data_3ORT
#
_model_server_result.job_id            UPx0P1F-cVe3ORAgbg8FzA 
_model_server_result.datetime_utc      '2024-11-21 17:40:17' 
_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          3ort 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":340}' 
#
_entry.id    3ORT 
#
_exptl.entry_id    3ORT 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              523.247 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER' 
_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            3ORT 
_cell.length_a            42.987 
_cell.length_b            52.099 
_cell.length_c            143.371 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3ORT 
_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    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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 
_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                      2 
_struct_asym.id                             B 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C10 H16 N5 O12 P3 S' 
_chem_comp.formula_weight    523.247 
_chem_comp.id                AGS 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     "ATP-GAMMA-S;ADENOSINE 5'-(3-THIOTRIPHOSPHATE);ADENOSINE 5'-(GAMMA-THIOTRIPHOSPHATE);ADENOSINE-5'-DIPHOSPHATE MONOTHIOPHOSPHATE" 
#
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
PG S1G AGS doub 1 n n 
PG O2G AGS sing 2 n n 
PG O3G AGS sing 3 n n 
PG O3B AGS sing 4 n n 
PB O1B AGS doub 5 n n 
PB O2B AGS sing 6 n n 
PB O3B AGS sing 7 n n 
PB O3A AGS sing 8 n n 
PA O1A AGS doub 9 n n 
PA O2A AGS sing 10 n n 
PA O3A AGS sing 11 n n 
PA O5' AGS sing 12 n n 
O5' C5' AGS sing 13 n n 
C5' C4' AGS sing 14 n n 
C4' O4' AGS sing 15 n n 
C4' C3' AGS sing 16 n n 
O4' C1' AGS sing 17 n n 
C3' O3' AGS sing 18 n n 
C3' C2' AGS sing 19 n n 
C2' O2' AGS sing 20 n n 
C2' C1' AGS sing 21 n n 
C1' N9 AGS sing 22 n n 
N9 C8 AGS sing 23 n y 
N9 C4 AGS sing 24 n y 
C8 N7 AGS doub 25 n y 
N7 C5 AGS sing 26 n y 
C5 C6 AGS sing 27 n y 
C5 C4 AGS doub 28 n y 
C6 N6 AGS sing 29 n n 
C6 N1 AGS doub 30 n y 
N1 C2 AGS sing 31 n y 
C2 N3 AGS doub 32 n y 
N3 C4 AGS sing 33 n y 
O2G HOG2 AGS sing 34 n n 
O3G H21 AGS sing 35 n n 
O2B HOB2 AGS sing 36 n n 
O2A HOA2 AGS sing 37 n n 
C5' "H5'1" AGS sing 38 n n 
C5' "H5'2" AGS sing 39 n n 
C4' H4' AGS sing 40 n n 
C3' H3' AGS sing 41 n n 
O3' HO3' AGS sing 42 n n 
C2' H2' AGS sing 43 n n 
O2' HO2' AGS sing 44 n n 
C1' H1' AGS sing 45 n n 
C8 H8 AGS sing 46 n n 
N6 HN61 AGS sing 47 n n 
N6 HN62 AGS sing 48 n n 
C2 H2 AGS sing 49 n n 
#
_atom_sites.entry_id                     3ORT 
_atom_sites.fract_transf_matrix[1][1]    0.023263 
_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]    0.019194 
_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]    0.006975 
_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
B 2 AGS A 1 340 340 AGS AGS . 
C 3 MES A 1 343 343 MES MES . 
D 4 HOH A 1 309 309 HOH HOH . 
D 4 HOH A 2 310 310 HOH HOH . 
D 4 HOH A 3 311 311 HOH HOH . 
D 4 HOH A 4 312 312 HOH HOH . 
D 4 HOH A 5 313 313 HOH HOH . 
D 4 HOH A 6 314 314 HOH HOH . 
D 4 HOH A 7 315 315 HOH HOH . 
D 4 HOH A 8 316 316 HOH HOH . 
D 4 HOH A 9 317 317 HOH HOH . 
