data_6ZIW # _model_server_result.job_id t8e6i-1Oto42WNvWs7qGyQ _model_server_result.datetime_utc '2025-07-30 22:31:36' _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 6ziw # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 6ZIW # _exptl.entry_id 6ZIW _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 523.247 _entity.id 2 _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 6ZIW _cell.length_a 190.45 _cell.length_b 190.45 _cell.length_c 190.45 _cell.Z_PDB 48 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6ZIW _symmetry.cell_setting ? _symmetry.Int_Tables_number 214 _symmetry.space_group_name_Hall 'I 4bd 2c 3' _symmetry.space_group_name_H-M 'I 41 3 2' # _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,D,E _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 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _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 6ZIW _atom_sites.fract_transf_matrix[1][1] 0.005251 _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] 0.005251 _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] 0.005251 _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 AGS I 1 501 1 AGS AGS . C 3 SO4 I 1 502 1 SO4 SO4 . D 3 SO4 I 1 503 2 SO4 SO4 . E 4 HOH I 1 601 27 HOH HOH . E 4 HOH I 2 602 35 HOH HOH . E 4 HOH I 3 603 40 HOH HOH . E 4 HOH I 4 604 22 HOH HOH . E 4 HOH I 5 605 61 HOH HOH . E 4 HOH I 6 606 39 HOH HOH . E 4 HOH I 7 607 58 HOH HOH . E 4 HOH I 8 608 56 HOH HOH . E 4 HOH I 9 609 17 HOH HOH . E 4 HOH I 10 610 31 HOH HOH . E 4 HOH I 11 611 24 HOH HOH . E 4 HOH I 12 612 4 HOH HOH . E 4 HOH I 13 613 14 HOH HOH . E 4 HOH I 14 614 16 HOH HOH . E 4 HOH I 15 615 54 HOH HOH . E 4 HOH I 16 616 49 HOH HOH . E 4 HOH I 17 617 62 HOH HOH . E 4 HOH I 18 618 19 HOH HOH . E 4 HOH I 19 619 45 HOH HOH . E 4 HOH I 20 620 28 HOH HOH . E 4 HOH I 21 621 44 HOH HOH . E 4 HOH I 22 622 6 HOH HOH . E 4 HOH I 23 623 18 HOH HOH . E 4 HOH I 24 624 15 HOH HOH . E 4 HOH I 25 625 47 HOH HOH . E 4 HOH I 26 626 21 HOH HOH . E 4 HOH I 27 627 50 HOH HOH . E 4 HOH I 28 628 33 HOH HOH . E 4 HOH I 29 629 5 HOH HOH . E 4 HOH I 30 630 37 HOH HOH . E 4 HOH I 31 631 8 HOH HOH . E 4 HOH I 32 632 53 HOH HOH . E 4 HOH I 33 633 3 HOH HOH . E 4 HOH I 34 634 12 HOH HOH . E 4 HOH I 35 635 9 HOH HOH . E 4 HOH I 36 636 11 HOH HOH . E 4 HOH I 37 637 38 HOH HOH . E 4 HOH I 38 638 32 HOH HOH . E 4 HOH I 39 639 26 HOH HOH . E 4 HOH I 40 640 7 HOH HOH . E 4 HOH I 41 641 29 HOH HOH . E 4 HOH I 42 642 2 HOH HOH . E 4 HOH I 43 643 23 HOH HOH . E 4 HOH I 44 644 1 HOH HOH . E 4 HOH I 45 645 36 HOH HOH . E 4 HOH I 46 646 30 HOH HOH . E 4 HOH I 47 647 25 HOH HOH . E 4 HOH I 48 648 34 HOH HOH . E 4 HOH I 49 649 57 HOH HOH . E 4 HOH I 50 650 52 HOH HOH . E 4 HOH I 51 651 10 HOH HOH . E 4 HOH I 52 652 46 HOH HOH . E 4 HOH I 53 653 20 HOH HOH . E 4 HOH I 54 654 55 HOH HOH . E 4 HOH I 55 