data_8TRG
#
_model_server_result.job_id            Uks1LbQb-U3XEsgQx0Btlg 
_model_server_result.datetime_utc      '2024-12-26 18:26:26' 
_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":"N","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 . . . N 4 194.4 192.973 134.674 1 33.7 ? PG AGS 401 B 1 
HETATM 2 S S1G AGS . . . N 4 193.192 191.65 135.213 1 47.61 ? S1G AGS 401 B 1 
HETATM 3 O O2G AGS . . . N 4 195.417 193.304 135.823 1 37.83 ? O2G AGS 401 B 1 
HETATM 4 O O3G AGS . . . N 4 195.21 192.408 133.398 1 39.51 ? O3G AGS 401 B 1 
HETATM 5 P PB AGS . . . N 4 193.74 195.866 134.734 1 36.49 ? PB AGS 401 B 1 
HETATM 6 O O1B AGS . . . N 4 192.457 196.276 135.294 1 39.93 ? O1B AGS 401 B 1 
HETATM 7 O O2B AGS . . . N 4 194.78 195.953 135.78 1 42.92 ? O2B AGS 401 B 1 
HETATM 8 O O3B AGS . . . N 4 193.532 194.27 134.187 1 36.92 ? O3B AGS 401 B 1 
HETATM 9 P PA AGS . . . N 4 195.724 197.627 133.664 1 33.63 ? PA AGS 401 B 1 
HETATM 10 O O1A AGS . . . N 4 195.69 198.583 134.767 1 42.67 ? O1A AGS 401 B 1 
HETATM 11 O O2A AGS . . . N 4 196.762 196.632 133.938 1 43.06 ? O2A AGS 401 B 1 
HETATM 12 O O3A AGS . . . N 4 194.27 196.891 133.544 1 34.82 ? O3A AGS 401 B 1 
HETATM 13 O O5' AGS . . . N 4 196.077 198.463 132.249 1 37.61 ? O5' AGS 401 B 1 
HETATM 14 C C5' AGS . . . N 4 195.134 198.49 131.166 1 35.48 ? C5' AGS 401 B 1 
HETATM 15 C C4' AGS . . . N 4 195.855 198.714 129.857 1 35.54 ? C4' AGS 401 B 1 
HETATM 16 O O4' AGS . . . N 4 197.163 199.497 130.103 1 39.26 ? O4' AGS 401 B 1 
HETATM 17 C C3' AGS . . . N 4 196.233 197.577 129.268 1 35.18 ? C3' AGS 401 B 1 
HETATM 18 O O3' AGS . . . N 4 196.202 197.728 127.888 1 39.86 ? O3' AGS 401 B 1 
HETATM 19 C C2' AGS . . . N 4 197.724 197.321 129.748 1 36.23 ? C2' AGS 401 B 1 
HETATM 20 O O2' AGS . . . N 4 198.419 196.495 128.846 1 40.95 ? O2' AGS 401 B 1 
HETATM 21 C C1' AGS . . . N 4 198.304 198.534 129.776 1 35.44 ? C1' AGS 401 B 1 
HETATM 22 N N9 AGS . . . N 4 199.42 198.492 130.72 1 28.75 ? N9 AGS 401 B 1 
HETATM 23 C C8 AGS . . . N 4 199.351 198.131 132.031 1 32.09 ? C8 AGS 401 B 1 
HETATM 24 N N7 AGS . . . N 4 200.546 198.204 132.552 1 33.9 ? N7 AGS 401 B 1 
HETATM 25 C C5 AGS . . . N 4 201.386 198.614 131.586 1 33.48 ? C5 AGS 401 B 1 
HETATM 26 C C6 AGS . . . N 4 202.77 198.863 131.564 1 31 ? C6 AGS 401 B 1 
HETATM 27 N N6 AGS . . . N 4 203.547 198.693 132.749 1 37.59 ? N6 AGS 401 B 1 
HETATM 28 N N1 AGS . . . N 4 203.318 199.265 130.449 1 24.89 ? N1 AGS 401 B 1 
HETATM 29 C C2 AGS . . . N 4 202.602 199.436 129.346 1 31.82 ? C2 AGS 401 B 1 
HETATM 30 N N3 AGS . . . N 4 201.3 199.197 129.331 1 40.89 ? N3 AGS 401 B 1 
HETATM 31 C C4 AGS . . . N 4 200.665 198.79 130.432 1 34.41 ? C4 AGS 401 B 1 
HETATM 32 H "H5'1" AGS . . . N 4 194.432 199.313 131.333 1 35.48 ? "H5'1" AGS 401 B 1 
HETATM 33 H "H5'2" AGS . . . N 4 194.563 197.526 131.135 1 35.48 ? "H5'2" AGS 401 B 1 
HETATM 34 H H4' AGS . . . N 4 195.217 199.28 129.173 1 35.54 ? H4' AGS 401 B 1 
HETATM 35 H H3' AGS . . . N 4 195.588 196.721 129.573 1 35.18 ? H3' AGS 401 B 1 
HETATM 36 H HO3' AGS . . . N 4 197.062 197.759 127.553 1 35.18 ? HO3' AGS 401 B 1 
HETATM 37 H H2' AGS . . . N 4 197.684 196.835 130.768 1 36.23 ? H2' AGS 401 B 1 
HETATM 38 H HO2' AGS . . . N 4 197.802 195.89 128.427 1 36.23 ? HO2' AGS 401 B 1 
HETATM 39 H H1' AGS . . . N 4 198.696 198.771 128.739 1 35.44 ? H1' AGS 401 B 1 
HETATM 40 H H8 AGS . . . N 4 198.453 197.825 132.556 1 32.09 ? H8 AGS 401 B 1 
HETATM 41 H HN61 AGS . . . N 4 203.092 198.507 133.635 1 37.59 ? HN61 AGS 401 B 1 
HETATM 42 H HN62 AGS . . . N 4 204.531 198.763 132.702 1 37.59 ? HN62 AGS 401 B 1 
HETATM 43 H H2 AGS . . . N 4 203.093 199.761 128.439 1 31.82 ? H2 AGS 401 B 1 
#
_model_server_stats.io_time_ms              71 
_model_server_stats.parse_time_ms           27 
_model_server_stats.create_model_time_ms    49 
_model_server_stats.query_time_ms           300 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           43 
#