data_8WK0
#
_model_server_result.job_id            XeJ7TyuEgTzsaUd8J_u41Q 
_model_server_result.datetime_utc      '2024-10-10 00:24:58' 
_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          8wk0 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"K","auth_seq_id":701}' 
#
_entry.id    8WK0 
#
_exptl.entry_id    8WK0 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              523.247 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER' 
_entity.pdbx_number_of_molecules    5 
_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            8WK0 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8WK0 
_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 
_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 
#
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 B OG SER 174 D SER 174 1_555 H MG MG . D MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.906 ? 
metalc ? metalc2 G O3B AGS . D AGS 701 1_555 H MG MG . D MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.138 ? 
metalc ? metalc3 C OG SER 174 M SER 174 1_555 J MG MG . M MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.994 ? 
metalc ? metalc4 I O2G AGS . M AGS 701 1_555 J MG MG . M MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.875 ? 
metalc ? metalc5 I O3G AGS . M AGS 701 1_555 J MG MG . M MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.923 ? 
metalc ? metalc6 I O1B AGS . M AGS 701 1_555 J MG MG . M MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.908 ? 
metalc ? metalc7 I O3B AGS . M AGS 701 1_555 J MG MG . M MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? 
metalc ? metalc8 I O2A AGS . M AGS 701 1_555 J MG MG . M MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? 
metalc ? metalc9 I O3A AGS . M AGS 701 1_555 J MG MG . M MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.434 ? 
metalc ? metalc10 K O1B AGS . N AGS 701 1_555 L MG MG . N MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.609 ? 
metalc ? metalc11 K O3B AGS . N AGS 701 1_555 L MG MG . N MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? 
metalc ? metalc12 K O1A AGS . N AGS 701 1_555 L MG MG . N MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.796 ? 
metalc ? metalc13 K O3A AGS . N AGS 701 1_555 L MG MG . N MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.997 ? 
metalc ? metalc14 E OG SER 174 O SER 174 1_555 N MG MG . O MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.268 ? 
metalc ? metalc15 E OE1 GLU 203 O GLU 203 1_555 N MG MG . O MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.803 ? 
metalc ? metalc16 M O3G AGS . O AGS 701 1_555 N MG MG . O MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.885 ? 
metalc ? metalc17 M O3B AGS . O AGS 701 1_555 N MG MG . O MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? 
metalc ? metalc18 F OG SER 174 L SER 174 1_555 P MG MG . L MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.125 ? 
metalc ? metalc19 O O2G AGS . L AGS 701 1_555 P MG MG . L MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.854 ? 
