HOH A 14 414 13 HOH HOH . J 4 HOH A 15 415 102 HOH HOH . J 4 HOH A 16 416 15 HOH HOH . J 4 HOH A 17 417 19 HOH HOH . J 4 HOH A 18 418 133 HOH HOH . J 4 HOH A 19 419 57 HOH HOH . J 4 HOH A 20 420 121 HOH HOH . J 4 HOH A 21 421 18 HOH HOH . J 4 HOH A 22 422 49 HOH HOH . J 4 HOH A 23 423 34 HOH HOH . J 4 HOH A 24 424 146 HOH HOH . J 4 HOH A 25 425 106 HOH HOH . J 4 HOH A 26 426 47 HOH HOH . J 4 HOH A 27 427 12 HOH HOH . J 4 HOH A 28 428 83 HOH HOH . J 4 HOH A 29 429 58 HOH HOH . J 4 HOH A 30 430 162 HOH HOH . J 4 HOH A 31 431 61 HOH HOH . J 4 HOH A 32 432 164 HOH HOH . J 4 HOH A 33 433 113 HOH HOH . J 4 HOH A 34 434 163 HOH HOH . K 4 HOH B 1 401 77 HOH HOH . K 4 HOH B 2 402 126 HOH HOH . K 4 HOH B 3 403 8 HOH HOH . K 4 HOH B 4 404 50 HOH HOH . K 4 HOH B 5 405 17 HOH HOH . K 4 HOH B 6 406 105 HOH HOH . K 4 HOH B 7 407 40 HOH HOH . K 4 HOH B 8 408 95 HOH HOH . K 4 HOH B 9 409 51 HOH HOH . K 4 HOH B 10 410 153 HOH HOH . K 4 HOH B 11 411 123 HOH HOH . K 4 HOH B 12 412 6 HOH HOH . K 4 HOH B 13 413 94 HOH HOH . K 4 HOH B 14 414 76 HOH HOH . K 4 HOH B 15 415 21 HOH HOH . K 4 HOH B 16 416 23 HOH HOH . K 4 HOH B 17 417 55 HOH HOH . K 4 HOH B 18 418 112 HOH HOH . K 4 HOH B 19 419 35 HOH HOH . K 4 HOH B 20 420 52 HOH HOH . K 4 HOH B 21 421 155 HOH HOH . K 4 HOH B 22 422 59 HOH HOH . K 4 HOH B 23 423 38 HOH HOH . K 4 HOH B 24 424 62 HOH HOH . K 4 HOH B 25 425 152 HOH HOH . K 4 HOH B 26 426 46 HOH HOH . K 4 HOH B 27 427 156 HOH HOH . K 4 HOH B 28 428 119 HOH HOH . K 4 HOH B 29 429 33 HOH HOH . K 4 HOH B 30 430 86 HOH HOH . K 4 HOH B 31 431 70 HOH HOH . K 4 HOH B 32 432 149 HOH HOH . K 4 HOH B 33 433 100 HOH HOH . K 4 HOH B 34 434 9 HOH HOH . K 4 HOH B 35 435 26 HOH HOH . K 4 HOH B 36 436 165 HOH HOH . K 4 HOH B 37 437 141 HOH HOH . K 4 HOH B 38 438 1 HOH HOH . K 4 HOH B 39 439 48 HOH HOH . K 4 HOH B 40 440 53 HOH HOH . K 4 HOH B 41 441 132 HOH HOH . K 4 HOH B 42 442 96 HOH HOH . K 4 HOH B 43 443 74 HOH HOH . L 4 HOH C 1 401 169 HOH HOH . L 4 HOH C 2 402 64 HOH HOH . L 4 HOH C 3 403 73 HOH HOH . L 4 HOH C 4 404 68 HOH HOH . L 4 HOH C 5 405 171 HOH HOH . L 4 HOH C 6 406 111 HOH HOH . L 4 HOH C 7 407 139 HOH HOH . L 4 HOH C 8 408 44 HOH HOH . L 4 HOH C 9 409 143 HOH HOH . L 4 HOH C 10 410 29 HOH HOH . L 4 HOH C 11 411 7 HOH HOH . L 4 HOH C 12 412 82 HOH HOH . L 4 HOH C 13 413 14 HOH HOH . L 4 HOH C 14 414 31 HOH HOH . L 4 HOH C 15 415 79 HOH HOH . L 4 HOH C 16 416 42 HOH HOH . L 4 HOH C 17 417 39 HOH HOH . L 4 HOH C 18 418 140 HOH HOH . L 4 HOH C 19 419 93 HOH HOH . L 4 HOH C 20 420 142 HOH HOH . L 4 HOH C 21 421 161 HOH HOH . L 4 HOH C 22 422 88 HOH HOH . L 4 HOH C 23 423 91 HOH HOH . L 4 HOH C 24 424 122 HOH HOH . L 4 HOH C 25 425 109 HOH HOH . L 4 HOH C 26 426 130 HOH HOH . L 4 HOH C 27 427 65 HOH HOH . L 4 HOH C 28 428 148 HOH HOH . L 4 HOH C 29 429 2 HOH HOH . L 4 HOH C 30 430 28 HOH HOH . L 4 HOH C 31 431 90 HOH HOH . L 4 HOH C 32 432 60 HOH HOH . L 4 HOH C 33 433 27 HOH HOH . L 4 HOH C 34 434 71 HOH HOH . L 4 HOH C 35 435 147 HOH HOH . L 4 HOH C 36 436 5 HOH HOH . L 4 HOH C 37 437 160 HOH HOH . L 4 HOH C 38 438 20 HOH HOH . L 4 HOH C 39 439 103 HOH HOH . L 4 HOH C 40 440 131 HOH HOH . L 4 HOH C 41 441 89 HOH HOH . L 4 HOH C 42 442 63 HOH HOH . L 4 HOH C 43 443 92 HOH HOH . L 4 HOH C 44 444 30 HOH HOH . L 4 HOH C 45 445 72 HOH HOH . M 4 HOH D 1 401 16 HOH HOH . M 4 HOH D 2 402 69 HOH HOH . M 4 HOH D 3 403 172 HOH HOH . M 4 HOH D 4 404 158 HOH HOH . M 4 HOH D 5 405 4 HOH HOH . M 4 HOH D 6 406 54 HOH HOH . M 4 HOH D 7 407 32 HOH HOH . M 4 HOH D 8 408 37 HOH HOH . M 4 HOH D 9 409 128 HOH HOH . M 4 HOH D 10 410 45 HOH HOH . M 4 HOH D 11 411 24 HOH HOH . M 4 HOH D 12 412 124 HOH HOH . M 4 HOH D 13 413 135 HOH HOH . M 4 HOH D 14 414 85 HOH HOH . M 4 HOH D 15 415 166 HOH HOH . M 4 HOH D 16 416 116 HOH HOH . M 4 HOH D 17 417 10 HOH HOH . M 4 HOH D 18 418 98 HOH HOH . M 4 HOH D 19 419 127 HOH HOH . M 4 HOH D 20 420 41 HOH HOH . M 4 HOH D 21 421 108 HOH HOH . M 4 HOH D 22 422 115 HOH HOH . M 4 HOH D 23 423 101 HOH HOH . M 4 HOH D 24 424 110 HOH HOH . M 4 HOH D 25 425 97 HOH HOH . M 4 HOH D 26 426 66 HOH HOH . M 4 HOH D 27 427 134 HOH HOH . M 4 HOH D 28 428 168 HOH HOH . M 4 HOH D 29 429 75 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C C1 Y33 . . . E 2 -2.101 -12.34 59.258 0.79 35.47 ? C1 Y33 301 A 1 HETATM 2 C C2 Y33 . . . E 2 -2.138 -12.85 60.674 0.79 