data_7Y5A
#
_model_server_result.job_id            0sZqBxBDcCbgo8301yrb1w 
_model_server_result.datetime_utc      '2024-11-14 19:00:58' 
_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          7y5a 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":600}' 
#
_entry.id    7Y5A 
#
_exptl.entry_id    7Y5A 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              507.181 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-TRIPHOSPHATE" 
_entity.pdbx_number_of_molecules    3 
_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            7Y5A 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7Y5A 
_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    heptameric 
_pdbx_struct_assembly.oligomeric_count      7 
_pdbx_struct_assembly.details               author_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,M,N,O,P,Q 
_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    ? 
_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
? 4 H N N 
? 4 J N N 
? 4 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
metalc ? metalc1 H O2G ATP . A ATP 600 1_555 I MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.374 ? 
metalc ? metalc2 H O2B ATP . A ATP 600 1_555 I MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.986 ? 
metalc ? metalc3 H O3B ATP . A ATP 600 1_555 I MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.475 ? 
metalc ? metalc4 H O1A ATP . A ATP 600 1_555 I MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.087 ? 
metalc ? metalc5 H O3A ATP . A ATP 600 1_555 I MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.327 ? 
metalc ? metalc6 J O1G ATP . B ATP 600 1_555 K MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? 
metalc ? metalc7 J O2G ATP . B ATP 600 1_555 K MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.617 ? 
metalc ? metalc8 J O2B ATP . B ATP 600 1_555 K MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? 
metalc ? metalc9 J O3B ATP . B ATP 600 1_555 K MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.336 ? 
metalc ? metalc10 J O1A ATP . B ATP 600 1_555 K MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? 
metalc ? metalc11 J O3A ATP . B ATP 600 1_555 K MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.499 ? 
metalc ? metalc12 L O1G ATP . C ATP 600 1_555 M MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.594 ? 
metalc ? metalc13 L O2G ATP . C ATP 600 1_555 M MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.152 ? 
metalc ? metalc14 L O2B ATP . C ATP 600 1_555 M MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? 
metalc ? metalc15 L O3B ATP . C ATP 600 1_555 M MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? 
metalc ? metalc16 L O1A ATP . C ATP 600 1_555 M MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.188 ? 
metalc ? metalc17 L O2A ATP . C ATP 600 1_555 M MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.934 ? 
metalc ? metalc18 L O3A ATP . C ATP 600 1_555 M MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.252 ? 
metalc ? metalc19 D OG1 THR 173 D THR 167 1_555 O MG MG . D MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.843 ? 
metalc ? metalc20 N O1B ADP . D ADP 600 1_555 O MG MG . D MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.174 ? 
metalc ? metalc21 N O3B ADP . D ADP 600 1_555 O MG MG . D MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.102 ? 
metalc ? metalc22 N O1A ADP . D ADP 600 1_555 O MG MG . D MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.501 ? 
metalc ? metalc23 N O2A ADP . D ADP 600 1_555 O MG MG . D MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? 
metalc ? metalc24 N O3A ADP . D ADP 600 1_555 O MG MG . D MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.793 ? 
metalc ? metalc25 P O1B ADP . F ADP 600 1_555 Q MG MG . F MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.22 ? 
metalc ? metalc26 P O3B ADP . F ADP 600 1_555 Q MG MG . F MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.074 ? 
metalc ? metalc27 P O1A ADP . F ADP 600 1_555 Q MG MG . F MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.355 ? 
metalc ? metalc28 P O2A ADP . F ADP 600 1_555 Q MG MG . F MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.304 ? 
metalc ? metalc29 P O3A ADP . F ADP 600 1_555 Q MG MG . F MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.745 ? 
#
_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 114 n n 
PG O2G ATP sing 115 n n 
PG O3G ATP sing 116 n n 
PG O3B ATP sing 117 n n 
O2G HOG2 ATP sing 118 n n 
O3G HOG3 ATP sing 119 n n 
PB O1B ATP doub 120 n n 
PB O2B ATP sing 121 n n 
PB O3B ATP sing 122 n n 
PB O3A ATP sing 123 n n 
O2B HOB2 ATP sing 124 n n 
PA O1A ATP doub 125 n n 
PA O2A ATP sing 126 n n 
PA O3A ATP sing 127 n n 
PA O5' ATP sing 128 n n 
O2A HOA2 ATP sing 129 n n 
O5' C5' ATP sing 130 n n 
C5' C4' ATP sing 131 n n 
C5' "H5'1" ATP sing 132 n n 
C5' "H5'2" ATP sing 133 n n 
C4' O4' ATP sing 134 n n 
C4' C3' ATP sing 135 n n 
C4' H4' ATP sing 136 n n 
O4' C1' ATP sing 137 n n 
C3' O3' ATP sing 138 n n 
C3' C2' ATP sing 139 n n 
C3' H3' ATP sing 140 n n 
O3' HO3' ATP sing 141 n n 
C2' O2' ATP sing 142 n n 
C2' C1' ATP sing 143 n n 
C2' H2' ATP sing 144 n n 
O2' HO2' ATP sing 145 n n 
C1' N9 ATP sing 146 n n 
C1' H1' ATP sing 147 n n 
N9 C8 ATP sing 148 n y 
N9 C4 ATP sing 149 n y 
C8 N7 ATP doub 150 n y 
C8 H8 ATP sing 151 n n 
N7 C5 ATP sing 152 n y 
C5 C6 ATP sing 153 n y 
C5 C4 ATP doub 154 n y 
C6 N6 ATP sing 155 n n 
C6 N1 ATP doub 156 n y 
N6 HN61 ATP sing 157 n n 
N6 HN62 ATP sing 158 n n 
N1 C2 ATP sing 159 n y 
C2 N3 ATP doub 160 n y 
C2 H2 ATP sing 161 n n 
N3 C4 ATP sing 162 n y 
#
_atom_sites.entry_id                     7Y5A 
_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
H 4 ATP A 1 600 600 ATP ATP . 
