data_5F74 # _model_server_result.job_id sqlNeJB900p-LFrIlJ4t-g _model_server_result.datetime_utc '2024-11-22 00:24:15' _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 5f74 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":301}' # _entry.id 5F74 # _exptl.entry_id 5F74 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 347.221 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'ADENOSINE MONOPHOSPHATE' _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 5F74 _cell.length_a 115.62 _cell.length_b 115.62 _cell.length_c 59.372 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5F74 _symmetry.cell_setting ? _symmetry.Int_Tables_number 93 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 42 2 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA octameric 8 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E 1 1 A,B,C,D,E 2 1,2,3,4 # 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_565 -x,-y+1,z -1 0 0 0 -1 0 0 0 1 0 115.62 0 3 'crystal symmetry operation' 5_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 4 'crystal symmetry operation' 6_565 x,-y+1,-z 1 0 0 0 -1 0 0 0 -1 0 115.62 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 H14 N5 O7 P' _chem_comp.formula_weight 347.221 _chem_comp.id AMP _chem_comp.mon_nstd_flag . _chem_comp.name 'ADENOSINE MONOPHOSPHATE' _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 P O1P AMP doub 13 n n P O2P AMP sing 14 n n P O3P AMP sing 15 n n P O5' AMP sing 16 n n O2P HOP2 AMP sing 17 n n O3P HOP3 AMP sing 18 n n O5' C5' AMP sing 19 n n C5' C4' AMP sing 20 n n C5' "H5'1" AMP sing 21 n n C5' "H5'2" AMP sing 22 n n C4' O4' AMP sing 23 n n C4' C3' AMP sing 24 n n C4' H4' AMP sing 25 n n O4' C1' AMP sing 26 n n C3' O3' AMP sing 27 n n C3' C2' AMP sing 28 n n C3' H3' AMP sing 29 n n O3' HO3' AMP sing 30 n n C2' O2' AMP sing 31 n n C2' C1' AMP sing 32 n n C2' H2' AMP sing 33 n n O2' HO2' AMP sing 34 n n C1' N9 AMP sing 35 n n C1' H1' AMP sing 36 n n N9 C8 AMP sing 37 n y N9 C4 AMP sing 38 n y C8 N7 AMP doub 39 n y C8 H8 AMP sing 40 n n N7 C5 AMP sing 41 n y C5 C6 AMP sing 42 n y C5 C4 AMP doub 43 n y C6 N6 AMP sing 44 n n C6 N1 AMP doub 45 n y N6 HN61 AMP sing 46 n n N6 HN62 AMP sing 47 n n N1 C2 AMP sing 48 n y C2 N3 AMP doub 49 n y C2 H2 AMP sing 50 n n N3 C4 AMP sing 51 n y # _atom_sites.entry_id 5F74 _atom_sites.fract_transf_matrix[1][1] 0.008649 _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] 0.008649 _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] 0.016843 _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 C 3 AMP A 1 301 1 AMP AMP . D 4 HOH A 1 401 46 HOH HOH . D 4 HOH A 2 402 34 HOH HOH . D 4 HOH A 3 403 37 HOH HOH . D 4 HOH A 4 404 3 HOH HOH . D 4 HOH A 5 405 16 HOH HOH . D 4 HOH A 6 406 15 HOH HOH . D 4 HOH A 7 407 13 HOH HOH . D 4 HOH A 8 408 9 HOH HOH . D 4 HOH A 9 409 41 HOH HOH . D 4 HOH A 10 410 31 HOH HOH . D 4 HOH A 11 411 40 HOH HOH . D 4 HOH A 12 412 32 HOH HOH . D 4 HOH A 13 413 25 HOH HOH . D 4 HOH A 14 414 29 HOH HOH . D 4 HOH A 15 415 6 HOH HOH . D 4 HOH A 16 416 4 HOH HOH . D 4 HOH A 17 417 26 HOH HOH . D 4 HOH A 18 418 23 HOH HOH . D 4 HOH A 19 419 19 HOH HOH . D 4 HOH A 20 420 44 HOH HOH . D 4 HOH A 21 421 28 HOH HOH . D 4 HOH A 22 422 7 HOH HOH . D 4 HOH A 23 423 24 HOH HOH . D 4 HOH A 24 424 27 HOH HOH . D 4 HOH A 25 425 22 HOH HOH . D 4 HOH A 26 426 43 HOH HOH . D 4 HOH