data_1Y5M
#
_model_server_result.job_id            w35YjLQ4aLqKfz6cM2Sq4A 
_model_server_result.datetime_utc      '2024-10-14 02:40:00' 
_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          1y5m 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":302}' 
#
_entry.id    1Y5M 
#
_exptl.entry_id    1Y5M 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              114.229 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            N-OCTANE 
_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            1Y5M 
_cell.length_a            96.718 
_cell.length_b            96.718 
_cell.length_c            219.302 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1Y5M 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        91 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 41 2 2' 
#
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 dimeric 2 author_and_software_defined_assembly 1 
PISA tetrameric 4 software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,D,E,F,G,H,I,J,K,L 1 1 
A,B,C,D,E,F,G,H,I,J,K,L 2 1,2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 8_665 -y+1,-x+1,-z+1/4 0 -1 0 -1 0 0 0 0 -1 96.718 96.718 54.8255 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 4 F N N 
? 4 J N N 
#
_chem_comp.formula           'C8 H18' 
_chem_comp.formula_weight    114.229 
_chem_comp.id                OCT 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              N-OCTANE 
_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 C2 OCT sing 319 n n 
C1 H11 OCT sing 320 n n 
C1 H12 OCT sing 321 n n 
C1 H13 OCT sing 322 n n 
C2 C3 OCT sing 323 n n 
C2 H21 OCT sing 324 n n 
C2 H22 OCT sing 325 n n 
C3 C4 OCT sing 326 n n 
C3 H31 OCT sing 327 n n 
C3 H32 OCT sing 328 n n 
C4 C5 OCT sing 329 n n 
C4 H41 OCT sing 330 n n 
C4 H42 OCT sing 331 n n 
C5 C6 OCT sing 332 n n 
C5 H51 OCT sing 333 n n 
C5 H52 OCT sing 334 n n 
C6 C7 OCT sing 335 n n 
C6 H61 OCT sing 336 n n 
C6 H62 OCT sing 337 n n 
C7 C8 OCT sing 338 n n 
C7 H71 OCT sing 339 n n 
C7 H72 OCT sing 340 n n 
C8 H81 OCT sing 341 n n 
C8 H82 OCT sing 342 n n 
C8 H83 OCT sing 343 n n 
#
_atom_sites.entry_id                     1Y5M 
_atom_sites.fract_transf_matrix[1][1]    0.010339 
_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]    0.010339 
_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]    0.00456 
_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 SO4 A 1 293 3 SO4 SO4 . 
D 2 SO4 A 1 294 4 SO4 SO4 . 
E 3 NDP A 1 1 1 NDP NDP . 
F 4 OCT A 1 301 1 OCT OCT . 
G 2 SO4 B 1 293 1 SO4 SO4 . 
H 2 SO4 B 1 294 2 SO4 SO4 . 
I 3 NDP B 1 2 1 NDP NDP . 
J 4 OCT B 1 302 1 OCT OCT . 
K 5 HOH A 1 302 4 HOH TIP . 
K 5 HOH A 2 303 5 HOH TIP . 
K 5 HOH A 3 304 7 HOH TIP . 
K 5 HOH A 4 305 9 HOH TIP . 
K 5 HOH A 5 306 14 HOH TIP . 
K 5 HOH A 6 307 15 HOH TIP . 
K 5 HOH A 7 308 16 HOH TIP . 
K 5 HOH A 8 309 17 HOH TIP . 
K 5 HOH A 9 310 19 HOH TIP . 
K 5 HOH A 10 311 22 HOH TIP . 
K 5 HOH A 11 312 23 HOH TIP . 
K 5 HOH A 12 313 25 HOH TIP . 
K 5 HOH A 13 314 30 HOH TIP . 
K 5 HOH A 14 315 32 HOH TIP . 
K 5 HOH A 15 316 33 HOH TIP . 
K 5 HOH A 16 317 35 HOH TIP . 
K 5 HOH A 17 318 36 HOH TIP . 
K 5 HOH A 18 319 37 HOH TIP . 
K 5 HOH A 19 320 38 HOH TIP . 
K 5 HOH A 20 321 39 HOH TIP . 
K 5 HOH A 21 322 40 HOH TIP . 
K 5 HOH A 22 323 44 HOH TIP . 
K 5 HOH A 23 324 45 HOH TIP . 
K 5 HOH A 24 325 46 HOH TIP . 
K 5 HOH A 25 326 54 HOH TIP . 
K 5 HOH A 26 327 55 HOH TIP . 
K 5 HOH A 27 328 56 HOH TIP . 
K 5 HOH A 28 329 58 HOH TIP . 
K 5 HOH A 29 330 60 HOH TIP . 
K 5 HOH A 30 331 61 HOH TIP . 
