data_3SW2 # _model_server_result.job_id P90E2X_zTw9-GoH51qoQIA _model_server_result.datetime_utc '2025-02-28 12:56:45' _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 3sw2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1}' # _entry.id 3SW2 # _exptl.entry_id 3SW2 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 569.072 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 6-chloro-N-((3S)-2-oxo-1-(2-oxo-2-((5S)-8-oxo-5,6-dihydro-1H-1,5-methanopyrido[1,2-a][1,5]diazocin-3(2H,4H,8H)-yl)ethyl)piperidin-3-yl)naphthalene-2-sulfonamide _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 3SW2 _cell.length_a 57.018 _cell.length_b 72.515 _cell.length_c 77.956 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3SW2 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 disulf ? disulf1 A SG CYS 45 A CYS 129 1_555 A SG CYS 56 A CYS 140 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf2 A SG CYS 52 A CYS 136 1_555 A SG CYS 65 A CYS 149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf3 A SG CYS 67 A CYS 151 1_555 A SG CYS 80 A CYS 164 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.076 ? disulf ? disulf4 A SG CYS 88 A CYS 172 1_555 B SG CYS 108 B CYS 122 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? disulf ? disulf5 B SG CYS 7 B CYS 22 1_555 B SG CYS 12 B CYS 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf6 B SG CYS 27 B CYS 42 1_555 B SG CYS 43 B CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? disulf ? disulf7 B SG CYS 156 B CYS 168 1_555 B SG CYS 170 B CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf8 B SG CYS 181 B CYS 191 1_555 B SG CYS 209 B CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? metalc ? metalc1 E CA CA . B CA 2 1_555 B OD1 ASP 56 B ASP 70 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.46 ? metalc ? metalc2 E CA CA . B CA 2 1_555 B O ASN 58 B ASN 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.412 ? metalc ? metalc3 E CA CA . B CA 2 1_555 B O GLN 61 B GLN 75 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.515 ? metalc ? metalc4 E CA CA . B CA 2 1_555 B OE1 GLU 66 B GLU 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.527 ? metalc ? metalc5 B O TYR 173 B TYR 185 1_555 D NA NA . B NA 249 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.948 ? metalc ? metalc6 B O ASP 174 B ASP 185 1_555 D NA NA . B NA 249 1_555 A ? ? ? ? ? ? ? ? ? ? ? 