A 27 427 18 HOH HOH . D 4 HOH A 28 428 10 HOH HOH . D 4 HOH A 29 429 21 HOH HOH . D 4 HOH A 30 430 20 HOH HOH . D 4 HOH A 31 431 17 HOH HOH . D 4 HOH A 32 432 11 HOH HOH . D 4 HOH A 33 433 30 HOH HOH . D 4 HOH A 34 434 12 HOH HOH . D 4 HOH A 35 435 35 HOH HOH . D 4 HOH A 36 436 1 HOH HOH . D 4 HOH A 37 437 42 HOH HOH . D 4 HOH A 38 438 33 HOH HOH . D 4 HOH A 39 439 47 HOH HOH . D 4 HOH A 40 440 5 HOH HOH . D 4 HOH A 41 441 45 HOH HOH . D 4 HOH A 42 442 36 HOH HOH . D 4 HOH A 43 443 38 HOH HOH . E 4 HOH B 1 201 8 HOH HOH . E 4 HOH B 2 202 14 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 P AMP . . . C 3 13.836 41.187 10.436 1 43.39 ? P AMP 301 A 1 HETATM 2 O O1P AMP . . . C 3 12.735 40.967 9.43 1 51.32 -1 O1P AMP 301 A 1 HETATM 3 O O2P AMP . . . C 3 15.146 40.499 10.169 1 56.06 ? O2P AMP 301 A 1 HETATM 4 O O3P AMP . . . C 3 13.354 41.311 11.867 1 46.73 -1 O3P AMP 301 A 1 HETATM 5 O O5' AMP . . . C 3 14.241 42.883 10.146 1 53.62 ? O5' AMP 301 A 1 HETATM 6 C C5' AMP . . . C 3 15.481 43.339 10.45 1 66.65 ? C5' AMP 301 A 1 HETATM 7 C C4' AMP . . . C 3 16.031 44.164 9.184 1 72.15 ? C4' AMP 301 A 1 HETATM 8 O O4' AMP . . . C 3 16.971 43.348 8.509 1 81.11 ? O4' AMP 301 A 1 HETATM 9 C C3' AMP . . . C 3 14.897 44.501 8.12 1 76.38 ? C3' AMP 301 A 1 HETATM 10 O O3' AMP . . . C 3 14.487 45.853 8.171 1 68.67 ? O3' AMP 301 A 1 HETATM 11 C C2' AMP . . . C 3 15.586 44.178 6.713 1 83.19 ? C2' AMP 301 A 1 HETATM 12 O O2' AMP . . . C 3 15.927 45.388 6.042 1 81.76 ? O2' AMP 301 A 1 HETATM 13 C C1' AMP . . . C 3 17.006 43.562 7.123 1 80.66 ? C1' AMP 301 A 1 HETATM 14 N N9 AMP . . . C 3 17.413 42.298 6.326 1 79.94 ? N9 AMP 301 A 1 HETATM 15 C C8 AMP . . . C 3 17.091 40.919 6.629 1 74.02 ? C8 AMP 301 A 1 HETATM 16 N N7 AMP . . . C 3 17.607 40.038 5.738 1 72.02 ? N7 AMP 301 A 1 HETATM 17 C C5 AMP . . . C 3 18.31 40.84 4.798 1 76.92 ? C5 AMP 301 A 1 HETATM 18 C C6 AMP . . . C 3 19.071 40.508 3.631 1 82.47 ? C6 AMP 301 A 1 HETATM 19 N N6 AMP . . . C 3 19.244 39.191 3.207 1 75.04 ? N6 AMP 301 A 1 HETATM 20 N N1 AMP . . . C 3 19.663 41.516 2.867 1 91.63 ? N1 AMP 301 A 1 HETATM 21 C C2 AMP . . . C 3 19.471 42.81 3.324 1 89.88 ? C2 AMP 301 A 1 HETATM 22 N N3 AMP . . . C 3 18.788 43.271 4.39 1 92.78 ? N3 AMP 301 A 1 HETATM 23 C C4 AMP . . . C 3 18.197 42.243 5.145 1 83.67 ? C4 AMP 301 A 1 HETATM 24 H "H5'1" AMP . . . C 3 15.522 44.022 11.336 1 79.98 ? "H5'1" AMP 301 A 1 HETATM 25 H "H5'2" AMP . . . C 3 16.219 42.524 10.667 1 79.98 ? "H5'2" AMP 301 A 1 HETATM 26 H H4' AMP . . . C 3 16.606 45.065 9.505 1 86.57 ? H4' AMP 301 A 1 HETATM 27 H H3' AMP . . . C 3 14.021 43.818 8.274 1 91.65 ? H3' AMP 301 A 1 HETATM 28 H HO3' AMP . . . C 3 13.588 45.847 8.491 1 82.41 ? HO3' AMP 301 A 1 HETATM 29 H H2' AMP . . . C 3 14.952 43.524 6.076 1 99.83 ? H2' AMP 301 A 1 HETATM 30 H HO2' AMP . . . C 3 15.345 45.466 5.293 1 98.11 ? HO2' AMP 301 A 1 HETATM 31 H H1' AMP . . . C 3 17.843 44.285 6.94 1 96.79 ? H1' AMP 301 A 1 HETATM 32 H H8 AMP . . . C 3 16.49 40.637 7.494 1 88.83 ? H8 AMP 301 A 1 HETATM 33 H HN61 AMP . . . C 3 19.224 38.958 2.237 1 90.04 ? HN61 AMP 301 A 1 HETATM 34 H HN62 AMP . . . C 3 19.391 38.461 3.872 1 90.04 ? HN62 AMP 301 A 1 HETATM 35 H H2 AMP . . . C 3 19.959 43.568 2.691 1 107.86 ? H2 AMP 301 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 289 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 35 #