data_8UYB
#
_model_server_result.job_id            '_amEqxBmCKFxZPQ95tCmpw' 
_model_server_result.datetime_utc      '2024-12-27 13:46:19' 
_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          8uyb 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":1004}' 
#
_entry.id    8UYB 
#
_exptl.entry_id    8UYB 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              523.247 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER' 
_entity.pdbx_number_of_molecules    2 
_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            8UYB 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8UYB 
_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    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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 
_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
? 3 F N N 
? 3 J 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 O THR 156 A THR 156 1_555 D MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.763 ? 
metalc ? metalc2 A OD1 ASP 191 A ASP 191 1_555 D MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? 
metalc ? metalc3 A OD1 ASP 204 A ASP 204 1_555 E MG MG . A MG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.279 ? 
metalc ? metalc4 A OD1 ASP 441 A ASP 441 1_555 E MG MG . A MG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? 
metalc ? metalc5 A OD2 ASP 663 A ASP 663 1_555 D MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.269 ? 
metalc ? metalc6 A O GLY 810 A GLY 810 1_555 C MG MG . A MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.793 ? 
metalc ? metalc7 A OG SER 813 A SER 813 1_555 C MG MG . A MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.34 ? 
metalc ? metalc8 B O THR 156 B THR 156 1_555 H MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.725 ? 
metalc ? metalc9 B OD1 ASP 191 B ASP 191 1_555 H MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? 
metalc ? metalc10 B OD1 ASP 204 B ASP 204 1_555 I MG MG . B MG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? 
metalc ? metalc11 B OD1 ASP 441 B ASP 441 1_555 I MG MG . B MG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? 
metalc ? metalc12 B OD2 ASP 663 B ASP 663 1_555 H MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.274 ? 
metalc ? metalc13 B OG SER 813 B SER 813 1_555 G MG MG . B MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.486 ? 
#
_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                     8UYB 
_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
C 2 MG A 1 1001 1001 MG MG . 
D 2 MG A 1 1002 1002 MG MG . 
E 2 MG A 1 1003 1003 MG MG . 
F 3 AGS A 1 1004 3001 AGS AGS . 
G 2 MG B 1 1001 1001 MG MG . 
H 2 MG B 1 1002 1002 MG MG . 
I 2 MG B 1 1003 1003 MG MG . 
J 3 AGS B 1 1004 3001 AGS AGS . 
#
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 . . . F 3 148.96 173.21 112.464 1 115.05 ? PG AGS 1004 A 1 
HETATM 2 S S1G AGS . . . F 3 149.235 171.284 112.503 1 115.05 ? S1G AGS 1004 A 1 
HETATM 3 O O2G AGS . . . F 3 149.809 173.846 111.326 1 115.05 ? O2G AGS 1004 A 1 
HETATM 4 O O3G AGS . . . F 3 147.453 173.5 112.199 1 115.05 ? O3G AGS 1004 A 1 
HETATM 5 P PB AGS . . . F 3 150.477 174.955 113.929 1 115.05 ? PB AGS 1004 A 1 
HETATM 6 O O1B AGS . . . F 3 151.227 174.819 115.198 1 115.05 ? O1B AGS 1004 A 1 
HETATM 7 O O2B AGS . . . F 3 151.371 174.774 112.7 1 115.05 ? O2B AGS 1004 A 1 
HETATM 8 O O3B AGS . . . F 3 149.356 173.841 113.832 1 115.05 ? O3B AGS 1004 A 1 
HETATM 9 P PA AGS . . . F 3 148.656 176.678 112.778 1 115.05 ? PA AGS 1004 A 1 
HETATM 10 O O1A AGS . . . F 3 147.454 175.877 113.105 1 115.05 ? O1A AGS 1004 A 1 
HETATM 11 O O2A AGS . . . F 3 148.419 178.19 112.794 1 115.05 ? O2A AGS 1004 A 1 
HETATM 12 O O3A AGS . . . F 3 149.832 176.4 113.807 1 115.05 ? O3A AGS 1004 A 1 
HETATM 13 O O5' AGS . . . F 3 149.202 176.193 111.374 1 115.05 ? O5' AGS 1004 A 1 
HETATM 14 C C5' AGS . . . F 3 149.05 177.005 110.192 1 115.05 ? C5' AGS 1004 A 1 
HETATM 15 C C4' AGS . . . F 3 150.214 176.734 109.275 1 115.05 ? C4' AGS 1004 A 1 
HETATM 16 O O4' AGS . . . F 3 150.51 177.913 108.5 1 115.05 ? O4' AGS 1004 A 1 
HETATM 17 C C3' AGS . . . F 3 151.524 176.404 109.976 1 115.05 ? C3' AGS 1004 A 1 
HETATM 18 O O3' AGS . . . F 3 151.581 175.026 110.325 1 115.05 ? O3' AGS 1004 A 1 
HETATM 19 C C2' AGS . . . F 3 152.561 176.77 108.914 1 115.05 ? C2' AGS 1004 A 1 
HETATM 20 O O2' AGS . . . F 3 152.794 175.697 108.009 1 115.05 ? O2' AGS 1004 A 1 
HETATM 21 C C1' AGS . . . F 3 151.893 177.948 108.192 1 115.05 ? C1' AGS 1004 A 1 
HETATM 22 N N9 AGS . . . F 3 152.429 179.254 108.566 1 115.05 ? N9 AGS 1004 A 1 
HETATM 23 C C8 AGS . . . F 3 153.506 179.886 108.003 1 115.05 ? C8 AGS 1004 A 1 
HETATM 24 N N7 AGS . . . F 3 153.777 181.055 108.531 1 115.05 ? N7 AGS 1004 A 1 
HETATM 25 C C5 AGS . . . F 3 152.812 181.201 109.515 1 115.05 ? C5 AGS 1004 A 1 
HETATM 26 C C6 AGS . . . F 3 152.549 182.231 110.441 1 115.05 ? C6 AGS 1004 A 1 
HETATM 27 N N6 AGS . . . F 3 153.269 183.352 110.527 1 115.05 ? N6 AGS 1004 A 1 
HETATM 28 N N1 AGS . . . F 3 151.507 182.065 111.286 1 115.05 ? N1 AGS 1004 A 1 
HETATM 29 C C2 AGS . . . F 3 150.785 180.944 111.204 1 115.05 ? C2 AGS 1004 A 1 
HETATM 30 N N3 AGS . . . F 3 150.937 179.908 110.374 1 115.05 ? N3 AGS 1004 A 1 
HETATM 31 C C4 AGS . . . F 3 151.974 180.1 109.55 1 115.05 ? C4 AGS 1004 A 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    14 
_model_server_stats.query_time_ms           298 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           31 
#