metalc ? metalc20 O O3B AGS . L AGS 701 1_555 P MG MG . L MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.916 ? 
metalc ? metalc21 O O3A AGS . L AGS 701 1_555 P MG MG . L MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.935 ? 
#
_chem_comp.formula           'C10 H16 N5 O12 P3 S' 
_chem_comp.formula_weight    523.247 
_chem_comp.id                AGS 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     "ATP-GAMMA-S;ADENOSINE 5'-(3-THIOTRIPHOSPHATE);ADENOSINE 5'-(GAMMA-THIOTRIPHOSPHATE);ADENOSINE-5'-DIPHOSPHATE MONOTHIOPHOSPHATE" 
#
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 S1G AGS doub 1 n n 
PG O2G AGS sing 2 n n 
PG O3G AGS sing 3 n n 
PG O3B AGS sing 4 n n 
PB O1B AGS doub 5 n n 
PB O2B AGS sing 6 n n 
PB O3B AGS sing 7 n n 
PB O3A AGS sing 8 n n 
PA O1A AGS doub 9 n n 
PA O2A AGS sing 10 n n 
PA O3A AGS sing 11 n n 
PA O5' AGS sing 12 n n 
O5' C5' AGS sing 13 n n 
C5' C4' AGS sing 14 n n 
C4' O4' AGS sing 15 n n 
C4' C3' AGS sing 16 n n 
O4' C1' AGS sing 17 n n 
C3' O3' AGS sing 18 n n 
C3' C2' AGS sing 19 n n 
C2' O2' AGS sing 20 n n 
C2' C1' AGS sing 21 n n 
C1' N9 AGS sing 22 n n 
N9 C8 AGS sing 23 n y 
N9 C4 AGS sing 24 n y 
C8 N7 AGS doub 25 n y 
N7 C5 AGS sing 26 n y 
C5 C6 AGS sing 27 n y 
C5 C4 AGS doub 28 n y 
C6 N6 AGS sing 29 n n 
C6 N1 AGS doub 30 n y 
N1 C2 AGS sing 31 n y 
C2 N3 AGS doub 32 n y 
N3 C4 AGS sing 33 n y 
O2G HOG2 AGS sing 34 n n 
O3G H21 AGS sing 35 n n 
O2B HOB2 AGS sing 36 n n 
O2A HOA2 AGS sing 37 n n 
C5' "H5'1" AGS sing 38 n n 
C5' "H5'2" AGS sing 39 n n 
C4' H4' AGS sing 40 n n 
C3' H3' AGS sing 41 n n 
O3' HO3' AGS sing 42 n n 
C2' H2' AGS sing 43 n n 
O2' HO2' AGS sing 44 n n 
C1' H1' AGS sing 45 n n 
C8 H8 AGS sing 46 n n 
N6 HN61 AGS sing 47 n n 
N6 HN62 AGS sing 48 n n 
C2 H2 AGS sing 49 n n 
#
_atom_sites.entry_id                     8WK0 
_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 AGS D 1 701 701 AGS AGS . 
H 3 MG D 1 702 6 MG MG . 
I 2 AGS M 1 701 701 AGS AGS . 
J 3 MG M 1 702 2 MG MG . 
K 2 AGS N 1 701 701 AGS AGS . 
L 3 MG N 1 702 5 MG MG . 
M 2 AGS O 1 701 701 AGS AGS . 
N 3 MG O 1 702 3 MG MG . 
O 2 AGS L 1 701 701 AGS AGS . 
P 3 MG L 1 702 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 AGS . . . K 2 139.317 166.538 174.442 1 97.17 ? PG AGS 701 N 1 
HETATM 2 S S1G AGS . . . K 2 137.892 166.781 175.691 1 97.17 ? S1G AGS 701 N 1 
HETATM 3 O O2G AGS . . . K 2 139.102 167.579 173.187 1 97.17 ? O2G AGS 701 N 1 
HETATM 4 O O3G AGS . . . K 2 139.305 164.99 173.887 1 97.17 ? O3G AGS 701 N 1 
HETATM 5 P PB AGS . . . K 2 141.215 166.153 176.599 1 97.17 ? PB AGS 701 N 1 
HETATM 6 O O1B AGS . . . K 2 140.216 165.08 176.954 1 97.17 ? O1B AGS 701 N 1 
HETATM 7 O O2B AGS . . . K 2 142.594 165.559 176.462 1 97.17 ? O2B AGS 701 N 1 
HETATM 8 O O3B AGS . . . K 2 140.767 166.824 175.167 1 97.17 ? O3B AGS 701 N 1 
HETATM 9 P PA AGS . . . K 2 140.083 167.522 178.895 1 97.17 ? PA AGS 701 N 1 
HETATM 10 O O1A AGS . . . K 2 138.814 168.01 178.247 1 97.17 ? O1A AGS 701 N 1 