3.194 ? metalc ? metalc7 B O ARG 211 B ARG 222 1_555 D NA NA . B NA 249 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.897 ? metalc ? metalc8 B O LYS 214 B LYS 224 1_555 D NA NA . B NA 249 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.417 ? # _chem_comp.formula 'C28 H29 Cl N4 O5 S' _chem_comp.formula_weight 569.072 _chem_comp.id FI1 _chem_comp.mon_nstd_flag . _chem_comp.name 6-chloro-N-((3S)-2-oxo-1-(2-oxo-2-((5S)-8-oxo-5,6-dihydro-1H-1,5-methanopyrido[1,2-a][1,5]diazocin-3(2H,4H,8H)-yl)ethyl)piperidin-3-yl)naphthalene-2-sulfonamide _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 C1 C3 FI1 doub 83 n y C1 C8 FI1 sing 84 n y C2 C4 FI1 doub 85 n y C2 C7 FI1 sing 86 n y C3 C9 FI1 sing 87 n y C4 C10 FI1 sing 88 n y C5 C7 FI1 sing 89 n y C5 C9 FI1 doub 90 n y C6 C8 FI1 sing 91 n y C6 C10 FI1 doub 92 n y C7 C8 FI1 doub 93 n y C9 S38 FI1 sing 94 n n C10 CL39 FI1 sing 95 n n C11 C12 FI1 doub 96 n n C11 C13 FI1 sing 97 n n C12 C15 FI1 sing 98 n n C13 C14 FI1 doub 99 n n C14 C25 FI1 sing 100 n n C14 N29 FI1 sing 101 n n C15 N29 FI1 sing 102 n n C15 O33 FI1 doub 103 n n C16 C26 FI1 sing 104 n n C16 N30 FI1 sing 105 n n C16 O34 FI1 doub 106 n n C17 C28 FI1 sing 107 n n C17 N31 FI1 sing 108 n n C17 O35 FI1 doub 109 n n C18 C19 FI1 sing 110 n n C18 C21 FI1 sing 111 n n C19 C26 FI1 sing 112 n n C20 C25 FI1 sing 113 n n C20 C27 FI1 sing 114 n n C21 N30 FI1 sing 115 n n C22 C25 FI1 sing 116 n n C22 N31 FI1 sing 117 n n C23 C27 FI1 sing 118 n n C23 N29 FI1 sing 119 n n C24 C27 FI1 sing 120 n n C24 N31 FI1 sing 121 n n C26 N32 FI1 sing 122 n n C28 N30 FI1 sing 123 n n N32 S38 FI1 sing 124 n n O36 S38 FI1 doub 125 n n O37 S38 FI1 doub 126 n n C1 H1 FI1 sing 127 n n C2 H2 FI1 sing 128 n n C3 H3 FI1 sing 129 n n C4 H4 FI1 sing 130 n n C5 H5 FI1 sing 131 n n C6 H6 FI1 sing 132 n n C11 H11 FI1 sing 133 n n C12 H12 FI1 sing 134 n n C13 H13 FI1 sing 135 n n C18 H18 FI1 sing 136 n n C18 H18A FI1 sing 137 n n C19 H19 FI1 sing 138 n n C19 H19A FI1 sing 139 n n C20 H20 FI1 sing 140 n n C20 H20A FI1 sing 141 n n C21 H21 FI1 sing 142 n n C21 H21A FI1 sing 143 n n C22 H22 FI1 sing 144 n n C22 H22A FI1 sing 145 n n C23 H23 FI1 sing 146 n n C23 H23A FI1 sing 147 n n C24 H24 FI1 sing 148 n n C24 H24A FI1 sing 149 n n C25 H25 FI1 sing 150 n n C26 H26 FI1 sing 151 n n C27 H27 FI1 sing 152 n n C28 H28 FI1 sing 153 n n C28 H28A FI1 sing 154 n n N32 HN32 FI1 sing 155 n n # _atom_sites.entry_id 3SW2 _atom_sites.fract_transf_matrix[1][1] 0.017538 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01379 _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] 0.012828 _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 C 3 FI1 B 1 1 1 FI1 FI1 . D 4 NA B 1 249 1 NA NA . E 5 CA B 1 2 2 CA CA . F 6 GOL B 1 8 8 GOL GOL . G 7 HOH A 1 4 4 HOH HOH . G 7 HOH A 2 17 17 HOH HOH . G 7 HOH A 3 25 25 HOH HOH . G 7 HOH A 4 42 42 HOH HOH . G 7 HOH A 5 45 45 HOH HOH . G 7 HOH A 6 46 46 HOH HOH . G 7 HOH