data_5YW7
#
_model_server_result.job_id            7x8EewSF639dGLOQETlBCw 
_model_server_result.datetime_utc      '2024-11-23 14:11:54' 
_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          5yw7 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":2002}' 
#
_entry.id    5YW7 
#
_exptl.entry_id    5YW7 
_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    1 
_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            5YW7 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               1 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5YW7 
_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    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_struct_asym.id                             C 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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 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                     5YW7 
_atom_sites.fract_transf_matrix[1][1]    0.003038 
_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]    0.003038 
_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]    0.003038 
_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
B 2 GBM B 1 2001 2001 GBM GBM . 
C 3 AGS B 1 2002 2501 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 . . . C 3 199.579 237.556 129.74 1 179.67 ? PG AGS 2002 B 1 
HETATM 2 S S1G AGS . . . C 3 199.287 236.701 131.608 1 177.52 ? S1G AGS 2002 B 1 
HETATM 3 O O2G AGS . . . C 3 199.909 236.405 128.663 1 178.19 ? O2G AGS 2002 B 1 
HETATM 4 O O3G AGS . . . C 3 200.713 238.506 129.796 1 175.69 ? O3G AGS 2002 B 1 
HETATM 5 P PB AGS . . . C 3 198.186 239.926 129.185 1 172.96 ? PB AGS 2002 B 1 
HETATM 6 O O1B AGS . . . C 3 199.286 240.372 128.251 1 169.68 ? O1B AGS 2002 B 1 
HETATM 7 O O2B AGS . . . C 3 196.841 240.336 128.634 1 174.7 ? O2B AGS 2002 B 1 
HETATM 8 O O3B AGS . . . C 3 198.232 238.321 129.303 1 170.34 ? O3B AGS 2002 B 1 
HETATM 9 P PA AGS . . . C 3 197.49 240.228 131.9 1 194.1 ? PA AGS 2002 B 1 
HETATM 10 O O1A AGS . . . C 3 196.042 240.177 131.474 1 190.16 ? O1A AGS 2002 B 1 
HETATM 11 O O2A AGS . . . C 3 197.92 238.881 132.431 1 191.36 ? O2A AGS 2002 B 1 
HETATM 12 O O3A AGS . . . C 3 198.409 240.609 130.631 1 182.24 ? O3A AGS 2002 B 1 
HETATM 13 O O5' AGS . . . C 3 197.673 241.331 133.064 1 195.84 ? O5' AGS 2002 B 1 
HETATM 14 C C5' AGS . . . C 3 197.29 242.693 132.862 1 195.78 ? C5' AGS 2002 B 1 
HETATM 15 C C4' AGS . . . C 3 197.546 243.501 134.13 1 192.24 ? C4' AGS 2002 B 1 
HETATM 16 O O4' AGS . . . C 3 196.768 242.983 135.212 1 198.78 ? O4' AGS 2002 B 1 
HETATM 17 C C3' AGS . . . C 3 199.005 243.438 134.551 1 194.13 ? C3' AGS 2002 B 1 
HETATM 18 O O3' AGS . . . C 3 199.61 244.727 134.419 1 200.81 ? O3' AGS 2002 B 1 
HETATM 19 C C2' AGS . . . C 3 199.001 243.015 136.006 1 204.35 ? C2' AGS 2002 B 1 
HETATM 20 O O2' AGS . . . C 3 199.666 243.998 136.802 1 212.41 ? O2' AGS 2002 B 1 
HETATM 21 C C1' AGS . . . C 3 197.54 242.912 136.412 1 212.41 ? C1' AGS 2002 B 1 
HETATM 22 N N9 AGS . . . C 3 197.3 241.602 137.062 1 233.53 ? N9 AGS 2002 B 1 
HETATM 23 C C8 AGS . . . C 3 197.368 240.409 136.444 1 236.55 ? C8 AGS 2002 B 1 
HETATM 24 N N7 AGS . . . C 3 197.095 239.395 137.303 1 243.46 ? N7 AGS 2002 B 1 
HETATM 25 C C5 AGS . . . C 3 196.84 239.944 138.504 1 242.78 ? C5 AGS 2002 B 1 
HETATM 26 C C6 AGS . . . C 3 196.482 239.439 139.851 1 247.89 ? C6 AGS 2002 B 1 
HETATM 27 N N6 AGS . . . C 3 196.338 238.113 140.084 1 254.39 ? N6 AGS 2002 B 1 
HETATM 28 N N1 AGS . . . C 3 196.303 240.347 140.836 1 254.18 ? N1 AGS 2002 B 1 
HETATM 29 C C2 AGS . . . C 3 196.443 241.667 140.614 1 248.52 ? C2 AGS 2002 B 1 
HETATM 30 N N3 AGS . . . C 3 196.767 242.194 139.418 1 241.95 ? N3 AGS 2002 B 1 
HETATM 31 C C4 AGS . . . C 3 196.975 241.399 138.341 1 238.82 ? C4 AGS 2002 B 1 
#
_model_server_stats.io_time_ms              49 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    12 
_model_server_stats.query_time_ms           274 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           31 
#