data_4YIH
#
_model_server_result.job_id            F9wATeYMXumwP-5KVe7ZUw 
_model_server_result.datetime_utc      '2024-11-28 19:10:12' 
_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          4yih 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":204}' 
#
_entry.id    4YIH 
#
_exptl.entry_id    4YIH 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              92.094 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            GLYCEROL 
_entity.pdbx_number_of_molecules    1 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         111.18 
_cell.angle_beta          88.16 
_cell.angle_gamma         104.7 
_cell.entry_id            4YIH 
_cell.length_a            38.818 
_cell.length_b            46.451 
_cell.length_c            61.738 
_cell.Z_PDB               2 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4YIH 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_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,I,J,K 
_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                      5 
_struct_asym.id                             F 
_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
metalc ? metalc1 A OD2 ASP 10 A ASP 10 1_555 C MG MG . A MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.146 ? 
metalc ? metalc2 A O ASP 12 A ASP 12 1_555 C MG MG . A MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.559 ? 
metalc ? metalc3 A OD1 ASP 145 A ASP 145 1_555 C MG MG . A MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? 
metalc ? metalc4 C MG MG . A MG 201 1_555 D O4 PO4 . A PO4 202 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.074 ? 
metalc ? metalc5 C MG MG . A MG 201 1_555 F O1 GOL . A GOL 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.862 ? 
metalc ? metalc6 C MG MG . A MG 201 1_555 J O HOH . A HOH 358 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? 
metalc ? metalc7 B OD2 ASP 10 B ASP 10 1_555 G MG MG . B MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.14 ? 
metalc ? metalc8 B O ASP 12 B ASP 12 1_555 G MG MG . B MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.455 ? 
metalc ? metalc9 B OD1 ASP 145 B ASP 145 1_555 G MG MG . B MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.273 ? 
metalc ? metalc10 G MG MG . B MG 201 1_555 H O1 PO4 . B PO4 202 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.501 ? 
metalc ? metalc11 G MG MG . B MG 201 1_555 K O HOH . B HOH 344 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.777 ? 
#
_chem_comp.formula           'C3 H8 O3' 
_chem_comp.formula_weight    92.094 
_chem_comp.id                GOL 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              GLYCEROL 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     GLYCERIN;PROPANE-1,2,3-TRIOL 
#
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 O1 GOL sing 185 n n 
C1 C2 GOL sing 186 n n 
C1 H11 GOL sing 187 n n 
C1 H12 GOL sing 188 n n 
O1 HO1 GOL sing 189 n n 
C2 O2 GOL sing 190 n n 
C2 C3 GOL sing 191 n n 
C2 H2 GOL sing 192 n n 
O2 HO2 GOL sing 193 n n 
C3 O3 GOL sing 194 n n 
C3 H31 GOL sing 195 n n 
C3 H32 GOL sing 196 n n 
O3 HO3 GOL sing 197 n n 
#
_atom_sites.entry_id                     4YIH 
_atom_sites.fract_transf_matrix[1][1]    0.025761 
_atom_sites.fract_transf_matrix[1][2]    0.006758 
_atom_sites.fract_transf_matrix[1][3]    0.001761 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.022257 
_atom_sites.fract_transf_matrix[2][3]    0.008733 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.017409 
_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 2 MG A 1 201 201 MG MG . 
D 3 PO4 A 1 202 202 PO4 PO4 . 
E 4 2O2 A 1 203 202 2O2 2O2 . 
F 5 GOL A 1 204 203 GOL GOL . 
G 2 MG B 1 201 201 MG MG . 
H 3 PO4 B 1 202 202 PO4 PO4 . 
I 4 2O2 B 1 203 202 2O2 2O2 . 
J 6 HOH A 1 301 407 HOH HOH . 
J 6 HOH A 2 302 382 HOH HOH . 
J 6 HOH A 3 303 396 HOH HOH . 
J 6 HOH A 4 304 333 HOH HOH . 
J 6 HOH A 5 305 415 HOH HOH . 
J 6 HOH A 6 306 383 HOH HOH . 