A 7 52 52 HOH HOH . G 7 HOH A 8 58 58 HOH HOH . G 7 HOH A 9 179 99 HOH HOH . G 7 HOH A 10 180 107 HOH HOH . G 7 HOH A 11 181 113 HOH HOH . G 7 HOH A 12 182 114 HOH HOH . G 7 HOH A 13 183 116 HOH HOH . G 7 HOH A 14 184 128 HOH HOH . G 7 HOH A 15 185 131 HOH HOH . G 7 HOH A 16 186 146 HOH HOH . G 7 HOH A 17 187 157 HOH HOH . G 7 HOH A 18 188 158 HOH HOH . G 7 HOH A 19 189 160 HOH HOH . G 7 HOH A 20 190 166 HOH HOH . G 7 HOH A 21 191 168 HOH HOH . G 7 HOH A 22 192 170 HOH HOH . H 7 HOH B 1 3 3 HOH HOH . H 7 HOH B 2 5 5 HOH HOH . H 7 HOH B 3 6 6 HOH HOH . H 7 HOH B 4 9 9 HOH HOH . H 7 HOH B 5 10 10 HOH HOH . H 7 HOH B 6 11 11 HOH HOH . H 7 HOH B 7 12 12 HOH HOH . H 7 HOH B 8 13 13 HOH HOH . H 7 HOH B 9 14 14 HOH HOH . H 7 HOH B 10 15 15 HOH HOH . H 7 HOH B 11 250 1 HOH HOH . H 7 HOH B 12 251 2 HOH HOH . H 7 HOH B 13 252 8 HOH HOH . H 7 HOH B 14 253 20 HOH HOH . H 7 HOH B 15 254 21 HOH HOH . H 7 HOH B 16 255 23 HOH HOH . H 7 HOH B 17 256 24 HOH HOH . H 7 HOH B 18 257 26 HOH HOH . H 7 HOH B 19 258 28 HOH HOH . H 7 HOH B 20 259 29 HOH HOH . H 7 HOH B 21 260 30 HOH HOH . H 7 HOH B 22 261 32 HOH HOH . H 7 HOH B 23 262 33 HOH HOH . H 7 HOH B 24 263 34 HOH HOH . H 7 HOH B 25 264 36 HOH HOH . H 7 HOH B 26 265 37 HOH HOH . H 7 HOH B 27 266 43 HOH HOH . H 7 HOH B 28 267 48 HOH HOH . H 7 HOH B 29 268 57 HOH HOH . H 7 HOH B 30 269 60 HOH HOH . H 7 HOH B 31 270 73 HOH HOH . H 7 HOH B 32 271 76 HOH HOH . H 7 HOH B 33 272 83 HOH HOH . H 7 HOH B 34 273 84 HOH HOH . H 7 HOH B 35 274 86 HOH HOH . H 7 HOH B 36 275 87 HOH HOH . H 7 HOH B 37 276 91 HOH HOH . H 7 HOH B 38 277 97 HOH HOH . H 7 HOH B 39 278 98 HOH HOH . H 7 HOH B 40 279 101 HOH HOH . H 7 HOH B 41 280 105 HOH HOH . H 7 HOH B 42 281 112 HOH HOH . H 7 HOH B 43 282 120 HOH HOH . H 7 HOH B 44 283 124 HOH HOH . H 7 HOH B 45 284 127 HOH HOH . H 7 HOH B 46 285 132 HOH HOH . H 7 HOH B 47 286 134 HOH HOH . H 7 HOH B 48 287 136 HOH HOH . H 7 HOH B 49 288 139 HOH HOH . H 7 HOH B 50 289 143 HOH HOH . H 7 HOH B 51 290 145 HOH HOH . H 7 HOH B 52 291 152 HOH HOH . H 7 HOH B 53 292 154 HOH HOH . H 7 HOH B 54 293 159 HOH HOH . H 7 HOH B 55 294 161 HOH HOH . H 7 HOH B 56 295 162 HOH HOH . H 7 HOH B 57 296 163 HOH HOH . H 7 HOH B 58 297 164 HOH HOH . H 7 HOH B 59 298 165 HOH HOH . H 7 HOH B 60 299 167 HOH HOH . H 7 HOH B 61 300 169 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 FI1 . . . C 3 10.051 45.214 62.59 1 32.9 ? C1 FI1 1 B 1 HETATM 2 C C2 FI1 . . . C 3 10.108 43.422 65.867 1 30.2 ? C2 FI1 1 B 1 HETATM 3 C C3 FI1 . . . C 3 8.698 45.316 62.367 1 34.49 ? C3 FI1 1 B 1 HETATM 4 C C4 FI1 . . . C 3 11.452 43.315 66.113 1 28.9 ? C4 FI1 1 B 1 HETATM 5 C C5 FI1 . . . C 3 8.235 