data_6RDN
#
_model_server_result.job_id            pNvC5uQfK6gsA-MBmzq9eQ 
_model_server_result.datetime_utc      '2024-11-27 17:27:54' 
_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          6rdn 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"IA","auth_seq_id":1001}' 
#
_entry.id    6RDN 
#
_exptl.entry_id    6RDN 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              507.181 
_entity.id                          20 
_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            6RDN 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               1 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6RDN 
_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    31-meric 
_pdbx_struct_assembly.oligomeric_count      31 
_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,LA,MA,NA,OA,PA 
_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
? 20 GA N N 
? 20 IA N N 
? 20 KA 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 U NE2 HIS 248 M HIS 248 1_555 FA ZN ZN . M ZN 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.414 ? 
metalc ? metalc2 U NE2 HIS 252 M HIS 252 1_555 FA ZN ZN . M ZN 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.484 ? 
metalc ? metalc3 Z OG1 THR 232 T THR 232 1_555 HA MG MG . T MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.114 ? 
metalc ? metalc4 GA O1G ATP . T ATP 1001 1_555 HA MG MG . T MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.17 ? 
metalc ? metalc5 GA O3G ATP . T ATP 1001 1_555 HA MG MG . T MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.931 ? 
metalc ? metalc6 GA O2B ATP . T ATP 1001 1_555 HA MG MG . T MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.277 ? 
metalc ? metalc7 AA OG1 THR 232 U THR 232 1_555 JA MG MG . U MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.105 ? 
metalc ? metalc8 IA O1G ATP . U ATP 1001 1_555 JA MG MG . U MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.46 ? 
metalc ? metalc9 IA O3G ATP . U ATP 1001 1_555 JA MG MG . U MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.642 ? 
metalc ? metalc10 IA O2B ATP . U ATP 1001 1_555 JA MG MG . U MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? 
metalc ? metalc11 BA OG1 THR 232 V THR 232 1_555 LA MG MG . V MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? 
metalc ? metalc12 KA O3G ATP . V ATP 1001 1_555 LA MG MG . V MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.12 ? 
metalc ? metalc13 KA O2B ATP . V ATP 1001 1_555 LA MG MG . V MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.272 ? 
metalc ? metalc14 CA OG1 THR 190 X THR 190 1_555 NA MG MG . X MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.254 ? 
metalc ? metalc15 CA OE2 GLU 215 X GLU 215 1_555 NA MG MG . X MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.578 ? 
metalc ? metalc16 MA O2B ADP . X ADP 601 1_555 NA MG MG . X MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.41 ? 
metalc ? metalc17 DA OG1 THR 190 Y THR 190 1_555 PA MG MG . Y MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? 
metalc ? metalc18 DA OE2 GLU 215 Y GLU 215 1_555 PA MG MG . Y MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.497 ? 
metalc ? metalc19 OA O3B ADP . Y ADP 601 1_555 PA MG MG . Y MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.315 ? 
#
_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                     6RDN 
_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
FA 19 ZN M 1 600 600 ZN ZN . 
GA 20 ATP T 1 1001 1001 ATP ATP . 
HA 21 MG T 1 1002 1002 MG MG . 
IA 20 ATP U 1 1001 1001 ATP ATP . 
JA 21 MG U 1 1002 1002 MG MG . 
KA 20 ATP V 1 1001 1001 ATP ATP . 
LA 21 MG V 1 1002 1002 MG MG . 
MA 22 ADP X 1 601 1028 ADP ADP . 
NA 21 MG X 1 602 1029 MG MG . 
OA 22 ADP Y 1 601 1028 ADP ADP . 