K 5 HOH A 31 332 62 HOH TIP . 
K 5 HOH A 32 333 63 HOH TIP . 
K 5 HOH A 33 334 67 HOH TIP . 
K 5 HOH A 34 335 69 HOH TIP . 
K 5 HOH A 35 336 70 HOH TIP . 
K 5 HOH A 36 337 76 HOH TIP . 
K 5 HOH A 37 338 77 HOH TIP . 
K 5 HOH A 38 339 78 HOH TIP . 
K 5 HOH A 39 340 81 HOH TIP . 
K 5 HOH A 40 341 82 HOH TIP . 
K 5 HOH A 41 342 85 HOH TIP . 
K 5 HOH A 42 343 87 HOH TIP . 
K 5 HOH A 43 344 90 HOH TIP . 
K 5 HOH A 44 345 91 HOH TIP . 
K 5 HOH A 45 346 92 HOH TIP . 
K 5 HOH A 46 347 93 HOH TIP . 
K 5 HOH A 47 348 94 HOH TIP . 
K 5 HOH A 48 349 98 HOH TIP . 
K 5 HOH A 49 350 99 HOH TIP . 
K 5 HOH A 50 351 100 HOH TIP . 
K 5 HOH A 51 352 101 HOH TIP . 
K 5 HOH A 52 353 121 HOH TIP . 
K 5 HOH A 53 354 123 HOH TIP . 
K 5 HOH A 54 355 124 HOH TIP . 
K 5 HOH A 55 356 125 HOH TIP . 
K 5 HOH A 56 357 126 HOH TIP . 
K 5 HOH A 57 358 127 HOH TIP . 
K 5 HOH A 58 359 128 HOH TIP . 
K 5 HOH A 59 360 131 HOH TIP . 
K 5 HOH A 60 361 133 HOH TIP . 
K 5 HOH A 61 362 134 HOH TIP . 
K 5 HOH A 62 363 137 HOH TIP . 
K 5 HOH A 63 364 141 HOH TIP . 
L 5 HOH B 1 303 3 HOH TIP . 
L 5 HOH B 2 304 6 HOH TIP . 
L 5 HOH B 3 305 8 HOH TIP . 
L 5 HOH B 4 306 10 HOH TIP . 
L 5 HOH B 5 307 11 HOH TIP . 
L 5 HOH B 6 308 12 HOH TIP . 
L 5 HOH B 7 309 13 HOH TIP . 
L 5 HOH B 8 310 18 HOH TIP . 
L 5 HOH B 9 311 20 HOH TIP . 
L 5 HOH B 10 312 21 HOH TIP . 
L 5 HOH B 11 313 24 HOH TIP . 
L 5 HOH B 12 314 26 HOH TIP . 
L 5 HOH B 13 315 27 HOH TIP . 
L 5 HOH B 14 316 28 HOH TIP . 
L 5 HOH B 15 317 29 HOH TIP . 
L 5 HOH B 16 318 31 HOH TIP . 
L 5 HOH B 17 319 34 HOH TIP . 
L 5 HOH B 18 320 41 HOH TIP . 
L 5 HOH B 19 321 42 HOH TIP . 
L 5 HOH B 20 322 43 HOH TIP . 
L 5 HOH B 21 323 47 HOH TIP . 
L 5 HOH B 22 324 48 HOH TIP . 
L 5 HOH B 23 325 49 HOH TIP . 
L 5 HOH B 24 326 50 HOH TIP . 
L 5 HOH B 25 327 51 HOH TIP . 
L 5 HOH B 26 328 52 HOH TIP . 
L 5 HOH B 27 329 53 HOH TIP . 
L 5 HOH B 28 330 57 HOH TIP . 
L 5 HOH B 29 331 59 HOH TIP . 
L 5 HOH B 30 332 64 HOH TIP . 
L 5 HOH B 31 333 65 HOH TIP . 
L 5 HOH B 32 334 66 HOH TIP . 
L 5 HOH B 33 335 68 HOH TIP . 
L 5 HOH B 34 336 71 HOH TIP . 
L 5 HOH B 35 337 72 HOH TIP . 
L 5 HOH B 36 338 73 HOH TIP . 
L 5 HOH B 37 339 74 HOH TIP . 
L 5 HOH B 38 340 75 HOH TIP . 
L 5 HOH B 39 341 79 HOH TIP . 
L 5 HOH B 40 342 80 HOH TIP . 
L 5 HOH B 41 343 83 HOH TIP . 
L 5 HOH B 42 344 84 HOH TIP . 
L 5 HOH B 43 345 86 HOH TIP . 
L 5 HOH B 44 346 88 HOH TIP . 
L 5 HOH B 45 347 89 HOH TIP . 
L 5 HOH B 46 348 95 HOH TIP . 
