data_1YGD
#
_model_server_result.job_id            6NqYajdeFaKgE21Ev1XK0w 
_model_server_result.datetime_utc      '2024-12-04 10:49:40' 
_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          1ygd 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":150}' 
#
_entry.id    1YGD 
#
_exptl.entry_id    1YGD 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              31.999 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'OXYGEN MOLECULE' 
_entity.pdbx_number_of_molecules    2 
_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            1YGD 
_cell.length_a            96.3 
_cell.length_b            99.1 
_cell.length_c            66.8 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1YGD 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        18 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 2' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H,I,J,K,L,M,N 
_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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 5 G N N 
? 5 J 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
metalc ? metalc1 A NE2 HIS 87 A HIS 87 1_555 E ZN ZNH . A ZNH 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.002 ? 
metalc ? metalc2 E ZN ZNH . A ZNH 142 1_555 K O HOH . A HOH 219 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.989 ? 
metalc ? metalc3 B NE2 HIS 92 B HIS 92 1_555 F FE HEM . B HEM 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.903 ? 
metalc ? metalc4 F FE HEM . B HEM 147 1_555 G O1 OXY . B OXY 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.754 ? 
metalc ? metalc5 F FE HEM . B HEM 147 1_555 G O2 OXY . B OXY 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.565 ? 
metalc ? metalc6 C NE2 HIS 87 C HIS 87 1_555 H ZN ZNH . C ZNH 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.999 ? 
metalc ? metalc7 D NE2 HIS 92 D HIS 92 1_555 I FE HEM . D HEM 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.845 ? 
metalc ? metalc8 I FE HEM . D HEM 147 1_555 J O1 OXY . D OXY 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.756 ? 
metalc ? metalc9 I FE HEM . D HEM 147 1_555 J O2 OXY . D OXY 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.56 ? 
#
_chem_comp.formula           O2 
_chem_comp.formula_weight    31.999 
_chem_comp.id                OXY 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'OXYGEN MOLECULE' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
_chem_comp_bond.atom_id_1             O1 
_chem_comp_bond.atom_id_2             O2 
_chem_comp_bond.comp_id               OXY 
_chem_comp_bond.value_order           doub 
_chem_comp_bond.pdbx_ordinal          298 
_chem_comp_bond.pdbx_stereo_config    n 
_chem_comp_bond.pdbx_aromatic_flag    n 
#
_atom_sites.entry_id                     1YGD 
_atom_sites.fract_transf_matrix[1][1]    0.010384 
_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]    0.010091 
_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]    0.01497 
_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 3 ZNH A 1 142 142 ZNH ZNH . 
F 4 HEM B 1 147 147 HEM HEM . 
G 5 OXY B 1 150 150 OXY O2 . 
H 3 ZNH C 1 142 142 ZNH ZNH . 
I 4 HEM D 1 147 147 HEM HEM . 
J 5 OXY D 1 150 150 OXY O2 . 
K 6 HOH A 1 206 206 HOH HOH . 
K 6 HOH A 2 211 211 HOH HOH . 
K 6 HOH A 3 215 215 HOH HOH . 
K 6 HOH A 4 216 216 HOH HOH . 
K 6 HOH A 5 217 217 HOH HOH . 
K 6 HOH A 6 219 219 HOH HOH . 
K 6 HOH A 7 220 220 HOH HOH . 
K 6 HOH A 8 222 222 HOH HOH . 
K 6 HOH A 9 223 223 HOH HOH . 
K 6 HOH A 10 225 225 HOH HOH . 
K 6 HOH A 11 226 226 HOH HOH . 
K 6 HOH A 12 227 227 HOH HOH . 
K 6 HOH A 13 229 229 HOH HOH . 
K 6 HOH A 14 231 231 HOH HOH . 
K 6 HOH A 15 232 232 HOH HOH . 
K 6 HOH A 16 270 270 HOH HOH . 
K 6 HOH A 17 287 287 HOH HOH . 
K 6 HOH A 18 290 290 HOH HOH . 
K 6 HOH A 19 300 300 HOH HOH . 
K 6 HOH A 20 310 310 HOH HOH . 
K 6 HOH A 21 311 311 HOH HOH . 
K 6 HOH A 22 312 312 HOH HOH . 
K 6 HOH A 23 315 315 HOH HOH . 
K 6 HOH A 24 317 317 HOH HOH . 
K 6 HOH A 25 319 319 HOH HOH . 
K 6 HOH A 26 324 324 HOH HOH . 
K 6 HOH A 27 325 325 HOH HOH . 
K 6 HOH A 28 326 326 HOH HOH . 
