data_7WD3
#
_model_server_result.job_id            W8jAocG5VxWb1I-vs9WR6g 
_model_server_result.datetime_utc      '2024-10-10 04:23:19' 
_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          7wd3 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"Q","auth_seq_id":803}' 
#
_entry.id    7WD3 
#
_exptl.entry_id    7WD3 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              507.181 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "ADENOSINE-5'-TRIPHOSPHATE" 
_entity.pdbx_number_of_molecules    12 
_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            7WD3 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7WD3 
_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    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_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 
_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
? 2 G N N 
? 2 I N N 
? 2 K N N 
? 2 M N N 
? 2 O N N 
? 2 Q N N 
? 2 S N N 
? 2 U N N 
? 2 W N N 
? 2 X N N 
? 2 AA N N 
? 2 CA 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
covale ? covale1 G C2' ATP . A ATP 801 1_555 H O1 NDT . A NDT 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? 
covale ? covale2 I C2' ATP . A ATP 803 1_555 J O1 NDT . A NDT 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? 
covale ? covale3 K C2' ATP . B ATP 801 1_555 L O1 NDT . B NDT 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? 
covale ? covale4 M C2' ATP . B ATP 803 1_555 N O1 NDT . B NDT 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? 
covale ? covale5 O C2' ATP . C ATP 801 1_555 P O1 NDT . C NDT 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? 
covale ? covale6 Q C2' ATP . C ATP 803 1_555 R O1 NDT . C NDT 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? 
covale ? covale7 S C2' ATP . D ATP 801 1_555 T O1 NDT . D NDT 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? 
covale ? covale8 U C2' ATP . D ATP 803 1_555 V O1 NDT . E NDT 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? 
covale ? covale9 W C2' ATP . E ATP 802 1_555 Y O1 NDT . F NDT 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? 
covale ? covale10 X C2' ATP . E ATP 803 1_555 Z O1 NDT . F NDT 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? 
covale ? covale11 AA C2' ATP . F ATP 803 1_555 BA O1 NDT . F NDT 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? 
covale ? covale12 CA C2' ATP . F ATP 805 1_555 DA O1 NDT . F NDT 806 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? 
#
_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 70 n n 
PG O2G ATP sing 71 n n 
PG O3G ATP sing 72 n n 
PG O3B ATP sing 73 n n 
O2G HOG2 ATP sing 74 n n 
O3G HOG3 ATP sing 75 n n 
PB O1B ATP doub 76 n n 
PB O2B ATP sing 77 n n 
PB O3B ATP sing 78 n n 
PB O3A ATP sing 79 n n 
O2B HOB2 ATP sing 80 n n 
PA O1A ATP doub 81 n n 
PA O2A ATP sing 82 n n 
PA O3A ATP sing 83 n n 
PA O5' ATP sing 84 n n 
O2A HOA2 ATP sing 85 n n 
O5' C5' ATP sing 86 n n 
C5' C4' ATP sing 87 n n 
C5' "H5'1" ATP sing 88 n n 
C5' "H5'2" ATP sing 89 n n 
C4' O4' ATP sing 90 n n 
C4' C3' ATP sing 91 n n 
C4' H4' ATP sing 92 n n 
O4' C1' ATP sing 93 n n 
C3' O3' ATP sing 94 n n 
C3' C2' ATP sing 95 n n 
C3' H3' ATP sing 96 n n 
O3' HO3' ATP sing 97 n n 
C2' O2' ATP sing 98 n n 
C2' C1' ATP sing 99 n n 
C2' H2' ATP sing 100 n n 
O2' HO2' ATP sing 101 n n 
C1' N9 ATP sing 102 n n 
C1' H1' ATP sing 103 n n 
N9 C8 ATP sing 104 n y 
N9 C4 ATP sing 105 n y 
C8 N7 ATP doub 106 n y 
C8 H8 ATP sing 107 n n 
N7 C5 ATP sing 108 n y 
C5 C6 ATP sing 109 n y 
C5 C4 ATP doub 110 n y 
C6 N6 ATP sing 111 n n 
C6 N1 ATP doub 112 n y 
N6 HN61 ATP sing 113 n n 
N6 HN62 ATP sing 114 n n 
N1 C2 ATP sing 115 n y 
C2 N3 ATP doub 116 n y 
C2 H2 ATP sing 117 n n 
N3 C4 ATP sing 118 n y 
#
_atom_sites.entry_id                     7WD3 
_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 2 ATP A 1 801 801 ATP LIG . 
H 3 NDT A 1 802 801 NDT LIG . 
I 2 ATP A 1 803 802 ATP LIG . 
J 3 NDT A 1 804 802 NDT LIG . 
K 2 ATP B 1 801 801 ATP LIG . 
L 3 NDT B 1 802 801 NDT LIG . 
M 2 ATP B 1 803 802 ATP LIG . 
N 3 NDT B 1 804 802 NDT LIG . 
O 2 ATP C 1 801 801 ATP LIG . 
P 3 NDT C 1 802 801 NDT LIG . 
Q 2 ATP C 1 803 802 ATP LIG . 
R 3 NDT C 1 804 802 NDT LIG . 