L 5 HOH B 47 349 96 HOH TIP . 
L 5 HOH B 48 350 97 HOH TIP . 
L 5 HOH B 49 351 122 HOH TIP . 
L 5 HOH B 50 352 129 HOH TIP . 
L 5 HOH B 51 353 130 HOH TIP . 
L 5 HOH B 52 354 132 HOH TIP . 
L 5 HOH B 53 355 135 HOH TIP . 
L 5 HOH B 54 356 136 HOH TIP . 
L 5 HOH B 55 357 138 HOH TIP . 
L 5 HOH B 56 358 139 HOH TIP . 
L 5 HOH B 57 359 140 HOH TIP . 
L 5 HOH B 58 360 142 HOH TIP . 
L 5 HOH B 59 361 143 HOH TIP . 
L 5 HOH B 60 362 144 HOH TIP . 
L 5 HOH B 61 363 145 HOH TIP . 
L 5 HOH B 62 364 146 HOH TIP . 
L 5 HOH B 63 365 147 HOH TIP . 
#
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 OCT . . . J 4 60.167 50.622 12.863 1 47.7 ? C1 OCT 302 B 1 
HETATM 2 C C2 OCT . . . J 4 61.41 51.3 12.224 1 47.06 ? C2 OCT 302 B 1 
HETATM 3 C C3 OCT . . . J 4 61.545 52.73 12.77 1 47.67 ? C3 OCT 302 B 1 
HETATM 4 C C4 OCT . . . J 4 62.738 53.499 12.24 1 47.16 ? C4 OCT 302 B 1 
HETATM 5 C C5 OCT . . . J 4 63.035 54.804 13.033 1 47.25 ? C5 OCT 302 B 1 
HETATM 6 C C6 OCT . . . J 4 63.881 55.767 12.152 1 46.11 ? C6 OCT 302 B 1 
HETATM 7 C C7 OCT . . . J 4 64.171 57.152 12.713 1 45.02 ? C7 OCT 302 B 1 
HETATM 8 C C8 OCT . . . J 4 65.378 57.107 13.625 1 45.18 ? C8 OCT 302 B 1 
HETATM 9 H H11 OCT . . . J 4 59.259 51.134 12.58 0 47.24 ? H11 OCT 302 B 1 
HETATM 10 H H12 OCT . . . J 4 60.23 50.631 13.941 0 47.24 ? H12 OCT 302 B 1 
HETATM 11 H H13 OCT . . . J 4 60.082 49.593 12.545 0 47.24 ? H13 OCT 302 B 1 
HETATM 12 H H21 OCT . . . J 4 61.316 51.312 11.149 0 47.29 ? H21 OCT 302 B 1 
HETATM 13 H H22 OCT . . . J 4 62.297 50.732 12.461 0 47.29 ? H22 OCT 302 B 1 
HETATM 14 H H31 OCT . . . J 4 61.627 52.673 13.846 0 47.1 ? H31 OCT 302 B 1 
HETATM 15 H H32 OCT . . . J 4 60.639 53.281 12.567 0 47.1 ? H32 OCT 302 B 1 
HETATM 16 H H41 OCT . . . J 4 62.527 53.753 11.211 0 47 ? H41 OCT 302 B 1 
HETATM 17 H H42 OCT . . . J 4 63.615 52.871 12.22 0 47 ? H42 OCT 302 B 1 
HETATM 18 H H51 OCT . . . J 4 63.54 54.578 13.96 0 46.68 ? H51 OCT 302 B 1 
HETATM 19 H H52 OCT . . . J 4 62.104 55.291 13.284 0 46.68 ? H52 OCT 302 B 1 
HETATM 20 H H61 OCT . . . J 4 63.344 55.904 11.224 0 46.1 ? H61 OCT 302 B 1 
HETATM 21 H H62 OCT . . . J 4 64.809 55.288 11.878 0 46.1 ? H62 OCT 302 B 1 
HETATM 22 H H71 OCT . . . J 4 63.307 57.536 13.232 0 45.35 ? H71 OCT 302 B 1 
HETATM 23 H H72 OCT . . . J 4 64.38 57.83 11.899 0 45.35 ? H72 OCT 302 B 1 
HETATM 24 H H81 OCT . . . J 4 66.256 56.765 13.097 0 44.83 ? H81 OCT 302 B 1 
HETATM 25 H H82 OCT . . . J 4 65.591 58.088 14.023 0 44.83 ? H82 OCT 302 B 1 
HETATM 26 H H83 OCT . . . J 4 65.207 56.441 14.459 0 44.83 ? H83 OCT 302 B 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    14 
_model_server_stats.query_time_ms           277 
_model_server_stats.encode_time_ms          15 
_model_server_stats.element_count           26 
#