PA 21 MG Y 1 602 1029 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 . . . IA 20 124.695 226.651 251.905 1 30.66 ? PG ATP 1001 U 1 
HETATM 2 O O1G ATP . . . IA 20 125.421 226.425 253.187 1 30.66 ? O1G ATP 1001 U 1 
HETATM 3 O O2G ATP . . . IA 20 124.352 228.078 251.667 1 30.66 ? O2G ATP 1001 U 1 
HETATM 4 O O3G ATP . . . IA 20 123.552 225.724 251.667 1 30.66 ? O3G ATP 1001 U 1 
HETATM 5 P PB ATP . . . IA 20 126.657 224.981 250.867 1 30.66 ? PB ATP 1001 U 1 
HETATM 6 O O1B ATP . . . IA 20 128.003 225.39 251.353 1 30.66 ? O1B ATP 1001 U 1 
HETATM 7 O O2B ATP . . . IA 20 125.85 224.003 251.643 1 30.66 ? O2B ATP 1001 U 1 
HETATM 8 O O3B ATP . . . IA 20 125.743 226.286 250.756 1 30.66 ? O3B ATP 1001 U 1 
HETATM 9 P PA ATP . . . IA 20 126.141 223.185 248.765 1 30.66 ? PA ATP 1001 U 1 
HETATM 10 O O1A ATP . . . IA 20 126.853 221.929 249.114 1 30.66 ? O1A ATP 1001 U 1 
HETATM 11 O O2A ATP . . . IA 20 124.684 223.276 249.075 1 30.66 ? O2A ATP 1001 U 1 
HETATM 12 O O3A ATP . . . IA 20 126.897 224.447 249.382 1 30.66 ? O3A ATP 1001 U 1 
HETATM 13 O O5' ATP . . . IA 20 126.361 223.402 247.209 1 30.66 ? O5' ATP 1001 U 1 
HETATM 14 C C5' ATP . . . IA 20 126.114 224.656 246.597 1 30.66 ? C5' ATP 1001 U 1 
HETATM 15 C C4' ATP . . . IA 20 125.744 224.386 245.151 1 30.66 ? C4' ATP 1001 U 1 
HETATM 16 O O4' ATP . . . IA 20 126.894 223.979 244.43 1 30.66 ? O4' ATP 1001 U 1 
HETATM 17 C C3' ATP . . . IA 20 124.736 223.268 245.054 1 30.66 ? C3' ATP 1001 U 1 
HETATM 18 O O3' ATP . . . IA 20 123.616 223.744 244.317 1 30.66 ? O3' ATP 1001 U 1 
HETATM 19 C C2' ATP . . . IA 20 125.421 222.159 244.297 1 30.66 ? C2' ATP 1001 U 1 
HETATM 20 O O2' ATP . . . IA 20 124.585 221.693 243.248 1 30.66 ? O2' ATP 1001 U 1 
HETATM 21 C C1' ATP . . . IA 20 126.686 222.76 243.739 1 30.66 ? C1' ATP 1001 U 1 
HETATM 22 N N9 ATP . . . IA 20 127.818 221.867 244.046 1 30.66 ? N9 ATP 1001 U 1 
HETATM 23 C C8 ATP . . . IA 20 128.275 221.62 245.275 1 30.66 ? C8 ATP 1001 U 1 
HETATM 24 N N7 ATP . . . IA 20 129.313 220.767 245.251 1 30.66 ? N7 ATP 1001 U 1 
HETATM 25 C C5 ATP . . . IA 20 129.529 220.451 243.972 1 30.66 ? C5 ATP 1001 U 1 
HETATM 26 C C6 ATP . . . IA 20 130.481 219.595 243.254 1 30.66 ? C6 ATP 1001 U 1 
HETATM 27 N N6 ATP . . . IA 20 131.42 218.9 243.927 1 30.66 ? N6 ATP 1001 U 1 
HETATM 28 N N1 ATP . . . IA 20 130.386 219.536 241.921 1 30.66 ? N1 ATP 1001 U 1 
HETATM 29 C C2 ATP . . . IA 20 129.46 220.224 241.255 1 30.66 ? C2 ATP 1001 U 1 
HETATM 30 N N3 ATP . . . IA 20 128.563 221.024 241.841 1 30.66 ? N3 ATP 1001 U 1 
HETATM 31 C C4 ATP . . . IA 20 128.545 221.175 243.178 1 30.66 ? C4 ATP 1001 U 1 
#
_model_server_stats.io_time_ms              20 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    61 
_model_server_stats.query_time_ms           235 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           31 
#