data_3H39
#
_model_server_result.job_id            RpnspWueEcgJa34EPj96_g 
_model_server_result.datetime_utc      '2024-12-21 14:57:17' 
_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          3h39 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":502}' 
#
_entry.id    3H39 
#
_exptl.entry_id    3H39 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              507.181 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-TRIPHOSPHATE" 
_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          100.88 
_cell.angle_gamma         90 
_cell.entry_id            3H39 
_cell.length_a            186.085 
_cell.length_b            64.07 
_cell.length_c            151.772 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3H39 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? dimeric 2 author_defined_assembly 1 
PISA monomeric 1 software_defined_assembly 2 
PISA monomeric 1 software_defined_assembly 3 
#
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 1 1 
A,C,E 2 1 
B,D,F 3 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
? 2 C N N 
? 2 D N N 
#
_chem_comp.formula           'C10 H16 N5 O13 P3' 
_chem_comp.formula_weight    507.181 
_chem_comp.id                ATP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "ADENOSINE-5'-TRIPHOSPHATE" 
_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
PG O1G ATP doub 70 n n 
PG O2G ATP sing 71 n n 
PG O3G ATP sing 72 n n 
PG O3B ATP sing 73 n n 
O2G HOG2 ATP sing 74 n n 
O3G HOG3 ATP sing 75 n n 
PB O1B ATP doub 76 n n 
PB O2B ATP sing 77 n n 
PB O3B ATP sing 78 n n 
PB O3A ATP sing 79 n n 
O2B HOB2 ATP sing 80 n n 
PA O1A ATP doub 81 n n 
PA O2A ATP sing 82 n n 
PA O3A ATP sing 83 n n 
PA O5' ATP sing 84 n n 
O2A HOA2 ATP sing 85 n n 
O5' C5' ATP sing 86 n n 
C5' C4' ATP sing 87 n n 
C5' "H5'1" ATP sing 88 n n 
C5' "H5'2" ATP sing 89 n n 
C4' O4' ATP sing 90 n n 
C4' C3' ATP sing 91 n n 
C4' H4' ATP sing 92 n n 
O4' C1' ATP sing 93 n n 
C3' O3' ATP sing 94 n n 
C3' C2' ATP sing 95 n n 
C3' H3' ATP sing 96 n n 
O3' HO3' ATP sing 97 n n 
C2' O2' ATP sing 98 n n 
C2' C1' ATP sing 99 n n 
C2' H2' ATP sing 100 n n 
O2' HO2' ATP sing 101 n n 
C1' N9 ATP sing 102 n n 
C1' H1' ATP sing 103 n n 
N9 C8 ATP sing 104 n y 
N9 C4 ATP sing 105 n y 
C8 N7 ATP doub 106 n y 
C8 H8 ATP sing 107 n n 
N7 C5 ATP sing 108 n y 
C5 C6 ATP sing 109 n y 
C5 C4 ATP doub 110 n y 
C6 N6 ATP sing 111 n n 
C6 N1 ATP doub 112 n y 
N6 HN61 ATP sing 113 n n 
N6 HN62 ATP sing 114 n n 
N1 C2 ATP sing 115 n y 
C2 N3 ATP doub 116 n y 
C2 H2 ATP sing 117 n n 
N3 C4 ATP sing 118 n y 
#
_atom_sites.entry_id                     3H39 
_atom_sites.fract_transf_matrix[1][1]    0.005374 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001033 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.015608 
_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]    0.006709 
_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 ATP A 1 501 501 ATP ATP . 
D 2 ATP B 1 502 502 ATP ATP . 
E 3 HOH A 1 442 1 HOH HOH . 
E 3 HOH A 2 443 2 HOH HOH . 
E 3 HOH A 3 444 3 HOH HOH . 
E 3 HOH A 4 445 4 HOH HOH . 
E 3 HOH A 5 446 5 HOH HOH . 
E 3 HOH A 6 447 6 HOH HOH . 
E 3 HOH A 7 448 7 HOH HOH . 
E 3 HOH A 8 449 8 HOH HOH . 
E 3 HOH A 9 450 9 HOH HOH . 
E 3 HOH A 10 451 10 HOH HOH . 
E 3 HOH A 11 452 11 HOH HOH . 
E 3 HOH A 12 453 12 HOH HOH . 
E 3 HOH A 13 454 13 HOH HOH . 
E 3 HOH A 14 455 14 HOH HOH . 
E 3 HOH A 15 456 17 HOH HOH . 
E 3 HOH A 16 457 18 HOH HOH . 
E 3 HOH A 17 458 19 HOH HOH . 
E 3 HOH A 18 459 20 HOH HOH . 
E 3 HOH A 19 460 21 HOH HOH . 
E 3 HOH A 20 461 24 HOH HOH . 
E 3 HOH A 21 462 25 HOH HOH . 
E 3 HOH A 22 463 26 HOH HOH . 
E 3 HOH A 23 464 27 HOH HOH . 
E 3 HOH A 24 465 28 HOH HOH . 
E 3 HOH A 25 466 29 HOH HOH . 
E 3 HOH A 26 467 35 HOH HOH . 