I 5 MG A 1 601 601 MG MG . 
J 4 ATP B 1 600 600 ATP ATP . 
K 5 MG B 1 601 601 MG MG . 
L 4 ATP C 1 600 600 ATP ATP . 
M 5 MG C 1 601 601 MG MG . 
N 6 ADP D 1 600 600 ADP ADP . 
O 5 MG D 1 601 601 MG MG . 
P 6 ADP F 1 600 600 ADP ADP . 
Q 5 MG F 1 601 601 MG MG . 
#
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 . . . J 4 158.368 155.631 137.981 1 125.45 ? PG ATP 600 B 1 
HETATM 2 O O1G ATP . . . J 4 157.105 156.247 137.486 1 125.45 ? O1G ATP 600 B 1 
HETATM 3 O O2G ATP . . . J 4 159.252 155.071 136.87 1 125.45 ? O2G ATP 600 B 1 
HETATM 4 O O3G ATP . . . J 4 159.199 156.559 138.867 1 125.45 ? O3G ATP 600 B 1 
HETATM 5 P PB ATP . . . J 4 156.909 153.301 139.136 1 125.45 ? PB ATP 600 B 1 
HETATM 6 O O1B ATP . . . J 4 156.86 152.822 140.53 1 125.45 ? O1B ATP 600 B 1 
HETATM 7 O O2B ATP . . . J 4 155.616 153.902 138.594 1 125.45 ? O2B ATP 600 B 1 
HETATM 8 O O3B ATP . . . J 4 158.05 154.375 138.907 1 125.45 ? O3B ATP 600 B 1 
HETATM 9 P PA ATP . . . J 4 157.098 151.808 136.6 1 125.45 ? PA ATP 600 B 1 
HETATM 10 O O1A ATP . . . J 4 157.545 152.909 135.724 1 125.45 ? O1A ATP 600 B 1 
HETATM 11 O O2A ATP . . . J 4 155.628 151.424 136.458 1 125.45 ? O2A ATP 600 B 1 
HETATM 12 O O3A ATP . . . J 4 157.341 152.151 138.125 1 125.45 ? O3A ATP 600 B 1 
HETATM 13 O O5' ATP . . . J 4 157.971 150.51 136.395 1 125.45 ? O5' ATP 600 B 1 
HETATM 14 C C5' ATP . . . J 4 158.261 149.623 137.495 1 125.45 ? C5' ATP 600 B 1 
HETATM 15 C C4' ATP . . . J 4 159.062 148.456 136.976 1 125.45 ? C4' ATP 600 B 1 
HETATM 16 O O4' ATP . . . J 4 158.463 147.222 137.43 1 125.45 ? O4' ATP 600 B 1 
HETATM 17 C C3' ATP . . . J 4 159.128 148.343 135.457 1 125.45 ? C3' ATP 600 B 1 
HETATM 18 O O3' ATP . . . J 4 160.346 147.733 135.046 1 125.45 ? O3' ATP 600 B 1 
HETATM 19 C C2' ATP . . . J 4 157.92 147.462 135.142 1 125.45 ? C2' ATP 600 B 1 
HETATM 20 O O2' ATP . . . J 4 158.09 146.749 133.923 1 125.45 ? O2' ATP 600 B 1 
HETATM 21 C C1' ATP . . . J 4 157.937 146.499 136.33 1 125.45 ? C1' ATP 600 B 1 
HETATM 22 N N9 ATP . . . J 4 156.623 145.99 136.702 1 125.45 ? N9 ATP 600 B 1 
HETATM 23 C C8 ATP . . . J 4 155.557 146.712 137.169 1 125.45 ? C8 ATP 600 B 1 
HETATM 24 N N7 ATP . . . J 4 154.493 145.991 137.426 1 125.45 ? N7 ATP 600 B 1 
HETATM 25 C C5 ATP . . . J 4 154.887 144.701 137.104 1 125.45 ? C5 ATP 600 B 1 
HETATM 26 C C6 ATP . . . J 4 154.217 143.463 137.152 1 125.45 ? C6 ATP 600 B 1 
HETATM 27 N N6 ATP . . . J 4 152.953 143.316 137.559 1 125.45 ? N6 ATP 600 B 1 
HETATM 28 N N1 ATP . . . J 4 154.899 142.365 136.76 1 125.45 ? N1 ATP 600 B 1 
HETATM 29 C C2 ATP . . . J 4 156.162 142.504 136.35 1 125.45 ? C2 ATP 600 B 1 
HETATM 30 N N3 ATP . . . J 4 156.895 143.616 136.264 1 125.45 ? N3 ATP 600 B 1 
HETATM 31 C C4 ATP . . . J 4 156.197 144.686 136.656 1 125.45 ? C4 ATP 600 B 1 
#
_model_server_stats.io_time_ms              15 
_model_server_stats.parse_time_ms           15 
_model_server_stats.create_model_time_ms    53 
_model_server_stats.query_time_ms           353 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           31 
#