data_6DJU
#
_model_server_result.job_id            er9k7iSQwlOhZ5CXesquDg 
_model_server_result.datetime_utc      '2024-11-14 18:47:39' 
_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          6dju 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"M","auth_seq_id":902}' 
#
_entry.id    6DJU 
#
_exptl.entry_id    6DJU 
_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            6DJU 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               1 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6DJU 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
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_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    heptameric 
_pdbx_struct_assembly.oligomeric_count      7 
_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,Q,R,S 
_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 I N N 
? 3 J N N 
? 3 K N N 
? 3 L N N 
? 3 M N N 
? 3 N N N 
? 3 O N N 
? 3 P N N 
? 3 R N N 
#
_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                     6DJU 
_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 1 901 901 AGS AGS . 
I 3 AGS A 1 902 902 AGS AGS . 
J 3 AGS B 1 901 901 AGS AGS . 
K 3 AGS B 1 902 902 AGS AGS . 
L 3 AGS C 1 901 901 AGS AGS . 
M 3 AGS C 1 902 902 AGS AGS . 
N 3 AGS D 1 901 901 AGS AGS . 
O 3 AGS D 1 902 902 AGS AGS . 
P 3 AGS E 1 901 901 AGS AGS . 
Q 4 ADP E 1 902 902 ADP ADP . 
R 3 AGS F 1 901 901 AGS AGS . 
S 4 ADP F 1 902 902 ADP ADP . 
#
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 . . . M 3 158.095 124.969 143.666 1 82.16 ? PG AGS 902 C 1 
HETATM 2 S S1G AGS . . . M 3 159.999 125.385 143.703 1 82.16 ? S1G AGS 902 C 1 
HETATM 3 O O2G AGS . . . M 3 157.725 124.478 142.245 1 82.16 ? O2G AGS 902 C 1 
HETATM 4 O O3G AGS . . . M 3 157.245 126.226 143.984 1 82.16 ? O3G AGS 902 C 1 
HETATM 5 P PB AGS . . . M 3 157.353 122.461 144.058 1 82.16 ? PB AGS 902 C 1 
HETATM 6 O O1B AGS . . . M 3 156.631 122.592 142.786 1 82.16 ? O1B AGS 902 C 1 
HETATM 7 O O2B AGS . . . M 3 156.597 121.655 145.11 1 82.16 ? O2B AGS 902 C 1 
HETATM 8 O O3B AGS . . . M 3 157.721 123.855 144.67 1 82.16 ? O3B AGS 902 C 1 
HETATM 9 P PA AGS . . . M 3 158.371 120.237 143.214 1 82.16 ? PA AGS 902 C 1 
HETATM 10 O O1A AGS . . . M 3 158.778 120.219 141.809 1 82.16 ? O1A AGS 902 C 1 
HETATM 11 O O2A AGS . . . M 3 156.892 119.999 143.512 1 82.16 ? O2A AGS 902 C 1 
HETATM 12 O O3A AGS . . . M 3 158.643 121.634 143.83 1 82.16 ? O3A AGS 902 C 1 
HETATM 13 O O5' AGS . . . M 3 159.273 119.242 144.008 1 82.16 ? O5' AGS 902 C 1 
HETATM 14 C C5' AGS . . . M 3 158.684 118.356 144.959 1 82.16 ? C5' AGS 902 C 1 
HETATM 15 C C4' AGS . . . M 3 159.649 117.24 145.238 1 82.16 ? C4' AGS 902 C 1 
HETATM 16 O O4' AGS . . . M 3 158.973 116.214 145.994 1 82.16 ? O4' AGS 902 C 1 
HETATM 17 C C3' AGS . . . M 3 160.188 116.523 144.006 1 82.16 ? C3' AGS 902 C 1 
HETATM 18 O O3' AGS . . . M 3 161.433 115.906 144.303 1 82.16 ? O3' AGS 902 C 1 
HETATM 19 C C2' AGS . . . M 3 159.115 115.473 143.748 1 82.16 ? C2' AGS 902 C 1 
HETATM 20 O O2' AGS . . . M 3 159.633 114.343 143.07 1 82.16 ? O2' AGS 902 C 1 
HETATM 21 C C1' AGS . . . M 3 158.731 115.083 145.175 1 82.16 ? C1' AGS 902 C 1 
HETATM 22 N N9 AGS . . . M 3 157.34 114.715 145.325 1 82.16 ? N9 AGS 902 C 1 
HETATM 23 C C8 AGS . . . M 3 156.367 115.414 145.984 1 82.16 ? C8 AGS 902 C 1 
HETATM 24 N N7 AGS . . . M 3 155.193 114.839 145.967 1 82.16 ? N7 AGS 902 C 1 
HETATM 25 C C5 AGS . . . M 3 155.407 113.679 145.244 1 82.16 ? C5 AGS 902 C 1 
HETATM 26 C C6 AGS . . . M 3 154.554 112.628 144.876 1 82.16 ? C6 AGS 902 C 1 
HETATM 27 N N6 AGS . . . M 3 153.256 112.58 145.185 1 82.16 ? N6 AGS 902 C 1 
HETATM 28 N N1 AGS . . . M 3 155.085 111.612 144.155 1 82.16 ? N1 AGS 902 C 1 
HETATM 29 C C2 AGS . . . M 3 156.381 111.655 143.842 1 82.16 ? C2 AGS 902 C 1 
HETATM 30 N N3 AGS . . . M 3 157.279 112.597 144.137 1 82.16 ? N3 AGS 902 C 1 
HETATM 31 C C4 AGS . . . M 3 156.726 113.588 144.85 1 82.16 ? C4 AGS 902 C 1 
#
_model_server_stats.io_time_ms              21 
_model_server_stats.parse_time_ms           17 
_model_server_stats.create_model_time_ms    83 
_model_server_stats.query_time_ms           264 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           31 
#