data_8TRG
#
_model_server_result.job_id            b-O550OEu-Ao0sRSyQa1mA 
_model_server_result.datetime_utc      '2024-12-26 19:13:35' 
_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          8trg 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"T","auth_seq_id":401}' 
#
_entry.id    8TRG 
#
_exptl.entry_id    8TRG 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              523.247 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER' 
_entity.pdbx_number_of_molecules    8 
_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            8TRG 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8TRG 
_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    11-meric 
_pdbx_struct_assembly.oligomeric_count      11 
_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 
_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
? 4 L N N 
? 4 N N N 
? 4 P N N 
? 4 R N N 
? 4 T N N 
? 4 V N N 
? 4 X N N 
? 4 Z 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 100 A THR 73 1_555 M MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.959 ? 
metalc ? metalc2 L O2G AGS . A AGS 401 1_555 M MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.63 ? 
metalc ? metalc3 L O1B AGS . A AGS 401 1_555 M MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.673 ? 
metalc ? metalc4 B OG1 THR 100 B THR 73 1_555 O MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.139 ? 
metalc ? metalc5 N O2G AGS . B AGS 401 1_555 O MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.676 ? 
metalc ? metalc6 N O2B AGS . B AGS 401 1_555 O MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.622 ? 
metalc ? metalc7 C OG1 THR 100 C THR 73 1_555 Q MG MG . C MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.229 ? 
metalc ? metalc8 P O2G AGS . C AGS 401 1_555 Q MG MG . C MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.848 ? 
metalc ? metalc9 P O2B AGS . C AGS 401 1_555 Q MG MG . C MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.571 ? 
metalc ? metalc10 D OG1 THR 100 D THR 73 1_555 S MG MG . D MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.473 ? 
metalc ? metalc11 R O3B AGS . D AGS 401 1_555 S MG MG . D MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.949 ? 
metalc ? metalc12 E OG1 THR 100 E THR 73 1_555 U MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.926 ? 
metalc ? metalc13 T O2G AGS . E AGS 401 1_555 U MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.831 ? 
metalc ? metalc14 T O2B AGS . E AGS 401 1_555 U MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.646 ? 
metalc ? metalc15 T O3B AGS . E AGS 401 1_555 U MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.949 ? 
metalc ? metalc16 F OG1 THR 100 F THR 73 1_555 W MG MG . F MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? 
metalc ? metalc17 V O3B AGS . F AGS 401 1_555 W MG MG . F MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.829 ? 
metalc ? metalc18 G OG1 THR 100 G THR 73 1_555 Y MG MG . G MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.58 ? 
metalc ? metalc19 X O2G AGS . G AGS 401 1_555 Y MG MG . G MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.599 ? 
metalc ? metalc20 X O2B AGS . G AGS 401 1_555 Y MG MG . G MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.621 ? 
metalc ? metalc21 Z O2G AGS . H AGS 401 1_555 AA MG MG . H MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.607 ? 
metalc ? metalc22 Z O2B AGS . H AGS 401 1_555 AA MG MG . H MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.802 ? 
metalc ? metalc23 Z O3B AGS . H AGS 401 1_555 AA MG MG . H MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.722 ? 
#
_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                     8TRG 
_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
L 4 AGS A 1 401 8 AGS ATP . 
M 5 MG A 1 402 1 MG MG . 
N 4 AGS B 1 401 7 AGS ATP . 
O 5 MG B 1 402 2 MG MG . 
P 4 AGS C 1 401 14 AGS ATP . 
Q 5 MG C 1 402 8 MG MG . 
R 4 AGS D 1 401 9 AGS ATP . 
S 5 MG D 1 402 3 MG MG . 
T 4 AGS E 1 401 12 AGS ATP . 
U 5 MG E 1 402 6 MG MG . 
V 4 AGS F 1 401 13 AGS ATP . 
W 5 MG F 1 402 7 MG MG . 
X 4 AGS G 1 401 10 AGS ATP . 
Y 5 MG G 1 402 4 MG MG . 
Z 4 AGS H 1 401 11 AGS ATP . 