D 4 HOH A 10 318 318 HOH HOH . 
D 4 HOH A 11 319 319 HOH HOH . 
D 4 HOH A 12 320 320 HOH HOH . 
D 4 HOH A 13 321 321 HOH HOH . 
D 4 HOH A 14 322 322 HOH HOH . 
D 4 HOH A 15 323 323 HOH HOH . 
D 4 HOH A 16 324 324 HOH HOH . 
D 4 HOH A 17 325 325 HOH HOH . 
D 4 HOH A 18 326 326 HOH HOH . 
D 4 HOH A 19 327 327 HOH HOH . 
D 4 HOH A 20 328 328 HOH HOH . 
D 4 HOH A 21 329 329 HOH HOH . 
D 4 HOH A 22 330 330 HOH HOH . 
D 4 HOH A 23 331 331 HOH HOH . 
D 4 HOH A 24 332 332 HOH HOH . 
D 4 HOH A 25 333 333 HOH HOH . 
D 4 HOH A 26 334 334 HOH HOH . 
D 4 HOH A 27 335 335 HOH HOH . 
D 4 HOH A 28 336 336 HOH HOH . 
D 4 HOH A 29 337 337 HOH HOH . 
D 4 HOH A 30 338 338 HOH HOH . 
D 4 HOH A 31 339 339 HOH HOH . 
D 4 HOH A 32 341 341 HOH HOH . 
D 4 HOH A 33 342 342 HOH HOH . 
D 4 HOH A 34 344 344 HOH HOH . 
D 4 HOH A 35 345 345 HOH HOH . 
D 4 HOH A 36 346 346 HOH HOH . 
D 4 HOH A 37 347 347 HOH HOH . 
D 4 HOH A 38 348 348 HOH HOH . 
D 4 HOH A 39 349 349 HOH HOH . 
D 4 HOH A 40 350 350 HOH HOH . 
D 4 HOH A 41 351 351 HOH HOH . 
D 4 HOH A 42 352 352 HOH HOH . 
D 4 HOH A 43 353 353 HOH HOH . 
D 4 HOH A 44 354 354 HOH HOH . 
D 4 HOH A 45 355 355 HOH HOH . 
D 4 HOH A 46 356 356 HOH HOH . 
D 4 HOH A 47 357 357 HOH HOH . 
D 4 HOH A 48 358 358 HOH HOH . 
D 4 HOH A 49 359 359 HOH HOH . 
D 4 HOH A 50 360 360 HOH HOH . 
D 4 HOH A 51 361 361 HOH HOH . 
D 4 HOH A 52 362 362 HOH HOH . 
D 4 HOH A 53 363 363 HOH HOH . 
D 4 HOH A 54 364 364 HOH HOH . 
D 4 HOH A 55 365 365 HOH HOH . 
D 4 HOH A 56 366 366 HOH HOH . 
D 4 HOH A 57 367 367 HOH HOH . 
D 4 HOH A 58 368 368 HOH HOH . 
D 4 HOH A 59 369 369 HOH HOH . 
D 4 HOH A 60 370 370 HOH HOH . 
D 4 HOH A 61 371 371 HOH HOH . 
D 4 HOH A 62 372 372 HOH HOH . 
D 4 HOH A 63 373 373 HOH HOH . 
D 4 HOH A 64 374 374 HOH HOH . 
D 4 HOH A 65 375 375 HOH HOH . 
D 4 HOH A 66 376 376 HOH HOH . 
D 4 HOH A 67 377 377 HOH HOH . 
D 4 HOH A 68 378 378 HOH HOH . 
D 4 HOH A 69 379 379 HOH HOH . 
D 4 HOH A 70 380 380 HOH HOH . 
