data_5U99 # _model_server_result.job_id ZFMuz9xEn93woDwWJENu1g _model_server_result.datetime_utc '2024-12-21 17:05:31' _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 5u99 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":306}' # _entry.id 5U99 # _exptl.entry_id 5U99 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 507.181 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _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 120 _cell.entry_id 5U99 _cell.length_a 134.758 _cell.length_b 134.758 _cell.length_c 111.005 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5U99 _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'H 3 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4,5,6 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_555 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 0 0 4 'crystal symmetry operation' 4_554 y,x,-z-1 -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 -111.005 5 'crystal symmetry operation' 5_554 x-y,-y,-z-1 1 0 0 0 -1 0 0 0 -1 0 0 -111.005 6 'crystal symmetry operation' 6_554 -x,-x+y,-z-1 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 -111.005 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id G _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 E MG MG . A MG 304 1_555 G O3G ATP . A ATP 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.358 ? metalc ? metalc2 E MG MG . A MG 304 1_555 G O1B ATP . A ATP 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.955 ? metalc ? metalc3 E MG MG . A MG 304 1_555 G O1A ATP . A ATP 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.26 ? metalc ? metalc4 E MG MG . A MG 304 1_555 H O HOH . A HOH 411 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.917 ? metalc ? metalc5 E MG MG . A MG 304 1_555 H O HOH . A HOH 412 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.154 ? metalc ? metalc6 E MG MG . A MG 304 1_555 H O HOH . A HOH 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.391 ? metalc ? metalc7 F MG MG . A MG 305 1_555 G O1G ATP . A ATP 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.332 ? metalc ? metalc8 F MG MG . A MG 305 1_555 G O1G ATP . A ATP 306 5_554 ? ? ? ? ? ? ? ? ? ? ? ? 2.333 ? metalc ? metalc9 F MG MG . A MG 305 1_555 H O HOH . A HOH 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.726 ? metalc ? metalc10 F MG MG . A MG 305 1_555 H O HOH . A HOH 403 5_554 ? ? ? ? ? ? ? ? ? ? ? ? 1.705 ? metalc ? metalc11 F MG MG . A MG 305 1_555 H O HOH . A HOH 425 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.721 ? metalc ? metalc12 F MG MG . A MG 305 1_555 H O HOH . A HOH 425 5_554 ? ? ? ? ? ? ? ? ? ? ? ? 2.726 ? # _chem_comp.formula 'C10 H16 N5 O13 P3' _chem_comp.formula_weight 507.181 _chem_comp.id ATP _chem_comp.mon_nstd_flag . _chem_comp.name "ADENOSINE-5'-TRIPHOSPHATE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 O1G ATP doub 70 n n PG O2G ATP sing 71 n n PG O3G ATP sing 72 n n PG O3B ATP sing 73 n n O2G HOG2 ATP sing 74 n n O3G HOG3 ATP sing 75 n n PB O1B ATP doub 76 n n PB O2B ATP sing 77 n n PB O3B ATP sing 78 n n PB O3A ATP sing 79 n n O2B HOB2 ATP sing 80 n n PA O1A ATP doub 81 n n PA O2A ATP sing 82 n n PA O3A ATP sing 83 n n PA O5' ATP sing 84 n n O2A HOA2 ATP sing 85 n n O5' C5' ATP sing 86 n n C5' C4' ATP sing 87 n n C5' "H5'1" ATP sing 88 n n C5' "H5'2" ATP sing 89 n n C4' O4' ATP sing 90 n n C4' C3' ATP sing 91 n n C4' H4' ATP sing 92 n n O4' C1' ATP sing 93 n n C3' O3' ATP sing 94 n n C3' C2' ATP sing 95 n n C3' H3' ATP sing 96 n n O3' HO3' ATP sing 97 n n C2' O2' ATP sing 98 n n C2' C1' ATP sing 99 n n C2' H2' ATP sing 100 n n O2' HO2' ATP sing 101 n n C1' N9 ATP sing 102 n n C1' H1' ATP sing 103 n n N9 C8 ATP sing 104 n y N9 C4 ATP sing 105 n y C8 N7 ATP doub 106 n y C8 H8 ATP sing 107 n n N7 C5 ATP sing 108 n y C5 C6 ATP sing 109 n y C5 C4 ATP doub 110 n y C6 N6 ATP sing 111 n n C6 N1 ATP doub 112 n y N6 HN61 ATP sing 113 n n N6 HN62 ATP