data_6TDY
#
_model_server_result.job_id            TZs2FEj0lRcxOnGnq7salA 
_model_server_result.datetime_utc      '2024-12-26 10:04:49' 
_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          6tdy 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"CA","auth_seq_id":601}' 
#
_entry.id    6TDY 
#
_exptl.entry_id    6TDY 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              507.181 
_entity.id                          12 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-TRIPHOSPHATE" 
_entity.pdbx_number_of_molecules    4 
_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            6TDY 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6TDY 
_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        PISA 
_pdbx_struct_assembly.oligomeric_details    26-meric 
_pdbx_struct_assembly.oligomeric_count      26 
_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,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA 
_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
? 12 AA N N 
? 12 CA N N 
? 12 EA N N 
? 12 JA 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 A OG1 THR 190 A THR 191 1_555 BA MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? 
metalc ? metalc2 AA O3G ATP . A ATP 601 1_555 BA MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.155 ? 
metalc ? metalc3 AA O2B ATP . A ATP 601 1_555 BA MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.966 ? 
metalc ? metalc4 B OG1 THR 190 B THR 191 1_555 DA MG MG . B MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
metalc ? metalc5 CA O3G ATP . B ATP 601 1_555 DA MG MG . B MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.005 ? 
metalc ? metalc6 CA O2B ATP . B ATP 601 1_555 DA MG MG . B MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.964 ? 
metalc ? metalc7 C OG1 THR 190 C THR 191 1_555 FA MG MG . C MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? 
metalc ? metalc8 EA O1G ATP . C ATP 601 1_555 FA MG MG . C MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.13 ? 
metalc ? metalc9 EA O2B ATP . C ATP 601 1_555 FA MG MG . C MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.876 ? 
metalc ? metalc10 D OG1 THR 167 D THR 174 1_555 HA MG MG . D MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? 
metalc ? metalc11 GA O3B ADP . D ADP 601 1_555 HA MG MG . D MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.09 ? 
metalc ? metalc12 F OG1 THR 167 F THR 174 1_555 KA MG MG . F MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? 
metalc ? metalc13 JA O3G ATP . F ATP 601 1_555 KA MG MG . F MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.155 ? 
metalc ? metalc14 JA O2B ATP . F ATP 601 1_555 KA MG MG . F MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.941 ? 
#
_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                     6TDY 
_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
AA 12 ATP A 1 601 2 ATP ATP . 
BA 13 MG A 1 602 1 MG MG . 
CA 12 ATP B 1 601 3 ATP ATP . 
DA 13 MG B 1 602 2 MG MG . 
EA 12 ATP C 1 601 1 ATP ATP . 
FA 13 MG C 1 602 5 MG MG . 
GA 14 ADP D 1 601 5 ADP ADP . 
HA 13 MG D 1 602 4 MG MG . 
IA 15 TRT E 1 600 600 TRT TRT . 
JA 12 ATP F 1 601 4 ATP ATP . 
KA 13 MG F 1 602 3 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 . . . CA 12 354.467 196.678 292.651 1 39.05 ? PG ATP 601 B 1 
HETATM 2 O O1G ATP . . . CA 12 353.148 196.888 293.341 1 39.05 ? O1G ATP 601 B 1 
HETATM 3 O O2G ATP . . . CA 12 354.75 195.262 292.233 1 39.05 ? O2G ATP 601 B 1 