D 4 HOH A 71 381 381 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 P PG AGS . . . B 2 6.119 34.601 9.3 1 52.96 ? PG AGS 340 A 1 
HETATM 2 S S1G AGS . . . B 2 4.821 34.102 8.319 1 57.65 ? S1G AGS 340 A 1 
HETATM 3 O O2G AGS . . . B 2 7.413 34.32 8.502 1 46.17 ? O2G AGS 340 A 1 
HETATM 4 O O3G AGS . . . B 2 5.92 33.955 10.708 1 48.38 ? O3G AGS 340 A 1 
HETATM 5 P PB AGS . . . B 2 5.801 37.425 8.629 1 46.02 ? PB AGS 340 A 1 
HETATM 6 O O1B AGS . . . B 2 5.837 37.125 7.18 1 44.71 ? O1B AGS 340 A 1 
HETATM 7 O O2B AGS . . . B 2 4.497 38.057 9.087 1 44.74 ? O2B AGS 340 A 1 
HETATM 8 O O3B AGS . . . B 2 6.135 36.19 9.612 1 49.78 ? O3B AGS 340 A 1 
HETATM 9 P PA AGS . . . B 2 7.613 38.609 10.502 1 41.79 ? PA AGS 340 A 1 
HETATM 10 O O1A AGS . . . B 2 6.518 38.712 11.491 1 44.67 ? O1A AGS 340 A 1 
HETATM 11 O O2A AGS . . . B 2 8.69 37.563 10.795 1 39.33 ? O2A AGS 340 A 1 
HETATM 12 O O3A AGS . . . B 2 7.02 38.379 9.026 1 46 ? O3A AGS 340 A 1 
HETATM 13 O O5' AGS . . . B 2 8.355 40.022 10.248 1 41.16 ? O5' AGS 340 A 1 
HETATM 14 C C5' AGS . . . B 2 9.345 40.098 9.25 1 39.43 ? C5' AGS 340 A 1 
HETATM 15 C C4' AGS . . . B 2 10.547 40.888 9.73 1 38.01 ? C4' AGS 340 A 1 
HETATM 16 O O4' AGS . . . B 2 10.154 42.243 9.938 1 36.05 ? O4' AGS 340 A 1 
HETATM 17 C C3' AGS . . . B 2 11.166 40.445 11.056 1 38.71 ? C3' AGS 340 A 1 
HETATM 18 O O3' AGS . . . B 2 12.213 39.506 10.94 1 40.1 ? O3' AGS 340 A 1 
HETATM 19 C C2' AGS . . . B 2 11.748 41.76 11.545 1 40.21 ? C2' AGS 340 A 1 
HETATM 20 O O2' AGS . . . B 2 12.968 42.038 10.9 1 41.27 ? O2' AGS 340 A 1 
HETATM 21 C C1' AGS . . . B 2 10.822 42.827 11.038 1 34.77 ? C1' AGS 340 A 1 
HETATM 22 N N9 AGS . . . B 2 9.836 43.238 12.045 1 34.32 ? N9 AGS 340 A 1 
HETATM 23 C C8 AGS . . . B 2 8.653 42.615 12.376 1 32.76 ? C8 AGS 340 A 1 
HETATM 24 N N7 AGS . . . B 2 8.014 43.352 13.325 1 29.78 ? N7 AGS 340 A 1 
HETATM 25 C C5 AGS . . . B 2 8.749 44.442 13.62 1 30.74 ? C5 AGS 340 A 1 
HETATM 26 C C6 AGS . . . B 2 8.601 45.539 14.464 1 29.72 ? C6 AGS 340 A 1 
HETATM 27 N N6 AGS . . . B 2 7.827 45.574 15.531 1 30.75 ? N6 AGS 340 A 1 
HETATM 28 N N1 AGS . . . B 2 9.599 46.472 14.494 1 33.74 ? N1 AGS 340 A 1 
HETATM 29 C C2 AGS . . . B 2 10.686 46.36 13.68 1 31.57 ? C2 AGS 340 A 1 
HETATM 30 N N3 AGS . . . B 2 10.833 45.286 12.835 1 32.99 ? N3 AGS 340 A 1 
HETATM 31 C C4 AGS . . . B 2 9.902 44.35 12.799 1 33.23 ? C4 AGS 340 A 1 
#
_model_server_stats.io_time_ms              14 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           268 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           31 
#