S 2 ATP D 1 801 801 ATP LIG . 
T 3 NDT D 1 802 801 NDT LIG . 
U 2 ATP D 1 803 802 ATP LIG . 
V 3 NDT E 1 801 802 NDT LIG . 
W 2 ATP E 1 802 801 ATP LIG . 
X 2 ATP E 1 803 802 ATP LIG . 
Y 3 NDT F 1 801 801 NDT LIG . 
Z 3 NDT F 1 802 802 NDT LIG . 
AA 2 ATP F 1 803 801 ATP LIG . 
BA 3 NDT F 1 804 801 NDT LIG . 
CA 2 ATP F 1 805 802 ATP LIG . 
DA 3 NDT F 1 806 802 NDT LIG . 
#
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 . . . Q 2 100.694 109.833 160.011 1 208.49 ? PG ATP 803 C 1 
HETATM 2 O O1G ATP . . . Q 2 101.307 109.562 161.441 1 208.49 ? O1G ATP 803 C 1 
HETATM 3 O O2G ATP . . . Q 2 100.952 111.056 159.314 1 208.49 ? O2G ATP 803 C 1 
HETATM 4 O O3G ATP . . . Q 2 99.484 110.004 161.036 1 208.49 ? O3G ATP 803 C 1 
HETATM 5 P PB ATP . . . Q 2 99.528 107.275 159.451 1 208.49 ? PB ATP 803 C 1 
HETATM 6 O O1B ATP . . . Q 2 99.825 107.211 160.871 1 208.49 ? O1B ATP 803 C 1 
HETATM 7 O O2B ATP . . . Q 2 98.03 107.636 158.938 1 208.49 ? O2B ATP 803 C 1 
HETATM 8 O O3B ATP . . . Q 2 100.635 108.42 159.235 1 208.49 ? O3B ATP 803 C 1 
HETATM 9 P PA ATP . . . Q 2 98.677 104.569 159.084 1 208.49 ? PA ATP 803 C 1 
HETATM 10 O O1A ATP . . . Q 2 99.973 103.76 158.437 1 208.49 ? O1A ATP 803 C 1 
HETATM 11 O O2A ATP . . . Q 2 97.439 104.306 158.389 1 208.49 ? O2A ATP 803 C 1 
HETATM 12 O O3A ATP . . . Q 2 99.47 105.912 158.618 1 208.49 ? O3A ATP 803 C 1 
HETATM 13 O O5' ATP . . . Q 2 98.47 104.324 160.677 1 208.49 ? O5' ATP 803 C 1 
HETATM 14 C C5' ATP . . . Q 2 97.326 103.543 161.1 1 208.49 ? C5' ATP 803 C 1 
HETATM 15 C C4' ATP . . . Q 2 97.396 101.988 161.008 1 208.49 ? C4' ATP 803 C 1 
HETATM 16 O O4' ATP . . . Q 2 97.156 101.295 162.241 1 208.49 ? O4' ATP 803 C 1 
HETATM 17 C C3' ATP . . . Q 2 96.35 101.429 159.983 1 208.49 ? C3' ATP 803 C 1 
HETATM 18 O O3' ATP . . . Q 2 96.912 101.011 158.771 1 208.49 ? O3' ATP 803 C 1 
HETATM 19 C C2' ATP . . . Q 2 95.69 100.191 160.664 1 208.49 ? C2' ATP 803 C 1 
HETATM 20 C C1' ATP . . . Q 2 95.987 100.446 162.171 1 208.49 ? C1' ATP 803 C 1 
HETATM 21 N N9 ATP . . . Q 2 94.875 101.067 162.868 1 208.49 ? N9 ATP 803 C 1 
HETATM 22 C C8 ATP . . . Q 2 94.99 102.153 163.767 1 208.49 ? C8 ATP 803 C 1 
HETATM 23 N N7 ATP . . . Q 2 93.82 102.555 164.289 1 208.49 ? N7 ATP 803 C 1 
HETATM 24 C C5 ATP . . . Q 2 92.849 101.707 163.724 1 208.49 ? C5 ATP 803 C 1 
HETATM 25 C C6 ATP . . . Q 2 91.419 101.601 163.857 1 208.49 ? C6 ATP 803 C 1 
HETATM 26 N N6 ATP . . . Q 2 90.702 102.441 164.677 1 208.49 ? N6 ATP 803 C 1 
HETATM 27 N N1 ATP . . . Q 2 90.773 100.62 163.13 1 208.49 ? N1 ATP 803 C 1 
HETATM 28 C C2 ATP . . . Q 2 91.521 99.815 162.333 1 208.49 ? C2 ATP 803 C 1 
HETATM 29 N N3 ATP . . . Q 2 92.854 99.793 162.109 1 208.49 ? N3 ATP 803 C 1 
HETATM 30 C C4 ATP . . . Q 2 93.509 100.753 162.816 1 208.49 ? C4 ATP 803 C 1 
#
_model_server_stats.io_time_ms              0 
_model_server_stats.parse_time_ms           17 
_model_server_stats.create_model_time_ms    36 
_model_server_stats.query_time_ms           273 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           30 
#