HETATM 4 O O3G ATP . . . CA 12 355.636 197.383 293.284 1 39.05 ? O3G ATP 601 B 1 
HETATM 5 P PB ATP . . . CA 12 355.546 198.088 290.536 1 39.05 ? PB ATP 601 B 1 
HETATM 6 O O1B ATP . . . CA 12 355.142 199.432 289.997 1 39.05 ? O1B ATP 601 B 1 
HETATM 7 O O2B ATP . . . CA 12 356.741 197.934 291.445 1 39.05 ? O2B ATP 601 B 1 
HETATM 8 O O3B ATP . . . CA 12 354.274 197.437 291.256 1 39.05 ? O3B ATP 601 B 1 
HETATM 9 P PA ATP . . . CA 12 357.038 196.693 288.587 1 39.05 ? PA ATP 601 B 1 
HETATM 10 O O1A ATP . . . CA 12 357.786 195.744 289.486 1 39.05 ? O1A ATP 601 B 1 
HETATM 11 O O2A ATP . . . CA 12 357.72 197.919 288.047 1 39.05 ? O2A ATP 601 B 1 
HETATM 12 O O3A ATP . . . CA 12 355.654 197.094 289.287 1 39.05 ? O3A ATP 601 B 1 
HETATM 13 O O5' ATP . . . CA 12 356.487 195.844 287.353 1 39.05 ? O5' ATP 601 B 1 
HETATM 14 C C5' ATP . . . CA 12 355.611 194.769 287.64 1 39.05 ? C5' ATP 601 B 1 
HETATM 15 C C4' ATP . . . CA 12 355.411 193.894 286.416 1 39.05 ? C4' ATP 601 B 1 
HETATM 16 O O4' ATP . . . CA 12 355.145 194.725 285.287 1 39.05 ? O4' ATP 601 B 1 
HETATM 17 C C3' ATP . . . CA 12 356.645 193.07 286.087 1 39.05 ? C3' ATP 601 B 1 
HETATM 18 O O3' ATP . . . CA 12 356.255 191.787 285.605 1 39.05 ? O3' ATP 601 B 1 
HETATM 19 C C2' ATP . . . CA 12 357.32 193.895 285.018 1 39.05 ? C2' ATP 601 B 1 
HETATM 20 O O2' ATP . . . CA 12 358.187 193.176 284.137 1 39.05 ? O2' ATP 601 B 1 
HETATM 21 C C1' ATP . . . CA 12 356.13 194.473 284.289 1 39.05 ? C1' ATP 601 B 1 
HETATM 22 N N9 ATP . . . CA 12 356.538 195.702 283.594 1 39.05 ? N9 ATP 601 B 1 
HETATM 23 C C8 ATP . . . CA 12 356.743 196.9 284.164 1 39.05 ? C8 ATP 601 B 1 
HETATM 24 N N7 ATP . . . CA 12 357.121 197.807 283.239 1 39.05 ? N7 ATP 601 B 1 
HETATM 25 C C5 ATP . . . CA 12 357.159 197.17 282.064 1 39.05 ? C5 ATP 601 B 1 
HETATM 26 C C6 ATP . . . CA 12 357.488 197.546 280.688 1 39.05 ? C6 ATP 601 B 1 
HETATM 27 N N6 ATP . . . CA 12 357.835 198.82 280.449 1 39.05 ? N6 ATP 601 B 1 
HETATM 28 N N1 ATP . . . CA 12 357.406 196.605 279.73 1 39.05 ? N1 ATP 601 B 1 
HETATM 29 C C2 ATP . . . CA 12 357.046 195.344 280.018 1 39.05 ? C2 ATP 601 B 1 
HETATM 30 N N3 ATP . . . CA 12 356.743 194.931 281.257 1 39.05 ? N3 ATP 601 B 1 
HETATM 31 C C4 ATP . . . CA 12 356.783 195.785 282.299 1 39.05 ? C4 ATP 601 B 1 
HETATM 32 H "H5'1" ATP . . . CA 12 354.652 195.169 287.959 1 39.05 ? "H5'1" ATP 601 B 1 
HETATM 33 H "H5'2" ATP . . . CA 12 356.021 194.18 288.46 1 39.05 ? "H5'2" ATP 601 B 1 
HETATM 34 H H4' ATP . . . CA 12 354.563 193.223 286.589 1 39.05 ? H4' ATP 601 B 1 
HETATM 35 H H3' ATP . . . CA 12 357.293 192.982 286.967 1 39.05 ? H3' ATP 601 B 1 
HETATM 36 H HO3' ATP . . . CA 12 357.039 191.267 285.397 1 39.05 ? HO3' ATP 601 B 1 
HETATM 37 H H2' ATP . . . CA 12 357.877 194.698 285.509 1 39.05 ? H2' ATP 601 B 1 
HETATM 38 H HO2' ATP . . . CA 12 358.911 192.783 284.639 1 39.05 ? HO2' ATP 601 B 1 
HETATM 39 H H1' ATP . . . CA 12 355.769 193.735 283.57 1 39.05 ? H1' ATP 601 B 1 
HETATM 40 H H8 ATP . . . CA 12 356.625 197.113 285.217 1 39.05 ? H8 ATP 601 B 1 
HETATM 41 H HN61 ATP . . . CA 12 357.871 199.476 281.21 1 39.05 ? HN61 ATP 601 B 1 
HETATM 42 H HN62 ATP . . . CA 12 358.057 199.119 279.523 1 39.05 ? HN62 ATP 601 B 1 
HETATM 43 H H2 ATP . . . CA 12 357.004 194.623 279.215 1 39.05 ? H2 ATP 601 B 1 
#
_model_server_stats.io_time_ms              29 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    110 
_model_server_stats.query_time_ms           305 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           43 
#