J 6 HOH A 7 307 339 HOH HOH . 
J 6 HOH A 8 308 358 HOH HOH . 
J 6 HOH A 9 309 380 HOH HOH . 
J 6 HOH A 10 310 308 HOH HOH . 
J 6 HOH A 11 311 335 HOH HOH . 
J 6 HOH A 12 312 365 HOH HOH . 
J 6 HOH A 13 313 355 HOH HOH . 
J 6 HOH A 14 314 338 HOH HOH . 
J 6 HOH A 15 315 413 HOH HOH . 
J 6 HOH A 16 316 372 HOH HOH . 
J 6 HOH A 17 317 399 HOH HOH . 
J 6 HOH A 18 318 367 HOH HOH . 
J 6 HOH A 19 319 305 HOH HOH . 
J 6 HOH A 20 320 392 HOH HOH . 
J 6 HOH A 21 321 344 HOH HOH . 
J 6 HOH A 22 322 403 HOH HOH . 
J 6 HOH A 23 323 398 HOH HOH . 
J 6 HOH A 24 324 320 HOH HOH . 
J 6 HOH A 25 325 371 HOH HOH . 
J 6 HOH A 26 326 416 HOH HOH . 
J 6 HOH A 27 327 313 HOH HOH . 
J 6 HOH A 28 328 303 HOH HOH . 
J 6 HOH A 29 329 379 HOH HOH . 
J 6 HOH A 30 330 316 HOH HOH . 
J 6 HOH A 31 331 302 HOH HOH . 
J 6 HOH A 32 332 332 HOH HOH . 
J 6 HOH A 33 333 346 HOH HOH . 
J 6 HOH A 34 334 314 HOH HOH . 
J 6 HOH A 35 335 318 HOH HOH . 
J 6 HOH A 36 336 375 HOH HOH . 
J 6 HOH A 37 337 310 HOH HOH . 
J 6 HOH A 38 338 330 HOH HOH . 
J 6 HOH A 39 339 325 HOH HOH . 
J 6 HOH A 40 340 393 HOH HOH . 
J 6 HOH A 41 341 304 HOH HOH . 
J 6 HOH A 42 342 311 HOH HOH . 
J 6 HOH A 43 343 342 HOH HOH . 
J 6 HOH A 44 344 319 HOH HOH . 
J 6 HOH A 45 345 363 HOH HOH . 
J 6 HOH A 46 346 386 HOH HOH . 
J 6 HOH A 47 347 327 HOH HOH . 
J 6 HOH A 48 348 340 HOH HOH . 
J 6 HOH A 49 349 331 HOH HOH . 
J 6 HOH A 50 350 409 HOH HOH . 
J 6 HOH A 51 351 377 HOH HOH . 
J 6 HOH A 52 352 307 HOH HOH . 
J 6 HOH A 53 353 317 HOH HOH . 
J 6 HOH A 54 354 385 HOH HOH . 
J 6 HOH A 55 355 301 HOH HOH . 
J 6 HOH A 56 356 309 HOH HOH . 
J 6 HOH A 57 357 324 HOH HOH . 
J 6 HOH A 58 358 354 HOH HOH . 
J 6 HOH A 59 359 391 HOH HOH . 
J 6 HOH A 60 360 351 HOH HOH . 
J 6 HOH A 61 361 353 HOH HOH . 
J 6 HOH A 62 362 323 HOH HOH . 
J 6 HOH A 63 363 418 HOH HOH . 
J 6 HOH A 64 364 412 HOH HOH . 
J 6 HOH A 65 365 384 HOH HOH . 
J 6 HOH A 66 366 328 HOH HOH . 
J 6 HOH A 67 367 376 HOH HOH . 
J 6 HOH A 68 368 341 HOH HOH . 
J 6 HOH A 69 369 359 HOH HOH . 
J 6 HOH A 70 370 326 HOH HOH . 
J 6 HOH A 71 371 334 HOH HOH . 
J 6 HOH A 72 372 368 HOH HOH . 
