data_6QS8
#
_model_server_result.job_id            44LoAT1IYI2ppVo5h2IEyg 
_model_server_result.datetime_utc      '2024-10-19 22:42:20' 
_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          6qs8 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"S","auth_seq_id":902}' 
#
_entry.id    6QS8 
#
_exptl.entry_id    6QS8 
_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    10 
_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            6QS8 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               1 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6QS8 
_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        PISA 
_pdbx_struct_assembly.oligomeric_details    heptameric 
_pdbx_struct_assembly.oligomeric_count      7 
_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 
_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 H N N 
? 3 J N N 
? 3 K N N 
? 3 N N N 
? 3 O N N 
? 3 R N N 
? 3 S N N 
? 3 V N N 
? 3 W N N 
? 3 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 213 A THR 213 1_555 I MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.119 ? 
metalc ? metalc2 H O2G AGS . A AGS 1001 1_555 I MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.091 ? 
metalc ? metalc3 B OG1 THR 213 B THR 213 1_555 L MG MG . B MG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.244 ? 
metalc ? metalc4 B OG1 THR 612 B THR 612 1_555 M MG MG . B MG 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? 
metalc ? metalc5 J O2G AGS . B AGS 1001 1_555 L MG MG . B MG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.098 ? 
metalc ? metalc6 J O1B AGS . B AGS 1001 1_555 L MG MG . B MG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.098 ? 
metalc ? metalc7 K O2G AGS . B AGS 1002 1_555 M MG MG . B MG 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.317 ? 
metalc ? metalc8 K O1B AGS . B AGS 1002 1_555 M MG MG . B MG 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? 
metalc ? metalc9 C OG1 THR 213 C THR 213 1_555 P MG MG . C MG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? 
metalc ? metalc10 C OG1 THR 612 C THR 612 1_555 Q MG MG . C MG 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.167 ? 
metalc ? metalc11 N O2G AGS . C AGS 1001 1_555 P MG MG . C MG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.141 ? 
metalc ? metalc12 N O1B AGS . C AGS 1001 1_555 P MG MG . C MG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? 
metalc ? metalc13 O O2G AGS . C AGS 1002 1_555 Q MG MG . C MG 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.093 ? 
metalc ? metalc14 O O1B AGS . C AGS 1002 1_555 Q MG MG . C MG 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.098 ? 
metalc ? metalc15 D OG1 THR 213 D THR 213 1_555 T MG MG . D MG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.12 ? 
metalc ? metalc16 D OG1 THR 612 D THR 612 1_555 U MG MG . D MG 904 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.309 ? 
metalc ? metalc17 D OD1 ASP 677 D ASP 677 1_555 U MG MG . D MG 904 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.873 ? 
metalc ? metalc18 R O2G AGS . D AGS 901 1_555 T MG MG . D MG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.076 ? 
metalc ? metalc19 R O1B AGS . D AGS 901 1_555 T MG MG . D MG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? 
metalc ? metalc20 S O1B AGS . D AGS 902 1_555 U MG MG . D MG 904 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? 
metalc ? metalc21 W O2G AGS . E AGS 1002 1_555 X MG MG . E MG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? 
#
_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 45 n n 
PG O2G AGS sing 46 n n 
PG O3G AGS sing 47 n n 
PG O3B AGS sing 48 n n 
PB O1B AGS doub 49 n n 
PB O2B AGS sing 50 n n 
PB O3B AGS sing 51 n n 
PB O3A AGS sing 52 n n 
PA O1A AGS doub 53 n n 
PA O2A AGS sing 54 n n 
PA O3A AGS sing 55 n n 
PA O5' AGS sing 56 n n 
O5' C5' AGS sing 57 n n 
C5' C4' AGS sing 58 n n 
C4' O4' AGS sing 59 n n 
C4' C3' AGS sing 60 n n 
O4' C1' AGS sing 61 n n 
C3' O3' AGS sing 62 n n 
C3' C2' AGS sing 63 n n 
C2' O2' AGS sing 64 n n 
C2' C1' AGS sing 65 n n 
C1' N9 AGS sing 66 n n 
N9 C8 AGS sing 67 n y 
N9 C4 AGS sing 68 n y 
C8 N7 AGS doub 69 n y 
N7 C5 AGS sing 70 n y 
C5 C6 AGS sing 71 n y 
C5 C4 AGS doub 72 n y 
C6 N6 AGS sing 73 n n 
C6 N1 AGS doub 74 n y 
N1 C2 AGS sing 75 n y 
C2 N3 AGS doub 76 n y 
N3 C4 AGS sing 77 n y 
O2G HOG2 AGS sing 78 n n 
O3G H21 AGS sing 79 n n 
O2B HOB2 AGS sing 80 n n 
O2A HOA2 AGS sing 81 n n 
C5' "H5'1" AGS sing 82 n n 
C5' "H5'2" AGS sing 83 n n 
C4' H4' AGS sing 84 n n 
C3' H3' AGS sing 85 n n 
O3' HO3' AGS sing 86 n n 
C2' H2' AGS sing 87 n n 
O2' HO2' AGS sing 88 n n 
C1' H1' AGS sing 89 n n 
C8 H8 AGS sing 90 n n 
N6 HN61 AGS sing 91 n n 
N6 HN62 AGS sing 92 n n 
C2 H2 AGS sing 93 n n 
#
_atom_sites.entry_id                     6QS8 
_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
H 3 AGS A 1 1001 1001 AGS AGS . 