44.161 64.436 1 35.06 ? C5 FI1 1 B 1 HETATM 6 C C6 FI1 . . . C 3 11.936 44.468 64.031 1 26.65 ? C6 FI1 1 B 1 HETATM 7 C C7 FI1 . . . C 3 9.627 44.054 64.694 1 32.58 ? C7 FI1 1 B 1 HETATM 8 C C8 FI1 . . . C 3 10.552 44.591 63.767 1 27.3 ? C8 FI1 1 B 1 HETATM 9 C C9 FI1 . . . C 3 7.751 44.782 63.299 1 40.8 ? C9 FI1 1 B 1 HETATM 10 C C10 FI1 . . . C 3 12.385 43.841 65.179 1 31.46 ? C10 FI1 1 B 1 HETATM 11 C C11 FI1 . . . C 3 5.765 40.893 54.731 1 43.41 ? C11 FI1 1 B 1 HETATM 12 C C12 FI1 . . . C 3 4.82 40.137 55.344 1 46.43 ? C12 FI1 1 B 1 HETATM 13 C C13 FI1 . . . C 3 7.125 40.464 54.74 1 43.58 ? C13 FI1 1 B 1 HETATM 14 C C14 FI1 . . . C 3 7.471 39.282 55.362 1 40.76 ? C14 FI1 1 B 1 HETATM 15 C C15 FI1 . . . C 3 5.167 38.884 56.021 1 49.78 ? C15 FI1 1 B 1 HETATM 16 C C16 FI1 . . . C 3 7.054 42.324 60.426 1 40.48 ? C16 FI1 1 B 1 HETATM 17 C C17 FI1 . . . C 3 7.956 39.773 58.62 1 39.6 ? C17 FI1 1 B 1 HETATM 18 C C18 FI1 . . . C 3 4.281 41.917 59.876 1 50.62 ? C18 FI1 1 B 1 HETATM 19 C C19 FI1 . . . C 3 4.719 41.821 61.321 1 48.17 ? C19 FI1 1 B 1 HETATM 20 C C20 FI1 . . . C 3 9.078 37.361 55.511 1 42.99 ? C20 FI1 1 B 1 HETATM 21 C C21 FI1 . . . C 3 5.329 41.374 58.909 1 49.82 ? C21 FI1 1 B 1 HETATM 22 C C22 FI1 . . . C 3 9.457 39.558 56.65 1 38.49 ? C22 FI1 1 B 1 HETATM 23 C C23 FI1 . . . C 3 6.897 37.245 56.68 1 45.56 ? C23 FI1 1 B 1 HETATM 24 C C24 FI1 . . . C 3 9.012 37.609 58.02 1 41.79 ? C24 FI1 1 B 1 HETATM 25 C C25 FI1 . . . C 3 8.913 38.871 55.39 1 42.44 ? C25 FI1 1 B 1 HETATM 26 C C26 FI1 . . . C 3 6.006 42.655 61.517 1 43.06 ? C26 FI1 1 B 1 HETATM 27 C C27 FI1 . . . C 3 8.394 36.91 56.792 1 43.25 ? C27 FI1 1 B 1 HETATM 28 C C28 FI1 . . . C 3 7.713 41.263 58.344 1 38.25 ? C28 FI1 1 B 1 HETATM 29 N N29 FI1 . . . C 3 6.538 38.493 56.008 1 44.85 ? N29 FI1 1 B 1 HETATM 30 N N30 FI1 . . . C 3 6.693 41.691 59.259 1 44.95 ? N30 FI1 1 B 1 HETATM 31 N N31 FI1 . . . C 3 8.802 39.006 57.818 1 37.93 ? N31 FI1 1 B 1 HETATM 32 N N32 FI1 . . . C 3 5.797 44.074 61.646 1 37.38 ? N32 FI1 1 B 1 HETATM 33 O O33 FI1 . . . C 3 4.34 38.146 56.604 1 50.01 ? O33 FI1 1 B 1 HETATM 34 O O34 FI1 . . . C 3 8.244 42.614 60.583 1 45.56 ? O34 FI1 1 B 1 HETATM 35 O O35 FI1 . . . C 3 7.402 39.241 59.602 1 37.29 ? O35 FI1 1 B 1 HETATM 36 O O36 FI1 . . . C 3 5.437 44.259 64.131 1 44.08 ? O36 FI1 1 B 1 HETATM 37 O O37 FI1 . . . C 3 5.718 46.216 62.793 1 46.24 ? O37 FI1 1 B 1 HETATM 38 S S38 FI1 . . . C 3 6.071 44.88 63.035 1 44.78 ? S38 FI1 1 B 1 HETATM 39 CL CL39 FI1 . . . C 3 14.054 43.665 65.529 1 26.49 ? CL39 FI1 1 B 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 300 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 39 #