data_6VFS
#
_model_server_result.job_id            DsDFwX0LXS6k3efXatQeBg 
_model_server_result.datetime_utc      '2025-07-04 19:33:45' 
_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          6vfs 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"BA","auth_seq_id":501}' 
#
_entry.id    6VFS 
#
_exptl.entry_id    6VFS 
_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    4 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    21-meric 
_pdbx_struct_assembly.oligomeric_count      21 
_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,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA 
_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 V N N 
? 4 Z N N 
? 4 BA N N 
? 4 DA 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 126 E THR 126 1_555 W MG MG . E MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.102 ? 
metalc ? metalc2 A OD2 ASP 184 E ASP 184 1_555 W MG MG . E MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.731 ? 
metalc ? metalc3 V O3G ATP . E ATP 501 1_555 W MG MG . E MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.953 ? 
metalc ? metalc4 V O1B ATP . E ATP 501 1_555 W MG MG . E MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.239 ? 
metalc ? metalc5 D OG1 THR 126 C THR 126 1_555 AA MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.236 ? 
metalc ? metalc6 D OD2 ASP 184 C ASP 184 1_555 AA MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.808 ? 
metalc ? metalc7 Z O1G ATP . C ATP 501 1_555 AA MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.901 ? 
metalc ? metalc8 Z O1B ATP . C ATP 501 1_555 AA MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.327 ? 
metalc ? metalc9 E OG1 THR 126 B THR 126 1_555 CA MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? 
metalc ? metalc10 BA O3G ATP . B ATP 501 1_555 CA MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.174 ? 
metalc ? metalc11 BA O1B ATP . B ATP 501 1_555 CA MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.213 ? 
metalc ? metalc12 F OG1 THR 126 D THR 126 1_555 EA MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.64 ? 
metalc ? metalc13 DA O1G ATP . D ATP 501 1_555 EA MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.635 ? 
metalc ? metalc14 DA O3G ATP . D ATP 501 1_555 EA MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.815 ? 
metalc ? metalc15 DA O1B ATP . D ATP 501 1_555 EA MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.145 ? 
#
_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                     6VFS 
_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
V 4 ATP E 1 501 1 ATP ATP . 
W 5 MG E 1 502 1 MG MG . 
X 6 ADP A 1 501 1 ADP ADP . 
Y 6 ADP F 1 501 1 ADP ADP . 
Z 4 ATP C 1 501 1 ATP ATP . 
AA 5 MG C 1 502 3 MG MG . 
BA 4 ATP B 1 501 1 ATP ATP . 
CA 5 MG B 1 502 2 MG MG . 
DA 4 ATP D 1 501 1 ATP ATP . 
EA 5 MG D 1 502 4 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 . . . BA 4 171.292 132.053 92.268 1 50.51 ? PG ATP 501 B 1 
HETATM 2 O O1G ATP . . . BA 4 169.969 131.463 92.692 1 50.51 ? O1G ATP 501 B 1 
HETATM 3 O O2G ATP . . . BA 4 171.728 133.249 93.081 1 50.51 ? O2G ATP 501 B 1 
HETATM 4 O O3G ATP . . . BA 4 171.431 132.24 90.776 1 50.51 ? O3G ATP 501 B 1 
HETATM 5 P PB ATP . . . BA 4 172.332 129.493 91.857 1 50.51 ? PB ATP 501 B 1 