E 3 HOH A 27 468 36 HOH HOH . 
E 3 HOH A 28 469 37 HOH HOH . 
E 3 HOH A 29 470 38 HOH HOH . 
E 3 HOH A 30 471 39 HOH HOH . 
F 3 HOH B 1 442 15 HOH HOH . 
F 3 HOH B 2 443 16 HOH HOH . 
F 3 HOH B 3 444 22 HOH HOH . 
F 3 HOH B 4 445 23 HOH HOH . 
F 3 HOH B 5 446 30 HOH HOH . 
F 3 HOH B 6 447 31 HOH HOH . 
F 3 HOH B 7 448 32 HOH HOH . 
F 3 HOH B 8 449 33 HOH HOH . 
F 3 HOH B 9 450 34 HOH HOH . 
F 3 HOH B 10 451 40 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 ATP . . . D 2 10.652 9.585 116.581 1 123.88 ? PG ATP 502 B 1 
HETATM 2 O O1G ATP . . . D 2 9.803 10.68 115.982 1 112.22 ? O1G ATP 502 B 1 
HETATM 3 O O2G ATP . . . D 2 10.291 9.159 117.99 1 119.73 ? O2G ATP 502 B 1 
HETATM 4 O O3G ATP . . . D 2 12.138 9.801 116.389 1 130.79 ? O3G ATP 502 B 1 
HETATM 5 P PB ATP . . . D 2 11.298 7.68 114.578 1 99.48 ? PB ATP 502 B 1 
HETATM 6 O O1B ATP . . . D 2 10.493 7.222 113.396 1 98.09 ? O1B ATP 502 B 1 
HETATM 7 O O2B ATP . . . D 2 12.491 8.597 114.357 1 97.92 ? O2B ATP 502 B 1 
HETATM 8 O O3B ATP . . . D 2 10.281 8.302 115.674 1 67.84 ? O3B ATP 502 B 1 
HETATM 9 P PA ATP . . . D 2 12.8 6.19 116.486 1 88.87 ? PA ATP 502 B 1 
HETATM 10 O O1A ATP . . . D 2 13.842 7.285 116.315 1 84.72 ? O1A ATP 502 B 1 
HETATM 11 O O2A ATP . . . D 2 11.965 6.127 117.746 1 85.61 ? O2A ATP 502 B 1 
HETATM 12 O O3A ATP . . . D 2 11.765 6.294 115.254 1 134.58 ? O3A ATP 502 B 1 
HETATM 13 O O5' ATP . . . D 2 13.465 4.764 116.137 1 83.06 ? O5' ATP 502 B 1 
HETATM 14 C C5' ATP . . . D 2 14.064 4.577 114.85 1 88.61 ? C5' ATP 502 B 1 
HETATM 15 C C4' ATP . . . D 2 13.444 3.449 114.019 1 98.68 ? C4' ATP 502 B 1 
HETATM 16 O O4' ATP . . . D 2 13.778 2.15 114.525 1 106.59 ? O4' ATP 502 B 1 
HETATM 17 C C3' ATP . . . D 2 11.921 3.481 113.946 1 97.66 ? C3' ATP 502 B 1 
HETATM 18 O O3' ATP . . . D 2 11.445 4.364 112.926 1 97.58 ? O3' ATP 502 B 1 
HETATM 19 C C2' ATP . . . D 2 11.582 2.028 113.678 1 92.77 ? C2' ATP 502 B 1 
HETATM 20 O O2' ATP . . . D 2 11.794 1.692 112.302 1 72.73 ? O2' ATP 502 B 1 
HETATM 21 C C1' ATP . . . D 2 12.625 1.3 114.5 1 104.13 ? C1' ATP 502 B 1 
HETATM 22 N N9 ATP . . . D 2 12.143 1.208 115.894 1 108.09 ? N9 ATP 502 B 1 
HETATM 23 C C8 ATP . . . D 2 12.165 2.221 116.778 1 116.61 ? C8 ATP 502 B 1 
HETATM 24 N N7 ATP . . . D 2 11.666 1.842 117.979 1 121.2 ? N7 ATP 502 B 1 
HETATM 25 C C5 ATP . . . D 2 11.309 0.551 117.873 1 113.68 ? C5 ATP 502 B 1 
HETATM 26 C C6 ATP . . . D 2 10.713 -0.455 118.78 1 104.55 ? C6 ATP 502 B 1 
HETATM 27 N N6 ATP . . . D 2 10.393 -0.143 120.061 1 109.95 ? N6 ATP 502 B 1 
HETATM 28 N N1 ATP . . . D 2 10.507 -1.688 118.282 1 97.45 ? N1 ATP 502 B 1 
HETATM 29 C C2 ATP . . . D 2 10.822 -2 117.013 1 102.2 ? C2 ATP 502 B 1 
HETATM 30 N N3 ATP . . . D 2 11.36 -1.136 116.132 1 106.88 ? N3 ATP 502 B 1 
HETATM 31 C C4 ATP . . . D 2 11.625 0.137 116.496 1 109.42 ? C4 ATP 502 B 1 
#
_model_server_stats.io_time_ms              18 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           268 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           31 
#