J 6 HOH A 73 373 347 HOH HOH . 
J 6 HOH A 74 374 345 HOH HOH . 
J 6 HOH A 75 375 357 HOH HOH . 
J 6 HOH A 76 376 414 HOH HOH . 
J 6 HOH A 77 377 378 HOH HOH . 
J 6 HOH A 78 378 306 HOH HOH . 
J 6 HOH A 79 379 388 HOH HOH . 
J 6 HOH A 80 380 336 HOH HOH . 
J 6 HOH A 81 381 337 HOH HOH . 
J 6 HOH A 82 382 349 HOH HOH . 
J 6 HOH A 83 383 419 HOH HOH . 
J 6 HOH A 84 384 361 HOH HOH . 
J 6 HOH A 85 385 381 HOH HOH . 
J 6 HOH A 86 386 389 HOH HOH . 
J 6 HOH A 87 387 420 HOH HOH . 
J 6 HOH A 88 388 322 HOH HOH . 
J 6 HOH A 89 389 348 HOH HOH . 
J 6 HOH A 90 390 315 HOH HOH . 
J 6 HOH A 91 391 370 HOH HOH . 
J 6 HOH A 92 392 369 HOH HOH . 
J 6 HOH A 93 393 350 HOH HOH . 
J 6 HOH A 94 394 312 HOH HOH . 
J 6 HOH A 95 395 421 HOH HOH . 
J 6 HOH A 96 396 329 HOH HOH . 
J 6 HOH A 97 397 402 HOH HOH . 
J 6 HOH A 98 398 405 HOH HOH . 
J 6 HOH A 99 399 352 HOH HOH . 
J 6 HOH A 100 400 406 HOH HOH . 
J 6 HOH A 101 401 373 HOH HOH . 
J 6 HOH A 102 402 374 HOH HOH . 
J 6 HOH A 103 403 350 HOH HOH . 
J 6 HOH A 104 404 387 HOH HOH . 
J 6 HOH A 105 405 397 HOH HOH . 
J 6 HOH A 106 406 410 HOH HOH . 
J 6 HOH A 107 407 343 HOH HOH . 
J 6 HOH A 108 408 390 HOH HOH . 
J 6 HOH A 109 409 411 HOH HOH . 
J 6 HOH A 110 410 364 HOH HOH . 
J 6 HOH A 111 411 356 HOH HOH . 
J 6 HOH A 112 412 360 HOH HOH . 
J 6 HOH A 113 413 404 HOH HOH . 
J 6 HOH A 114 414 417 HOH HOH . 
J 6 HOH A 115 415 394 HOH HOH . 
J 6 HOH A 116 416 400 HOH HOH . 
J 6 HOH A 117 417 395 HOH HOH . 
J 6 HOH A 118 418 351 HOH HOH . 
J 6 HOH A 119 419 366 HOH HOH . 
J 6 HOH A 120 420 408 HOH HOH . 
J 6 HOH A 121 421 362 HOH HOH . 
J 6 HOH A 122 422 401 HOH HOH . 
K 6 HOH B 1 301 349 HOH HOH . 
K 6 HOH B 2 302 342 HOH HOH . 
K 6 HOH B 3 303 334 HOH HOH . 
K 6 HOH B 4 304 330 HOH HOH . 
K 6 HOH B 5 305 362 HOH HOH . 
K 6 HOH B 6 306 337 HOH HOH . 
K 6 HOH B 7 307 344 HOH HOH . 
K 6 HOH B 8 308 322 HOH HOH . 
K 6 HOH B 9 309 336 HOH HOH . 
K 6 HOH B 10 310 310 HOH HOH . 
K 6 HOH B 11 311 326 HOH HOH . 
K 6 HOH B 12 312 361 HOH HOH . 
K 6 HOH B 13 313 314 HOH HOH . 
K 6 HOH B 14 314 327 HOH HOH . 
K 6 HOH B 15 315 359 HOH HOH . 
K 6 HOH B 16 316 309 HOH HOH . 
K 6 HOH B 17 317 333 HOH HOH . 