HETATM 6 O O1B ATP . . . BA 4 171.63 129.682 90.535 1 50.51 ? O1B ATP 501 B 1 
HETATM 7 O O2B ATP . . . BA 4 171.822 128.445 92.816 1 50.51 ? O2B ATP 501 B 1 
HETATM 8 O O3B ATP . . . BA 4 172.376 130.912 92.619 1 50.51 ? O3B ATP 501 B 1 
HETATM 9 P PA ATP . . . BA 4 174.25 128.016 90.503 1 50.51 ? PA ATP 501 B 1 
HETATM 10 O O1A ATP . . . BA 4 174.199 128.614 89.118 1 50.51 ? O1A ATP 501 B 1 
HETATM 11 O O2A ATP . . . BA 4 173.406 126.801 90.806 1 50.51 ? O2A ATP 501 B 1 
HETATM 12 O O3A ATP . . . BA 4 173.882 129.169 91.565 1 50.51 ? O3A ATP 501 B 1 
HETATM 13 O O5' ATP . . . BA 4 175.778 127.642 90.854 1 50.51 ? O5' ATP 501 B 1 
HETATM 14 C C5' ATP . . . BA 4 176.862 128.543 90.622 1 50.51 ? C5' ATP 501 B 1 
HETATM 15 C C4' ATP . . . BA 4 178.163 127.863 91.038 1 50.51 ? C4' ATP 501 B 1 
HETATM 16 O O4' ATP . . . BA 4 177.946 127.214 92.297 1 50.51 ? O4' ATP 501 B 1 
HETATM 17 C C3' ATP . . . BA 4 178.617 126.787 90.061 1 50.51 ? C3' ATP 501 B 1 
HETATM 18 O O3' ATP . . . BA 4 180.043 126.796 89.931 1 50.51 ? O3' ATP 501 B 1 
HETATM 19 C C2' ATP . . . BA 4 178.161 125.492 90.696 1 50.51 ? C2' ATP 501 B 1 
HETATM 20 O O2' ATP . . . BA 4 179.022 124.392 90.387 1 50.51 ? O2' ATP 501 B 1 
HETATM 21 C C1' ATP . . . BA 4 178.186 125.807 92.182 1 50.51 ? C1' ATP 501 B 1 
HETATM 22 N N9 ATP . . . BA 4 177.17 125.026 92.929 1 50.51 ? N9 ATP 501 B 1 
HETATM 23 C C8 ATP . . . BA 4 176.132 125.539 93.62 1 50.51 ? C8 ATP 501 B 1 
HETATM 24 N N7 ATP . . . BA 4 175.41 124.549 94.2 1 50.51 ? N7 ATP 501 B 1 
HETATM 25 C C5 ATP . . . BA 4 175.995 123.383 93.882 1 50.51 ? C5 ATP 501 B 1 
HETATM 26 C C6 ATP . . . BA 4 175.737 121.961 94.171 1 50.51 ? C6 ATP 501 B 1 
HETATM 27 N N6 ATP . . . BA 4 174.677 121.621 94.934 1 50.51 ? N6 ATP 501 B 1 
HETATM 28 N N1 ATP . . . BA 4 176.58 121.04 93.654 1 50.51 ? N1 ATP 501 B 1 
HETATM 29 C C2 ATP . . . BA 4 177.634 121.391 92.892 1 50.51 ? C2 ATP 501 B 1 
HETATM 30 N N3 ATP . . . BA 4 177.924 122.673 92.592 1 50.51 ? N3 ATP 501 B 1 
HETATM 31 C C4 ATP . . . BA 4 177.159 123.696 93.05 1 50.51 ? C4 ATP 501 B 1 
HETATM 32 H "H5'1" ATP . . . BA 4 176.903 128.833 89.57 1 50.51 ? "H5'1" ATP 501 B 1 
HETATM 33 H "H5'2" ATP . . . BA 4 176.712 129.444 91.22 1 50.51 ? "H5'2" ATP 501 B 1 
HETATM 34 H H4' ATP . . . BA 4 178.951 128.623 91.129 1 50.51 ? H4' ATP 501 B 1 
HETATM 35 H H3' ATP . . . BA 4 178.138 126.93 89.084 1 50.51 ? H3' ATP 501 B 1 
HETATM 36 H HO3' ATP . . . BA 4 180.322 126.091 89.33 1 50.51 ? HO3' ATP 501 B 1 
HETATM 37 H H2' ATP . . . BA 4 177.13 125.281 90.381 1 50.51 ? H2' ATP 501 B 1 
HETATM 38 H HO2' ATP . . . BA 4 178.97 124.197 89.442 1 50.51 ? HO2' ATP 501 B 1 
HETATM 39 H H1' ATP . . . BA 4 179.184 125.57 92.575 1 50.51 ? H1' ATP 501 B 1 
HETATM 40 H H8 ATP . . . BA 4 175.901 126.593 93.701 1 50.51 ? H8 ATP 501 B 1 
HETATM 41 H HN61 ATP . . . BA 4 174.075 122.339 95.301 1 50.51 ? HN61 ATP 501 B 1 
HETATM 42 H HN62 ATP . . . BA 4 174.487 120.657 95.133 1 50.51 ? HN62 ATP 501 B 1 
HETATM 43 H H2 ATP . . . BA 4 178.276 120.609 92.505 1 50.51 ? H2 ATP 501 B 1 
#
_model_server_stats.io_time_ms              36 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    100 
_model_server_stats.query_time_ms           312 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           43 
#