AA 5 MG H 1 402 5 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 . . . T 4 157.319 161.075 183.597 1 44.23 ? PG AGS 401 E 1 
HETATM 2 S S1G AGS . . . T 4 159.081 161.629 183.504 1 56.98 ? S1G AGS 401 E 1 
HETATM 3 O O2G AGS . . . T 4 156.77 161.411 185.055 1 35.79 ? O2G AGS 401 E 1 
HETATM 4 O O3G AGS . . . T 4 156.462 161.829 182.448 1 42.24 ? O3G AGS 401 E 1 
HETATM 5 P PB AGS . . . T 4 158.68 158.452 183.333 1 24.05 ? PB AGS 401 E 1 
HETATM 6 O O1B AGS . . . T 4 159.721 159.013 182.456 1 45.69 ? O1B AGS 401 E 1 
HETATM 7 O O2B AGS . . . T 4 159.279 158.226 184.669 1 47.42 ? O2B AGS 401 E 1 
HETATM 8 O O3B AGS . . . T 4 157.293 159.45 183.399 1 36.51 ? O3B AGS 401 E 1 
HETATM 9 P PA AGS . . . T 4 156.914 156.466 182.053 1 37.7 ? PA AGS 401 E 1 
HETATM 10 O O1A AGS . . . T 4 156.257 155.425 182.833 1 42.64 ? O1A AGS 401 E 1 
HETATM 11 O O2A AGS . . . T 4 155.975 157.597 181.969 1 31.94 ? O2A AGS 401 E 1 
HETATM 12 O O3A AGS . . . T 4 158.304 156.936 182.768 1 38.84 ? O3A AGS 401 E 1 
HETATM 13 O O5' AGS . . . T 4 157.235 155.87 180.521 1 43.67 ? O5' AGS 401 E 1 
HETATM 14 C C5' AGS . . . T 4 156.274 154.928 180.008 1 38.91 ? C5' AGS 401 E 1 
HETATM 15 C C4' AGS . . . T 4 156.198 154.909 178.505 1 36.51 ? C4' AGS 401 E 1 
HETATM 16 O O4' AGS . . . T 4 154.765 154.451 178.148 1 41.76 ? O4' AGS 401 E 1 
HETATM 17 C C3' AGS . . . T 4 156.274 156.103 177.921 1 38.56 ? C3' AGS 401 E 1 
HETATM 18 O O3' AGS . . . T 4 156.478 155.941 176.558 1 48.43 ? O3' AGS 401 E 1 
HETATM 19 C C2' AGS . . . T 4 154.855 156.763 178.147 1 33.08 ? C2' AGS 401 E 1 
HETATM 20 O O2' AGS . . . T 4 154.615 157.74 177.162 1 40.77 ? O2' AGS 401 E 1 
HETATM 21 C C1' AGS . . . T 4 153.957 155.758 178.034 1 33.81 ? C1' AGS 401 E 1 
HETATM 22 N N9 AGS . . . T 4 152.835 155.923 178.967 1 34.12 ? N9 AGS 401 E 1 
HETATM 23 C C8 AGS . . . T 4 152.841 156.464 180.222 1 45.63 ? C8 AGS 401 E 1 
HETATM 24 N N7 AGS . . . T 4 151.625 156.42 180.704 1 41.24 ? N7 AGS 401 E 1 
HETATM 25 C C5 AGS . . . T 4 150.832 155.86 179.78 1 32.03 ? C5 AGS 401 E 1 
HETATM 26 C C6 AGS . . . T 4 149.457 155.561 179.756 1 33.83 ? C6 AGS 401 E 1 
HETATM 27 N N6 AGS . . . T 4 148.646 155.879 180.89 1 34.57 ? N6 AGS 401 E 1 
HETATM 28 N N1 AGS . . . T 4 148.953 154.98 178.691 1 42.79 ? N1 AGS 401 E 1 
HETATM 29 C C2 AGS . . . T 4 149.722 154.684 177.646 1 45.7 ? C2 AGS 401 E 1 
HETATM 30 N N3 AGS . . . T 4 151.015 154.959 177.644 1 31.27 ? N3 AGS 401 E 1 
HETATM 31 C C4 AGS . . . T 4 151.603 155.549 178.691 1 27.57 ? C4 AGS 401 E 1 
HETATM 32 H "H5'1" AGS . . . T 4 155.286 155.188 180.401 1 38.91 ? "H5'1" AGS 401 E 1 
HETATM 33 H "H5'2" AGS . . . T 4 156.549 153.903 180.368 1 38.91 ? "H5'2" AGS 401 E 1 
HETATM 34 H H4' AGS . . . T 4 156.937 154.225 178.079 1 36.51 ? H4' AGS 401 E 1 
HETATM 35 H H3' AGS . . . T 4 157.079 156.74 178.353 1 38.56 ? H3' AGS 401 E 1 
HETATM 36 H HO3' AGS . . . T 4 155.723 156.207 176.097 1 38.56 ? HO3' AGS 401 E 1 
HETATM 37 H H2' AGS . . . T 4 154.875 157.253 179.162 1 33.08 ? H2' AGS 401 E 1 
HETATM 38 H HO2' AGS . . . T 4 153.67 157.892 177.076 1 33.08 ? HO2' AGS 401 E 1 
HETATM 39 H H1' AGS . . . T 4 153.536 155.787 176.981 1 33.81 ? H1' AGS 401 E 1 
HETATM 40 H H8 AGS . . . T 4 153.701 156.875 180.746 1 45.63 ? H8 AGS 401 E 1 
HETATM 41 H HN61 AGS . . . T 4 147.653 156.04 180.777 1 34.57 ? HN61 AGS 401 E 1 
HETATM 42 H HN62 AGS . . . T 4 149.061 155.939 181.785 1 34.57 ? HN62 AGS 401 E 1 
HETATM 43 H H2 AGS . . . T 4 149.281 154.221 176.773 1 45.7 ? H2 AGS 401 E 1 
#
_model_server_stats.io_time_ms              23 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    53 
_model_server_stats.query_time_ms           297 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           43 
#