K 6 HOH B 18 318 304 HOH HOH . 
K 6 HOH B 19 319 335 HOH HOH . 
K 6 HOH B 20 320 301 HOH HOH . 
K 6 HOH B 21 321 302 HOH HOH . 
K 6 HOH B 22 322 341 HOH HOH . 
K 6 HOH B 23 323 331 HOH HOH . 
K 6 HOH B 24 324 303 HOH HOH . 
K 6 HOH B 25 325 325 HOH HOH . 
K 6 HOH B 26 326 321 HOH HOH . 
K 6 HOH B 27 327 369 HOH HOH . 
K 6 HOH B 28 328 346 HOH HOH . 
K 6 HOH B 29 329 339 HOH HOH . 
K 6 HOH B 30 330 355 HOH HOH . 
K 6 HOH B 31 331 353 HOH HOH . 
K 6 HOH B 32 332 329 HOH HOH . 
K 6 HOH B 33 333 320 HOH HOH . 
K 6 HOH B 34 334 363 HOH HOH . 
K 6 HOH B 35 335 317 HOH HOH . 
K 6 HOH B 36 336 332 HOH HOH . 
K 6 HOH B 37 337 323 HOH HOH . 
K 6 HOH B 38 338 308 HOH HOH . 
K 6 HOH B 39 339 306 HOH HOH . 
K 6 HOH B 40 340 328 HOH HOH . 
K 6 HOH B 41 341 364 HOH HOH . 
K 6 HOH B 42 342 307 HOH HOH . 
K 6 HOH B 43 343 305 HOH HOH . 
K 6 HOH B 44 344 315 HOH HOH . 
K 6 HOH B 45 345 312 HOH HOH . 
K 6 HOH B 46 346 319 HOH HOH . 
K 6 HOH B 47 347 368 HOH HOH . 
K 6 HOH B 48 348 357 HOH HOH . 
K 6 HOH B 49 349 311 HOH HOH . 
K 6 HOH B 50 350 360 HOH HOH . 
K 6 HOH B 51 351 352 HOH HOH . 
K 6 HOH B 52 352 347 HOH HOH . 
K 6 HOH B 53 353 366 HOH HOH . 
K 6 HOH B 54 354 340 HOH HOH . 
K 6 HOH B 55 355 321 HOH HOH . 
K 6 HOH B 56 356 345 HOH HOH . 
K 6 HOH B 57 357 343 HOH HOH . 
K 6 HOH B 58 358 365 HOH HOH . 
K 6 HOH B 59 359 358 HOH HOH . 
K 6 HOH B 60 360 348 HOH HOH . 
K 6 HOH B 61 361 354 HOH HOH . 
K 6 HOH B 62 362 313 HOH HOH . 
K 6 HOH B 63 363 356 HOH HOH . 
K 6 HOH B 64 364 316 HOH HOH . 
K 6 HOH B 65 365 318 HOH HOH . 
K 6 HOH B 66 366 338 HOH HOH . 
K 6 HOH B 67 367 324 HOH HOH . 
K 6 HOH B 68 368 367 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 GOL . . . F 5 -4.469 1.211 0.162 1 40.57 ? C1 GOL 204 A 1 
HETATM 2 O O1 GOL . . . F 5 -5.283 0.031 0.135 1 39.93 ? O1 GOL 204 A 1 
HETATM 3 C C2 GOL . . . F 5 -5.18 2.548 0.43 1 31.88 ? C2 GOL 204 A 1 
HETATM 4 O O2 GOL . . . F 5 -6.503 2.634 1.112 1 41.42 ? O2 GOL 204 A 1 
HETATM 5 C C3 GOL . . . F 5 -4.158 3.335 1.224 1 39.01 ? C3 GOL 204 A 1 
HETATM 6 O O3 GOL . . . F 5 -3.61 2.898 2.468 1 33.23 ? O3 GOL 204 A 1 
#
_model_server_stats.io_time_ms              20 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    16 
_model_server_stats.query_time_ms           317 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           6 
#