K 6 HOH A 29 331 331 HOH HOH . 
K 6 HOH A 30 332 332 HOH HOH . 
K 6 HOH A 31 335 335 HOH HOH . 
K 6 HOH A 32 336 336 HOH HOH . 
K 6 HOH A 33 339 339 HOH HOH . 
K 6 HOH A 34 340 340 HOH HOH . 
K 6 HOH A 35 341 341 HOH HOH . 
K 6 HOH A 36 342 342 HOH HOH . 
K 6 HOH A 37 343 343 HOH HOH . 
K 6 HOH A 38 348 348 HOH HOH . 
K 6 HOH A 39 352 352 HOH HOH . 
K 6 HOH A 40 353 353 HOH HOH . 
K 6 HOH A 41 355 355 HOH HOH . 
K 6 HOH A 42 373 373 HOH HOH . 
K 6 HOH A 43 374 374 HOH HOH . 
K 6 HOH A 44 377 377 HOH HOH . 
K 6 HOH A 45 382 382 HOH HOH . 
K 6 HOH A 46 395 395 HOH HOH . 
K 6 HOH A 47 398 398 HOH HOH . 
K 6 HOH A 48 404 404 HOH HOH . 
K 6 HOH A 49 407 407 HOH HOH . 
K 6 HOH A 50 414 414 HOH HOH . 
K 6 HOH A 51 421 421 HOH HOH . 
K 6 HOH A 52 429 429 HOH HOH . 
K 6 HOH A 53 430 430 HOH HOH . 
L 6 HOH B 1 218 218 HOH HOH . 
L 6 HOH B 2 233 233 HOH HOH . 
L 6 HOH B 3 234 234 HOH HOH . 
L 6 HOH B 4 237 237 HOH HOH . 
L 6 HOH B 5 238 238 HOH HOH . 
L 6 HOH B 6 239 239 HOH HOH . 
L 6 HOH B 7 240 240 HOH HOH . 
L 6 HOH B 8 241 241 HOH HOH . 
L 6 HOH B 9 242 242 HOH HOH . 
L 6 HOH B 10 243 243 HOH HOH . 
L 6 HOH B 11 244 244 HOH HOH . 
L 6 HOH B 12 246 246 HOH HOH . 
L 6 HOH B 13 248 248 HOH HOH . 
L 6 HOH B 14 249 249 HOH HOH . 
L 6 HOH B 15 250 250 HOH HOH . 
L 6 HOH B 16 251 251 HOH HOH . 
L 6 HOH B 17 252 252 HOH HOH . 
L 6 HOH B 18 259 259 HOH HOH . 
L 6 HOH B 19 261 261 HOH HOH . 
L 6 HOH B 20 262 262 HOH HOH . 
L 6 HOH B 21 265 265 HOH HOH . 
L 6 HOH B 22 267 267 HOH HOH . 
L 6 HOH B 23 269 269 HOH HOH . 
L 6 HOH B 24 275 275 HOH HOH . 
L 6 HOH B 25 278 278 HOH HOH . 
L 6 HOH B 26 283 283 HOH HOH . 
L 6 HOH B 27 286 286 HOH HOH . 
L 6 HOH B 28 289 289 HOH HOH . 
L 6 HOH B 29 291 291 HOH HOH . 
L 6 HOH B 30 294 294 HOH HOH . 
L 6 HOH B 31 296 296 HOH HOH . 
L 6 HOH B 32 298 298 HOH HOH . 
L 6 HOH B 33 302 302 HOH HOH . 
L 6 HOH B 34 313 313 HOH HOH . 
L 6 HOH B 35 318 318 HOH HOH . 
L 6 HOH B 36 323 323 HOH HOH . 
L 6 HOH B 37 350 350 HOH HOH . 
L 6 HOH B 38 362 362 HOH HOH . 
L 6 HOH B 39 385 385 HOH HOH . 
L 6 HOH B 40 386 386 HOH HOH . 
L 6 HOH B 41 391 391 HOH HOH . 
L 6 HOH B 42 397 397 HOH HOH . 
L 6 HOH B 43 402 402 HOH HOH . 
L 6 HOH B 44 409 409 HOH HOH . 
M 6 HOH C 1 213 213 HOH HOH . 
M 6 HOH C 2 228 228 HOH HOH . 
M 6 HOH C 3 236 236 HOH HOH . 
M 6 HOH C 4 253 253 HOH HOH . 
M 6 HOH C 5 254 254 HOH HOH . 
M 6 HOH C 6 255 255 HOH HOH . 
M 6 HOH C 7 256 256 HOH HOH . 
M 6 HOH C 8 257 257 HOH HOH . 