sing 114 n n N1 C2 ATP sing 115 n y C2 N3 ATP doub 116 n y C2 H2 ATP sing 117 n n N3 C4 ATP sing 118 n y # _atom_sites.entry_id 5U99 _atom_sites.fract_transf_matrix[1][1] 0.007421 _atom_sites.fract_transf_matrix[1][2] 0.004284 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008569 _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] 0.009009 _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 SO4 A 1 301 1 SO4 SO4 . C 2 SO4 A 1 302 2 SO4 SO4 . D 2 SO4 A 1 303 3 SO4 SO4 . E 3 MG A 1 304 1 MG MG . F 3 MG A 1 305 2 MG MG . G 4 ATP A 1 306 1 ATP ATP . H 5 HOH A 1 401 16 HOH HOH . H 5 HOH A 2 402 14 HOH HOH . H 5 HOH A 3 403 7 HOH HOH . H 5 HOH A 4 404 1 HOH HOH . H 5 HOH A 5 405 19 HOH HOH . H 5 HOH A 6 406 27 HOH HOH . H 5 HOH A 7 407 20 HOH HOH . H 5 HOH A 8 408 23 HOH HOH . H 5 HOH A 9 409 29 HOH HOH . H 5 HOH A 10 410 15 HOH HOH . H 5 HOH A 11 411 6 HOH HOH . H 5 HOH A 12 412 4 HOH HOH . H 5 HOH A 13 413 2 HOH HOH . H 5 HOH A 14 414 17 HOH HOH . H 5 HOH A 15 415 10 HOH HOH . H 5 HOH A 16 416 21 HOH HOH . H 5 HOH A 17 417 3 HOH HOH . H 5 HOH A 18 418 5 HOH HOH . H 5 HOH A 19 419 18 HOH HOH . H 5 HOH A 20 420 26 HOH HOH . H 5 HOH A 21 421 9 HOH HOH . H 5 HOH A 22 422 25 HOH HOH . H 5 HOH A 23 423 22 HOH HOH . H 5 HOH A 24 424 12 HOH HOH . H 5 HOH A 25 425 8 HOH HOH . H 5 HOH A 26 426 24 HOH HOH . H 5 HOH A 27 427 28 HOH HOH . H 5 HOH A 28 428 13 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 ATP . . . G 4 -23.823 1.605 -53.97 1 40.17 ? PG ATP 306 A 1 HETATM 2 O O1G ATP . . . G 4 -25.006 1.723 -54.886 1 38.86 ? O1G ATP 306 A 1 HETATM 3 O O2G ATP . . . G 4 -22.781 0.65 -54.509 1 38.7 ? O2G ATP 306 A 1 HETATM 4 O O3G ATP . . . G 4 -23.299 2.947 -53.504 1 39.99 ? O3G ATP 306 A 1 HETATM 5 P PB ATP . . . G 4 -25.222 1.462 -51.441 1 41.1 ? PB ATP 306 A 1 HETATM 6 O O1B ATP . . . G 4 -25.449 2.943 -51.655 1 39.84 ? O1B ATP 306 A 1 HETATM 7 O O2B ATP . . . G 4 -26.435 0.591 -51.238 1 40.4 ? O2B ATP 306 A 1 HETATM 8 O O3B ATP . . . G 4 -24.317 0.841 -52.631 1 38.86 ? O3B ATP 306 A 1 HETATM 9 P PA ATP . . . G 4 -22.854 1.922 -49.906 1 39.97 ? PA ATP 306 A 1 HETATM 10 O O1A ATP . . . G 4 -22.743 3.214 -50.696 1 36.29 ? O1A ATP 306 A 1 HETATM 11 O O2A ATP . . . G 4 -21.781 0.874 -50.028 1 38.5 ? O2A ATP 306 A 1 HETATM 12 O O3A ATP . . . G 4 -24.294 1.224 -50.14 1 39.87 ? O3A ATP 306 A 1 HETATM 13 O O5' ATP . . . G 4 -22.948 2.249 -48.348 1 39.65 ? O5' ATP 306 A 1 HETATM 14 C C5' ATP . . . G 4 -24.02 3.047 -47.845 1 42.27 ? C5' ATP 306 A 1 HETATM 15 C C4' ATP . . . G 4 -23.614 3.684 -46.525 1 41.7 ? C4' ATP 306 A 1 HETATM 16 O O4' ATP . . . G 4 -22.405 4.438 -46.706 1 42.08 ? O4' ATP 306 A 1 HETATM 17 C C3' ATP . . . G 4 -24.684 4.63 -45.974 1 42.42 ? C3' ATP 306 A 1 HETATM 18 O O3' ATP . . . G 4 -25.094 4.239 -44.655 1 38.69 ? O3' ATP 306 A 1 HETATM 19 C C2' ATP . . . G 4 -23.986 5.984 -45.966 1 43.6 ? C2' ATP 306 A 1 HETATM 20 O O2' ATP . . . G 4 -24.35 6.844 -44.876 1 45.22 ? O2' ATP 306 A 1 HETATM 21 C C1' ATP . . . G 4 -22.503 5.606 -45.905 1 41.95 ? C1' ATP 306 A 1 HETATM 22 N N9 ATP . . . G 4 -21.67 6.763 -46.324 1 42.47 ? N9 ATP 306 A 1 HETATM 23 C C8 ATP . . . G 4 -20.742 7.351 -45.538 1 40.71 ? C8 ATP 306 A 1 HETATM 24 N N7 ATP . . . G 4 -20.164 8.399 -46.171 1 41.23 ? N7 ATP 306 A 1 HETATM 25 C C5 ATP . . . G 4 -20.733 8.505 -47.384 1 41.25 ? C5 ATP 306 A 1 HETATM 26 C C6 ATP . . . G 4 -20.595 9.403 -48.554 1 41.43 ? C6 ATP 306 A 1 HETATM 27 N N6 ATP . . . G 4 -19.713 10.426 -48.558 1 42.86 ? N6 ATP 306 A 1 HETATM 28 N N1 ATP . . . G 4 -21.378 9.167 -49.628 1 41.51 ? N1 ATP 306 A 1 HETATM 29 C C2 ATP . . . G 4 -22.278 8.162 -49.662 1 41.88 ? C2 ATP 306 A 1 HETATM 30 N N3 ATP . . . G 4 -22.457 7.308 -48.631 1 40.5 ? N3 ATP 306 A 1 HETATM 31 C C4 ATP . . . G 4 -21.731 7.426 -47.486 1 41.14 ? C4 ATP 306 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 290 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 31 #