data_9EMA
#
_model_server_result.job_id            Fksyia6NpS045pycrsZcjA 
_model_server_result.datetime_utc      '2025-07-03 19:17:06' 
_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          9ema 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"R","auth_seq_id":802}' 
#
_entry.id    9EMA 
#
_exptl.entry_id    9EMA 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              507.181 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-TRIPHOSPHATE" 
_entity.pdbx_number_of_molecules    6 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_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,M,N,O,P,Q,R,S 
_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
? 3 G N N 
? 3 I N N 
? 3 K N N 
? 3 M N N 
? 3 O N N 
? 3 R 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 G O3G ATP . A ATP 501 1_555 Q MG MG . F MG 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.999 ? 
metalc ? metalc2 G O3B ATP . A ATP 501 1_555 Q MG MG . F MG 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.866 ? 
metalc ? metalc3 G O1A ATP . A ATP 501 1_555 Q MG MG . F MG 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? 
metalc ? metalc4 D OG1 THR 102 D THR 84 1_555 N MG MG . D MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.153 ? 
metalc ? metalc5 M O1G ATP . D ATP 801 1_555 N MG MG . D MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.193 ? 
metalc ? metalc6 M O2B ATP . D ATP 801 1_555 N MG MG . D MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.247 ? 
metalc ? metalc7 E OG1 THR 102 E THR 84 1_555 P MG MG . E MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.244 ? 
metalc ? metalc8 O O1G ATP . E ATP 801 1_555 P MG MG . E MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.159 ? 
metalc ? metalc9 O O2B ATP . E ATP 801 1_555 P MG MG . E MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? 
metalc ? metalc10 O O1A ATP . E ATP 801 1_555 P MG MG . E MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.939 ? 
metalc ? metalc11 F OG1 THR 102 F THR 84 1_555 S MG MG . F MG 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
metalc ? metalc12 F OE2 GLU 335 F GLU 317 1_555 Q MG MG . F MG 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.466 ? 
metalc ? metalc13 R O1G ATP . F ATP 802 1_555 S MG MG . F MG 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.49 ? 
metalc ? metalc14 R O2B ATP . F ATP 802 1_555 S MG MG . F MG 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? 
metalc ? metalc15 R O1A ATP . F ATP 802 1_555 S MG MG . F MG 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.859 ? 
#
_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 147 n n 
PG O2G ATP sing 148 n n 
PG O3G ATP sing 149 n n 
PG O3B ATP sing 150 n n 
O2G HOG2 ATP sing 151 n n 
O3G HOG3 ATP sing 152 n n 
PB O1B ATP doub 153 n n 
PB O2B ATP sing 154 n n 
PB O3B ATP sing 155 n n 
PB O3A ATP sing 156 n n 
O2B HOB2 ATP sing 157 n n 
PA O1A ATP doub 158 n n 
PA O2A ATP sing 159 n n 
PA O3A ATP sing 160 n n 
PA O5' ATP sing 161 n n 
O2A HOA2 ATP sing 162 n n 
O5' C5' ATP sing 163 n n 
C5' C4' ATP sing 164 n n 
C5' "H5'1" ATP sing 165 n n 
C5' "H5'2" ATP sing 166 n n 
C4' O4' ATP sing 167 n n 
C4' C3' ATP sing 168 n n 
C4' H4' ATP sing 169 n n 
O4' C1' ATP sing 170 n n 
C3' O3' ATP sing 171 n n 
C3' C2' ATP sing 172 n n 
C3' H3' ATP sing 173 n n 
O3' HO3' ATP sing 174 n n 
C2' O2' ATP sing 175 n n 
C2' C1' ATP sing 176 n n 
C2' H2' ATP sing 177 n n 
O2' HO2' ATP sing 178 n n 
C1' N9 ATP sing 179 n n 
C1' H1' ATP sing 180 n n 
N9 C8 ATP sing 181 n y 
N9 C4 ATP sing 182 n y 
C8 N7 ATP doub 183 n y 
C8 H8 ATP sing 184 n n 
N7 C5 ATP sing 185 n y 
C5 C6 ATP sing 186 n y 
C5 C4 ATP doub 187 n y 
C6 N6 ATP sing 188 n n 
C6 N1 ATP doub 189 n y 
N6 HN61 ATP sing 190 n n 
N6 HN62 ATP sing 191 n n 
N1 C2 ATP sing 192 n y 
C2 N3 ATP doub 193 n y 
C2 H2 ATP sing 194 n n 
N3 C4 ATP sing 195 n y 
#
_atom_sites.entry_id                     9EMA 
_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
G 3 ATP A 1 501 500 ATP ATP . 
H 4 A1H5V A 1 502 503 A1H5V CB6 . 
I 3 ATP B 1 500 500 ATP ATP . 
J 4 A1H5V B 1 501 501 A1H5V CB6 . 
