data_9GM8
#
_model_server_result.job_id            oTBY1Xae7p9T1XSirG1dOw 
_model_server_result.datetime_utc      '2025-04-26 16:11:26' 
_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          9gm8 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"L","auth_seq_id":1502}' 
#
_entry.id    9GM8 
#
_exptl.entry_id    9GM8 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              507.181 
_entity.id                          6 
_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          90 
_cell.angle_gamma         90 
_cell.entry_id            9GM8 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 9GM8 
_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        ? 
_pdbx_struct_assembly.oligomeric_details    octameric 
_pdbx_struct_assembly.oligomeric_count      8 
_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,L 
_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
? 6 J N N 
? 6 L 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
covale ? covale1 D C ASP 36 G ASP 35 1_555 D N 4HH 37 G 4HH 36 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? 
covale ? covale2 D C 4HH 37 G 4HH 36 1_555 D N LEU 38 G LEU 37 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? 
covale ? covale3 E C ASP 36 I ASP 35 1_555 E N 4HH 37 I 4HH 36 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale4 E C 4HH 37 I 4HH 36 1_555 E N LEU 38 I LEU 37 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? 
metalc ? metalc1 F OG SER 41 A SER 41 1_555 I MG MG . A MG 1501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.298 ? 
metalc ? metalc2 I MG MG . A MG 1501 1_555 J O2G ATP . A ATP 1502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? 
metalc ? metalc3 I MG MG . A MG 1501 1_555 J O3G ATP . A ATP 1502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.459 ? 
metalc ? metalc4 I MG MG . A MG 1501 1_555 J O2B ATP . A ATP 1502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.194 ? 
metalc ? metalc5 I MG MG . A MG 1501 1_555 J O3B ATP . A ATP 1502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.906 ? 
metalc ? metalc6 G OG SER 41 B SER 41 1_555 K MG MG . B MG 1501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? 
metalc ? metalc7 K MG MG . B MG 1501 1_555 L O2G ATP . B ATP 1502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.908 ? 
metalc ? metalc8 K MG MG . B MG 1501 1_555 L O3B ATP . B ATP 1502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.624 ? 
metalc ? metalc9 K MG MG . B MG 1501 1_555 L O2B ATP . B ATP 1502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.004 ? 
metalc ? metalc10 K MG MG . B MG 1501 1_555 L O1A ATP . B ATP 1502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.312 ? 
#
_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 125 n n 
PG O2G ATP sing 126 n n 
PG O3G ATP sing 127 n n 
PG O3B ATP sing 128 n n 
O2G HOG2 ATP sing 129 n n 
O3G HOG3 ATP sing 130 n n 
PB O1B ATP doub 131 n n 
PB O2B ATP sing 132 n n 
PB O3B ATP sing 133 n n 
PB O3A ATP sing 134 n n 
O2B HOB2 ATP sing 135 n n 
PA O1A ATP doub 136 n n 
PA O2A ATP sing 137 n n 
PA O3A ATP sing 138 n n 
PA O5' ATP sing 139 n n 
O2A HOA2 ATP sing 140 n n 
O5' C5' ATP sing 141 n n 
C5' C4' ATP sing 142 n n 
C5' "H5'1" ATP sing 143 n n 
C5' "H5'2" ATP sing 144 n n 
C4' O4' ATP sing 145 n n 
C4' C3' ATP sing 146 n n 
C4' H4' ATP sing 147 n n 
O4' C1' ATP sing 148 n n 
C3' O3' ATP sing 149 n n 
C3' C2' ATP sing 150 n n 
C3' H3' ATP sing 151 n n 
O3' HO3' ATP sing 152 n n 
C2' O2' ATP sing 153 n n 
C2' C1' ATP sing 154 n n 
C2' H2' ATP sing 155 n n 
O2' HO2' ATP sing 156 n n 
C1' N9 ATP sing 157 n n 
C1' H1' ATP sing 158 n n 
N9 C8 ATP sing 159 n y 
N9 C4 ATP sing 160 n y 
C8 N7 ATP doub 161 n y 
C8 H8 ATP sing 162 n n 
N7 C5 ATP sing 163 n y 
C5 C6 ATP sing 164 n y 
C5 C4 ATP doub 165 n y 
C6 N6 ATP sing 166 n n 
C6 N1 ATP doub 167 n y 
N6 HN61 ATP sing 168 n n 
N6 HN62 ATP sing 169 n n 
N1 C2 ATP sing 170 n y 
C2 N3 ATP doub 171 n y 
C2 H2 ATP sing 172 n n 
N3 C4 ATP sing 173 n y 
#
_atom_sites.entry_id                     9GM8 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_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
I 5 MG A 1 1501 2011 MG MG . 
J 6 ATP A 1 1502 2101 ATP ATP . 
K 5 MG B 1 1501 2011 MG MG . 
L 6 ATP B 1 1502 2101 ATP ATP . 