HETATM 11 O O2A AGS . . . K 2 139.813 166.198 179.556 1 97.17 ? O2A AGS 701 N 1 
HETATM 12 O O3A AGS . . . K 2 141.258 167.316 177.763 1 97.17 ? O3A AGS 701 N 1 
HETATM 13 O O5' AGS . . . K 2 140.575 168.594 180.04 1 97.17 ? O5' AGS 701 N 1 
HETATM 14 C C5' AGS . . . K 2 139.814 168.674 181.212 1 97.17 ? C5' AGS 701 N 1 
HETATM 15 C C4' AGS . . . K 2 140.372 167.668 182.274 1 97.17 ? C4' AGS 701 N 1 
HETATM 16 O O4' AGS . . . K 2 141.895 167.883 182.459 1 97.17 ? O4' AGS 701 N 1 
HETATM 17 C C3' AGS . . . K 2 139.907 167.91 183.431 1 97.17 ? C3' AGS 701 N 1 
HETATM 18 O O3' AGS . . . K 2 140.073 166.738 184.278 1 97.17 ? O3' AGS 701 N 1 
HETATM 19 C C2' AGS . . . K 2 140.834 169.147 184.025 1 97.17 ? C2' AGS 701 N 1 
HETATM 20 O O2' AGS . . . K 2 140.789 169.15 185.481 1 97.17 ? O2' AGS 701 N 1 
HETATM 21 C C1' AGS . . . K 2 142.019 168.893 183.637 1 97.17 ? C1' AGS 701 N 1 
HETATM 22 N N9 AGS . . . K 2 142.689 170.114 183.132 1 97.17 ? N9 AGS 701 N 1 
HETATM 23 C C8 AGS . . . K 2 142.905 170.688 181.954 1 97.17 ? C8 AGS 701 N 1 
HETATM 24 N N7 AGS . . . K 2 143.607 171.802 182.158 1 97.17 ? N7 AGS 701 N 1 
HETATM 25 C C5 AGS . . . K 2 143.828 171.907 183.471 1 97.17 ? C5 AGS 701 N 1 
HETATM 26 C C6 AGS . . . K 2 144.493 172.852 184.207 1 97.17 ? C6 AGS 701 N 1 
HETATM 27 N N6 AGS . . . K 2 145.148 174.031 183.677 1 97.17 ? N6 AGS 701 N 1 
HETATM 28 N N1 AGS . . . K 2 144.575 172.732 185.518 1 97.17 ? N1 AGS 701 N 1 
HETATM 29 C C2 AGS . . . K 2 144.004 171.673 186.135 1 97.17 ? C2 AGS 701 N 1 
HETATM 30 N N3 AGS . . . K 2 143.348 170.741 185.41 1 97.17 ? N3 AGS 701 N 1 
HETATM 31 C C4 AGS . . . K 2 143.264 170.865 184.077 1 97.17 ? C4 AGS 701 N 1 
HETATM 32 H HOG2 AGS . . . K 2 138.255 167.427 172.8 1 97.17 ? HOG2 AGS 701 N 1 
HETATM 33 H H21 AGS . . . K 2 139.676 164.969 173.021 1 97.17 ? H21 AGS 701 N 1 
HETATM 34 H "H5'1" AGS . . . K 2 139.864 169.686 181.596 1 97.17 ? "H5'1" AGS 701 N 1 
HETATM 35 H "H5'2" AGS . . . K 2 138.781 168.427 180.989 1 97.17 ? "H5'2" AGS 701 N 1 
HETATM 36 H H4' AGS . . . K 2 140.162 166.643 181.985 1 97.17 ? H4' AGS 701 N 1 
HETATM 37 H H3' AGS . . . K 2 138.864 168.204 183.373 1 97.17 ? H3' AGS 701 N 1 
HETATM 38 H HO3' AGS . . . K 2 140.852 166.269 184.021 1 97.17 ? HO3' AGS 701 N 1 
HETATM 39 H H2' AGS . . . K 2 140.501 170.102 183.633 1 97.17 ? H2' AGS 701 N 1 
HETATM 40 H HO2' AGS . . . K 2 141.028 170.005 185.802 1 97.17 ? HO2' AGS 701 N 1 
HETATM 41 H H1' AGS . . . K 2 142.589 168.451 184.447 1 97.17 ? H1' AGS 701 N 1 
HETATM 42 H H8 AGS . . . K 2 142.564 170.316 180.996 1 97.17 ? H8 AGS 701 N 1 
HETATM 43 H HN61 AGS . . . K 2 145.888 174.47 184.191 1 97.17 ? HN61 AGS 701 N 1 
HETATM 44 H HN62 AGS . . . K 2 144.862 174.407 182.793 1 97.17 ? HN62 AGS 701 N 1 
HETATM 45 H H2 AGS . . . K 2 144.071 171.573 187.212 1 97.17 ? H2 AGS 701 N 1 
#
_model_server_stats.io_time_ms              88 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    54 
_model_server_stats.query_time_ms           286 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           45 
#