39.77 ? C2 Y33 301 A 1 HETATM 3 C C3 Y33 . . . E 2 -2.55 -11.882 61.486 0.79 35.4 ? C3 Y33 301 A 1 HETATM 4 N N4 Y33 . . . E 2 -2.786 -10.757 60.819 0.79 35.55 ? N4 Y33 301 A 1 HETATM 5 C C5 Y33 . . . E 2 -2.73 -10.938 59.374 0.79 36.89 ? C5 Y33 301 A 1 HETATM 6 C C6 Y33 . . . E 2 -1.825 -9.83 58.815 0.79 33.83 ? C6 Y33 301 A 1 HETATM 7 C C7 Y33 . . . E 2 -2.364 -8.495 59.278 0.79 33.47 ? C7 Y33 301 A 1 HETATM 8 C C26 Y33 . . . E 2 -4.178 -10.901 58.861 0.79 36.76 ? C26 Y33 301 A 1 HETATM 9 C C31 Y33 . . . E 2 -2.733 -11.951 62.92 0.79 33.85 ? C31 Y33 301 A 1 HETATM 10 C C61 Y33 . . . E 2 -1.485 -9.711 57.309 0.79 35.69 ? C61 Y33 301 A 1 HETATM 11 C C62 Y33 . . . E 2 -1.859 -10.844 56.36 0.79 33.56 ? C62 Y33 301 A 1 HETATM 12 O O31 Y33 . . . E 2 -2.954 -10.857 63.464 0.79 32.95 ? O31 Y33 301 A 1 HETATM 13 O O32 Y33 . . . E 2 -2.663 -13.026 63.563 0.79 32.79 ? O32 Y33 301 A 1 HETATM 14 O O62 Y33 . . . E 2 -1.953 -8.451 56.801 0.79 35.53 ? O62 Y33 301 A 1 HETATM 15 O O7 Y33 . . . E 2 -1.649 -7.75 59.94 0.79 30.71 ? O7 Y33 301 A 1 HETATM 16 C C1A Y33 . . . E 2 -1.168 -15.436 59.812 0.79 49.76 ? C1A Y33 301 A 1 HETATM 17 C C2A Y33 . . . E 2 -2.257 -15.651 58.77 0.79 55.17 ? C2A Y33 301 A 1 HETATM 18 C C4A Y33 . . . E 2 -0.889 -16.836 60.353 0.79 54.75 ? C4A Y33 301 A 1 HETATM 19 C C5A Y33 . . . E 2 -1.949 -17.767 59.763 0.79 60.55 ? C5A Y33 301 A 1 HETATM 20 C C6A Y33 . . . E 2 -2.566 -18.688 60.791 0.79 60.91 ? C6A Y33 301 A 1 HETATM 21 C C8A Y33 . . . E 2 -2.259 -20.693 62.148 0.79 58.26 ? C8A Y33 301 A 1 HETATM 22 C C9A Y33 . . . E 2 -1.08 -20.48 59.994 0.79 60.04 ? C9A Y33 301 A 1 HETATM 23 N N3A Y33 . . . E 2 -2.966 -16.871 59.182 0.79 60.76 ? N3A Y33 301 A 1 HETATM 24 N N7A Y33 . . . E 2 -1.997 -19.886 60.963 0.79 60.51 ? N7A Y33 301 A 1 HETATM 25 O O6A Y33 . . . E 2 -3.555 -18.349 61.428 0.79 60.12 ? O6A Y33 301 A 1 HETATM 26 S S21 Y33 . . . E 2 -1.717 -14.404 61.148 0.79 45.2 ? S21 Y33 301 A 1 # _model_server_stats.io_time_ms 81 _model_server_stats.parse_time_ms 69 _model_server_stats.create_model_time_ms 370 _model_server_stats.query_time_ms 2116 _model_server_stats.encode_time_ms 17 _model_server_stats.element_count 26 #