#
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 . . . L 6 227.705 138.687 316.856 1 82.17 ? PG ATP 1502 B 1 
HETATM 2 O O1G ATP . . . L 6 226.328 138.383 316.372 1 82.17 ? O1G ATP 1502 B 1 
HETATM 3 O O2G ATP . . . L 6 228.265 140.012 316.326 1 82.17 ? O2G ATP 1502 B 1 
HETATM 4 O O3G ATP . . . L 6 228.707 137.561 316.595 1 82.17 ? O3G ATP 1502 B 1 
HETATM 5 P PB ATP . . . L 6 228.705 139.013 319.615 1 82.17 ? PB ATP 1502 B 1 
HETATM 6 O O1B ATP . . . L 6 228.84 137.757 320.368 1 82.17 ? O1B ATP 1502 B 1 
HETATM 7 O O2B ATP . . . L 6 229.996 139.594 319.042 1 82.17 ? O2B ATP 1502 B 1 
HETATM 8 O O3B ATP . . . L 6 227.695 138.862 318.426 1 82.17 ? O3B ATP 1502 B 1 
HETATM 9 P PA ATP . . . L 6 228.104 141.735 320.543 1 82.17 ? PA ATP 1502 B 1 
HETATM 10 O O1A ATP . . . L 6 228.09 142.303 319.18 1 82.17 ? O1A ATP 1502 B 1 
HETATM 11 O O2A ATP . . . L 6 229.348 142.052 321.359 1 82.17 ? O2A ATP 1502 B 1 
HETATM 12 O O3A ATP . . . L 6 228.012 140.167 320.462 1 82.17 ? O3A ATP 1502 B 1 
HETATM 13 O O5' ATP . . . L 6 226.844 142.127 321.405 1 82.17 ? O5' ATP 1502 B 1 
HETATM 14 C C5' ATP . . . L 6 226.702 141.674 322.768 1 82.17 ? C5' ATP 1502 B 1 
HETATM 15 C C4' ATP . . . L 6 225.356 142.079 323.302 1 82.17 ? C4' ATP 1502 B 1 
HETATM 16 O O4' ATP . . . L 6 225.428 143.493 323.586 1 82.17 ? O4' ATP 1502 B 1 
HETATM 17 C C3' ATP . . . L 6 224.276 141.936 322.236 1 82.17 ? C3' ATP 1502 B 1 
HETATM 18 O O3' ATP . . . L 6 223.056 141.754 322.936 1 82.17 ? O3' ATP 1502 B 1 
HETATM 19 C C2' ATP . . . L 6 224.182 143.339 321.642 1 82.17 ? C2' ATP 1502 B 1 
HETATM 20 O O2' ATP . . . L 6 222.801 143.527 321.378 1 82.17 ? O2' ATP 1502 B 1 
HETATM 21 C C1' ATP . . . L 6 224.425 144.187 322.88 1 82.17 ? C1' ATP 1502 B 1 
HETATM 22 N N9 ATP . . . L 6 224.989 145.482 322.534 1 82.17 ? N9 ATP 1502 B 1 
HETATM 23 C C8 ATP . . . L 6 226.127 145.72 321.811 1 82.17 ? C8 ATP 1502 B 1 
HETATM 24 N N7 ATP . . . L 6 226.399 146.992 321.644 1 82.17 ? N7 ATP 1502 B 1 
HETATM 25 C C5 ATP . . . L 6 225.369 147.637 322.306 1 82.17 ? C5 ATP 1502 B 1 
HETATM 26 C C6 ATP . . . L 6 225.071 148.997 322.503 1 82.17 ? C6 ATP 1502 B 1 
HETATM 27 N N6 ATP . . . L 6 225.82 149.999 322.038 1 82.17 ? N6 ATP 1502 B 1 
HETATM 28 N N1 ATP . . . L 6 223.963 149.303 323.213 1 82.17 ? N1 ATP 1502 B 1 
HETATM 29 C C2 ATP . . . L 6 223.207 148.311 323.687 1 82.17 ? C2 ATP 1502 B 1 
HETATM 30 N N3 ATP . . . L 6 223.388 146.993 323.563 1 82.17 ? N3 ATP 1502 B 1 
HETATM 31 C C4 ATP . . . L 6 224.49 146.719 322.859 1 82.17 ? C4 ATP 1502 B 1 
HETATM 32 H "H5'1" ATP . . . L 6 227.399 142.063 323.323 1 82.17 ? "H5'1" ATP 1502 B 1 
HETATM 33 H "H5'2" ATP . . . L 6 226.78 140.705 322.795 1 82.17 ? "H5'2" ATP 1502 B 1 
HETATM 34 H H4' ATP . . . L 6 225.132 141.564 324.096 1 82.17 ? H4' ATP 1502 B 1 
HETATM 35 H H3' ATP . . . L 6 224.462 141.248 321.577 1 82.17 ? H3' ATP 1502 B 1 
HETATM 36 H HO3' ATP . . . L 6 222.522 141.36 322.402 1 82.17 ? HO3' ATP 1502 B 1 
HETATM 37 H H2' ATP . . . L 6 224.77 143.517 320.89 1 82.17 ? H2' ATP 1502 B 1 
HETATM 38 H HO2' ATP . . . L 6 222.617 143.047 320.701 1 82.17 ? HO2' ATP 1502 B 1 
HETATM 39 H H1' ATP . . . L 6 223.61 144.292 323.4 1 82.17 ? H1' ATP 1502 B 1 
HETATM 40 H H8 ATP . . . L 6 226.662 145.042 321.463 1 82.17 ? H8 ATP 1502 B 1 
HETATM 41 H HN61 ATP . . . L 6 226.539 149.833 321.594 1 82.17 ? HN61 ATP 1502 B 1 
HETATM 42 H HN62 ATP . . . L 6 225.583 150.813 322.191 1 82.17 ? HN62 ATP 1502 B 1 
HETATM 43 H H2 ATP . . . L 6 222.457 148.573 324.166 1 82.17 ? H2 ATP 1502 B 1 
#
_model_server_stats.io_time_ms              22 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    103 
_model_server_stats.query_time_ms           273 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           43 
#