M 6 HOH C 9 260 260 HOH HOH . 
M 6 HOH C 10 264 264 HOH HOH . 
M 6 HOH C 11 268 268 HOH HOH . 
M 6 HOH C 12 274 274 HOH HOH . 
M 6 HOH C 13 280 280 HOH HOH . 
M 6 HOH C 14 305 305 HOH HOH . 
M 6 HOH C 15 308 308 HOH HOH . 
M 6 HOH C 16 309 309 HOH HOH . 
M 6 HOH C 17 314 314 HOH HOH . 
M 6 HOH C 18 320 320 HOH HOH . 
M 6 HOH C 19 321 321 HOH HOH . 
M 6 HOH C 20 322 322 HOH HOH . 
M 6 HOH C 21 330 330 HOH HOH . 
M 6 HOH C 22 333 333 HOH HOH . 
M 6 HOH C 23 337 337 HOH HOH . 
M 6 HOH C 24 338 338 HOH HOH . 
M 6 HOH C 25 346 346 HOH HOH . 
M 6 HOH C 26 347 347 HOH HOH . 
M 6 HOH C 27 354 354 HOH HOH . 
M 6 HOH C 28 360 360 HOH HOH . 
M 6 HOH C 29 361 361 HOH HOH . 
M 6 HOH C 30 363 363 HOH HOH . 
M 6 HOH C 31 384 384 HOH HOH . 
M 6 HOH C 32 388 388 HOH HOH . 
M 6 HOH C 33 393 393 HOH HOH . 
M 6 HOH C 34 406 406 HOH HOH . 
M 6 HOH C 35 408 408 HOH HOH . 
M 6 HOH C 36 417 417 HOH HOH . 
M 6 HOH C 37 420 420 HOH HOH . 
M 6 HOH C 38 423 423 HOH HOH . 
M 6 HOH C 39 425 425 HOH HOH . 
M 6 HOH C 40 428 428 HOH HOH . 
M 6 HOH C 41 431 431 HOH HOH . 
M 6 HOH C 42 433 433 HOH HOH . 
M 6 HOH C 43 435 435 HOH HOH . 
M 6 HOH C 44 436 436 HOH HOH . 
M 6 HOH C 45 437 437 HOH HOH . 
N 6 HOH D 1 204 204 HOH HOH . 
N 6 HOH D 2 205 205 HOH HOH . 
N 6 HOH D 3 207 207 HOH HOH . 
N 6 HOH D 4 208 208 HOH HOH . 
N 6 HOH D 5 209 209 HOH HOH . 
N 6 HOH D 6 210 210 HOH HOH . 
N 6 HOH D 7 212 212 HOH HOH . 
N 6 HOH D 8 263 263 HOH HOH . 
N 6 HOH D 9 266 266 HOH HOH . 
N 6 HOH D 10 272 272 HOH HOH . 
N 6 HOH D 11 273 273 HOH HOH . 
N 6 HOH D 12 277 277 HOH HOH . 
N 6 HOH D 13 281 281 HOH HOH . 
N 6 HOH D 14 282 282 HOH HOH . 
N 6 HOH D 15 285 285 HOH HOH . 
N 6 HOH D 16 288 288 HOH HOH . 
N 6 HOH D 17 293 293 HOH HOH . 
N 6 HOH D 18 316 316 HOH HOH . 
N 6 HOH D 19 328 328 HOH HOH . 
N 6 HOH D 20 334 334 HOH HOH . 
N 6 HOH D 21 345 345 HOH HOH . 
N 6 HOH D 22 349 349 HOH HOH . 
N 6 HOH D 23 368 368 HOH HOH . 
N 6 HOH D 24 376 376 HOH HOH . 
N 6 HOH D 25 394 394 HOH HOH . 
N 6 HOH D 26 396 396 HOH HOH . 
N 6 HOH D 27 400 400 HOH HOH . 
N 6 HOH D 28 401 401 HOH HOH . 
N 6 HOH D 29 405 405 HOH HOH . 
N 6 HOH D 30 415 415 HOH HOH . 
N 6 HOH D 31 416 416 HOH HOH . 
N 6 HOH D 32 422 422 HOH HOH . 
N 6 HOH D 33 438 438 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 O O1 OXY . . . G 5 33.585 21.183 1.137 1 9.81 ? O1 OXY 150 B 1 
HETATM 2 O O2 OXY . . . G 5 32.423 21.179 1.484 1 14.93 ? O2 OXY 150 B 1 
#
_model_server_stats.io_time_ms              6 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    11 
_model_server_stats.query_time_ms           241 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           2 
#