I 4 MG A 1 1002 1 MG MG . 
J 3 AGS B 1 1001 1001 AGS AGS . 
K 3 AGS B 1 1002 1002 AGS AGS . 
L 4 MG B 1 1003 1 MG MG . 
M 4 MG B 1 1004 4 MG MG . 
N 3 AGS C 1 1001 1001 AGS AGS . 
O 3 AGS C 1 1002 1002 AGS AGS . 
P 4 MG C 1 1003 2 MG MG . 
Q 4 MG C 1 1004 5 MG MG . 
R 3 AGS D 1 901 1001 AGS AGS . 
S 3 AGS D 1 902 1002 AGS AGS . 
T 4 MG D 1 903 3 MG MG . 
U 4 MG D 1 904 6 MG MG . 
V 3 AGS E 1 1001 1001 AGS AGS . 
W 3 AGS E 1 1002 1002 AGS AGS . 
X 4 MG E 1 1003 7 MG MG . 
Y 5 ADP F 1 1001 1001 ADP ADP . 
Z 3 AGS F 1 1002 1001 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 . . . S 3 174.906 177.645 167.715 1 7.49 ? PG AGS 902 D 1 
HETATM 2 S S1G AGS . . . S 3 175.805 177.601 169.446 1 7.49 ? S1G AGS 902 D 1 
HETATM 3 O O2G AGS . . . S 3 173.379 177.554 167.899 1 7.49 ? O2G AGS 902 D 1 
HETATM 4 O O3G AGS . . . S 3 175.376 176.457 166.85 1 7.49 ? O3G AGS 902 D 1 
HETATM 5 P PB AGS . . . S 3 174.144 179.682 166.083 1 7.49 ? PB AGS 902 D 1 
HETATM 6 O O1B AGS . . . S 3 173.262 178.65 165.52 1 7.49 ? O1B AGS 902 D 1 
HETATM 7 O O2B AGS . . . S 3 174.933 180.558 165.117 1 7.49 ? O2B AGS 902 D 1 
HETATM 8 O O3B AGS . . . S 3 175.228 178.965 166.969 1 7.49 ? O3B AGS 902 D 1 
HETATM 9 P PA AGS . . . S 3 172.402 181.756 166.088 1 7.49 ? PA AGS 902 D 1 
HETATM 10 O O1A AGS . . . S 3 171.066 181.306 165.782 1 7.49 ? O1A AGS 902 D 1 
HETATM 11 O O2A AGS . . . S 3 173.309 182.14 164.933 1 7.49 ? O2A AGS 902 D 1 
HETATM 12 O O3A AGS . . . S 3 173.274 180.717 166.887 1 7.49 ? O3A AGS 902 D 1 
HETATM 13 O O5' AGS . . . S 3 172.139 182.94 167.049 1 7.49 ? O5' AGS 902 D 1 
HETATM 14 C C5' AGS . . . S 3 171.162 182.769 168.083 1 7.49 ? C5' AGS 902 D 1 
HETATM 15 C C4' AGS . . . S 3 170.53 184.082 168.463 1 7.49 ? C4' AGS 902 D 1 
HETATM 16 O O4' AGS . . . S 3 171.559 185.054 168.7 1 7.49 ? O4' AGS 902 D 1 
HETATM 17 C C3' AGS . . . S 3 169.621 184.671 167.396 1 7.49 ? C3' AGS 902 D 1 
HETATM 18 O O3' AGS . . . S 3 168.268 184.315 167.64 1 7.49 ? O3' AGS 902 D 1 
HETATM 19 C C2' AGS . . . S 3 169.82 186.182 167.532 1 7.49 ? C2' AGS 902 D 1 
HETATM 20 O O2' AGS . . . S 3 168.81 186.787 168.323 1 7.49 ? O2' AGS 902 D 1 
HETATM 21 C C1' AGS . . . S 3 171.19 186.319 168.195 1 7.49 ? C1' AGS 902 D 1 
HETATM 22 N N9 AGS . . . S 3 172.268 186.775 167.332 1 7.49 ? N9 AGS 902 D 1 
HETATM 23 C C8 AGS . . . S 3 173.437 186.102 167.122 1 7.49 ? C8 AGS 902 D 1 
HETATM 24 N N7 AGS . . . S 3 174.277 186.723 166.335 1 7.49 ? N7 AGS 902 D 1 
HETATM 25 C C5 AGS . . . S 3 173.609 187.884 165.995 1 7.49 ? C5 AGS 902 D 1 
HETATM 26 C C6 AGS . . . S 3 173.963 188.968 165.178 1 7.49 ? C6 AGS 902 D 1 
HETATM 27 N N6 AGS . . . S 3 175.122 189.052 164.528 1 7.49 ? N6 AGS 902 D 1 
HETATM 28 N N1 AGS . . . S 3 173.077 189.975 165.058 1 7.49 ? N1 AGS 902 D 1 
HETATM 29 C C2 AGS . . . S 3 171.92 189.896 165.72 1 7.49 ? C2 AGS 902 D 1 
HETATM 30 N N3 AGS . . . S 3 171.478 188.924 166.519 1 7.49 ? N3 AGS 902 D 1 
HETATM 31 C C4 AGS . . . S 3 172.377 187.94 166.616 1 7.49 ? C4 AGS 902 D 1 
#
_model_server_stats.io_time_ms              20 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    38 
_model_server_stats.query_time_ms           323 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           31 
#