655 13 HOH HOH . E 4 HOH I 56 656 48 HOH HOH . E 4 HOH I 57 657 42 HOH HOH . E 4 HOH I 58 658 60 HOH HOH . E 4 HOH I 59 659 59 HOH HOH . E 4 HOH I 60 660 41 HOH HOH . E 4 HOH I 61 661 51 HOH HOH . E 4 HOH I 62 662 43 HOH HOH . # 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 . . . B 2 28.393 -25.303 -2.145 1 83.25 ? PG AGS 501 I 1 HETATM 2 S S1G AGS . . . B 2 29.066 -26.283 -0.654 1 85.16 ? S1G AGS 501 I 1 HETATM 3 O O2G AGS . . . B 2 26.863 -24.931 -2.118 1 82.78 ? O2G AGS 501 I 1 HETATM 4 O O3G AGS . . . B 2 29.047 -23.896 -2.446 1 88.21 ? O3G AGS 501 I 1 HETATM 5 P PB AGS . . . B 2 29.234 -27.533 -3.844 1 86.64 ? PB AGS 501 I 1 HETATM 6 O O1B AGS . . . B 2 30.582 -27.768 -3.267 1 86.35 ? O1B AGS 501 I 1 HETATM 7 O O2B AGS . . . B 2 28.165 -28.58 -3.465 1 85.42 ? O2B AGS 501 I 1 HETATM 8 O O3B AGS . . . B 2 28.622 -26.107 -3.479 1 88.11 ? O3B AGS 501 I 1 HETATM 9 P PA AGS . . . B 2 28.593 -26.517 -6.524 1 81.93 ? PA AGS 501 I 1 HETATM 10 O O1A AGS . . . B 2 29.14 -25.133 -6.536 1 85.07 ? O1A AGS 501 I 1 HETATM 11 O O2A AGS . . . B 2 27.08 -26.65 -6.283 1 80.61 ? O2A AGS 501 I 1 HETATM 12 O O3A AGS . . . B 2 29.302 -27.444 -5.436 1 87.61 ? O3A AGS 501 I 1 HETATM 13 O O5' AGS . . . B 2 28.964 -27.258 -7.858 1 78.57 ? O5' AGS 501 I 1 HETATM 14 C C5' AGS . . . B 2 29.991 -26.803 -8.76 1 78.09 ? C5' AGS 501 I 1 HETATM 15 C C4' AGS . . . B 2 29.405 -26.735 -10.148 1 77.1 ? C4' AGS 501 I 1 HETATM 16 O O4' AGS . . . B 2 28.996 -28.057 -10.578 1 76.16 ? O4' AGS 501 I 1 HETATM 17 C C3' AGS . . . B 2 28.177 -25.827 -10.284 1 72.05 ? C3' AGS 501 I 1 HETATM 18 O O3' AGS . . . B 2 28.307 -25.03 -11.452 1 74.15 ? O3' AGS 501 I 1 HETATM 19 C C2' AGS . . . B 2 27.012 -26.822 -10.357 1 72.61 ? C2' AGS 501 I 1 HETATM 20 O O2' AGS . . . B 2 25.889 -26.383 -11.117 1 67.82 ? O2' AGS 501 I 1 HETATM 21 C C1' AGS . . . B 2 27.674 -27.992 -11.079 1 71.81 ? C1' AGS 501 I 1 HETATM 22 N N9 AGS . . . B 2 27.004 -29.272 -10.871 1 69.69 ? N9 AGS 501 I 1 HETATM 23 C C8 AGS . . . B 2 26.841 -29.97 -9.699 1 70.43 ? C8 AGS 501 I 1 HETATM 24 N N7 AGS . . . B 2 26.1 -31.047 -9.815 1 67.78 ? N7 AGS 501 I 1 HETATM 25 C C5 AGS . . . B 2 25.752 -31.064 -11.161 1 66.26 ? C5 AGS 501 I 1 HETATM 26 C C6 AGS . . . B 2 24.986 -31.958 -11.937 1 60.59 ? C6 AGS 501 I 1 HETATM 27 N N6 AGS . . . B 2 24.337 -33.015 -11.435 1 57.35 ? N6 AGS 501 I 1 HETATM 28 N N1 AGS . . . B 2 24.887 -31.713 -13.266 1 61.12 ? N1 AGS 501 I 1 HETATM 29 C C2 AGS . . . B 2 25.499 -30.635 -13.772 1 61.6 ? C2 AGS 501 I 1 HETATM 30 N N3 AGS . . . B 2 26.224 -29.71 -13.136 1 65.29 ? N3 AGS 501 I 1 HETATM 31 C C4 AGS . . . B 2 26.316 -29.983 -11.824 1 67.35 ? C4 AGS 501 I 1 # _model_server_stats.io_time_ms 43 _model_server_stats.parse_time_ms 49 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 1205 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 31 #