K 3 ATP C 1 501 500 ATP ATP . 
L 4 A1H5V C 1 502 502 A1H5V CB6 . 
M 3 ATP D 1 801 500 ATP ATP . 
N 5 MG D 1 802 501 MG MG . 
O 3 ATP E 1 801 500 ATP ATP . 
P 5 MG E 1 802 501 MG MG . 
Q 5 MG F 1 801 501 MG MG . 
R 3 ATP F 1 802 500 ATP ATP . 
S 5 MG F 1 803 501 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 . . . R 3 115.176 95.089 102.62 1 42.05 ? PG ATP 802 F 1 
HETATM 2 O O1G ATP . . . R 3 115.331 95.593 104.011 1 26.11 ? O1G ATP 802 F 1 
HETATM 3 O O2G ATP . . . R 3 113.991 95.713 101.882 1 25.02 -1 O2G ATP 802 F 1 
HETATM 4 O O3G ATP . . . R 3 116.441 95.224 101.773 1 20.91 ? O3G ATP 802 F 1 
HETATM 5 P PB ATP . . . R 3 115.34 92.217 103.351 1 13.72 ? PB ATP 802 F 1 
HETATM 6 O O1B ATP . . . R 3 116.102 91.328 102.467 1 8.03 -1 O1B ATP 802 F 1 
HETATM 7 O O2B ATP . . . R 3 116.073 92.643 104.618 1 13.34 ? O2B ATP 802 F 1 
HETATM 8 O O3B ATP . . . R 3 114.866 93.531 102.628 1 7.65 ? O3B ATP 802 F 1 
HETATM 9 P PA ATP . . . R 3 113.26 91.211 105.165 1 23.49 ? PA ATP 802 F 1 
HETATM 10 O O1A ATP . . . R 3 113.426 92.283 106.166 1 23.2 -1 O1A ATP 802 F 1 
HETATM 11 O O2A ATP . . . R 3 113.826 89.856 105.549 1 0 ? O2A ATP 802 F 1 
HETATM 12 O O3A ATP . . . R 3 113.952 91.589 103.804 1 16.54 ? O3A ATP 802 F 1 
HETATM 13 O O5' ATP . . . R 3 111.728 91.089 104.802 1 27.95 ? O5' ATP 802 F 1 
HETATM 14 C C5' ATP . . . R 3 111.229 89.993 104.009 1 15.82 ? C5' ATP 802 F 1 
HETATM 15 C C4' ATP . . . R 3 110.075 89.264 104.662 1 16.13 ? C4' ATP 802 F 1 
HETATM 16 O O4' ATP . . . R 3 110.164 87.889 104.222 1 22.04 ? O4' ATP 802 F 1 
HETATM 17 C C3' ATP . . . R 3 110.19 89.16 106.181 1 13.67 ? C3' ATP 802 F 1 
HETATM 18 O O3' ATP . . . R 3 108.925 88.689 106.621 1 27.23 ? O3' ATP 802 F 1 
HETATM 19 C C2' ATP . . . R 3 111.136 87.977 106.345 1 16.03 ? C2' ATP 802 F 1 
HETATM 20 O O2' ATP . . . R 3 110.8 87.359 107.577 1 21.26 ? O2' ATP 802 F 1 
HETATM 21 C C1' ATP . . . R 3 110.591 87.041 105.272 1 10.81 ? C1' ATP 802 F 1 
HETATM 22 N N9 ATP . . . R 3 111.655 86.201 104.734 1 9.18 ? N9 ATP 802 F 1 
HETATM 23 C C8 ATP . . . R 3 112.634 86.559 103.845 1 13.24 ? C8 ATP 802 F 1 
HETATM 24 N N7 ATP . . . R 3 113.469 85.598 103.551 1 16.03 ? N7 ATP 802 F 1 
HETATM 25 C C5 ATP . . . R 3 113.013 84.526 104.298 1 12.37 ? C5 ATP 802 F 1 
HETATM 26 C C6 ATP . . . R 3 113.461 83.197 104.438 1 12.66 ? C6 ATP 802 F 1 
HETATM 27 N N6 ATP . . . R 3 114.52 82.697 103.795 1 9.7 ? N6 ATP 802 F 1 
HETATM 28 N N1 ATP . . . R 3 112.773 82.381 105.274 1 10.12 ? N1 ATP 802 F 1 
HETATM 29 C C2 ATP . . . R 3 111.713 82.868 105.921 1 9.49 ? C2 ATP 802 F 1 
HETATM 30 N N3 ATP . . . R 3 111.201 84.099 105.857 1 15.57 ? N3 ATP 802 F 1 
HETATM 31 C C4 ATP . . . R 3 111.9 84.885 105.037 1 9.31 ? C4 ATP 802 F 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           27 
_model_server_stats.create_model_time_ms    21 
_model_server_stats.query_time_ms           325 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           31 
#