data_5LDM # _model_server_result.job_id LdRfq0HbchwoDDXJPjZqBw _model_server_result.datetime_utc '2024-10-14 14:21:01' _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 5ldm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":201}' # _entry.id 5LDM # _exptl.entry_id 5LDM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 347.221 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-2'-MONOPHOSPHATE" _entity.pdbx_number_of_molecules 2 _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 5LDM _cell.length_a 108.07 _cell.length_b 108.07 _cell.length_c 72.64 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5LDM _symmetry.cell_setting ? _symmetry.Int_Tables_number 90 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 4 21 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 ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,F 1 1 B,E,G 2 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 E N N # _chem_comp.formula 'C10 H14 N5 O7 P' _chem_comp.formula_weight 347.221 _chem_comp.id 2AM _chem_comp.mon_nstd_flag . _chem_comp.name "ADENOSINE-2'-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 2AM doub 1 n n P O2P 2AM sing 2 n n P O3P 2AM sing 3 n n P O2' 2AM sing 4 n n O2P HOP2 2AM sing 5 n n O3P HOP3 2AM sing 6 n n C5' O5' 2AM sing 7 n n C5' C4' 2AM sing 8 n n C5' "H5'1" 2AM sing 9 n n C5' "H5'2" 2AM sing 10 n n O5' HO5' 2AM sing 11 n n C4' O4' 2AM sing 12 n n C4' C3' 2AM sing 13 n n C4' H4' 2AM sing 14 n n O4' C1' 2AM sing 15 n n C3' O3' 2AM sing 16 n n C3' C2' 2AM sing 17 n n C3' H3' 2AM sing 18 n n O3' HO3' 2AM sing 19 n n C2' O2' 2AM sing 20 n n C2' C1' 2AM sing 21 n n C2' H2' 2AM sing 22 n n C1' N9 2AM sing 23 n n C1' H1' 2AM sing 24 n n N9 C8 2AM sing 25 n y N9 C4 2AM sing 26 n y C8 N7 2AM doub 27 n y C8 H8 2AM sing 28 n n N7 C5 2AM sing 29 n y C5 C6 2AM sing 30 n y C5 C4 2AM doub 31 n y C6 N6 2AM sing 32 n n C6 N1 2AM doub 33 n y N6 HN61 2AM sing 34 n n N6 HN62 2AM sing 35 n n N1 C2 2AM sing 36 n y C2 N3 2AM doub 37 n y C2 H2 2AM sing 38 n n N3 C4 2AM sing 39 n y # _atom_sites.entry_id 5LDM _atom_sites.fract_transf_matrix[1][1] 0.009253 _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] 0.009253 _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] 0.013767 _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 2 2AM A 1 201 1 2AM 2AM . D 3 CL A 1 202 1 CL CL . E 2 2AM B 1 201 2 2AM 2AM . F 4 HOH A 1 301 6 HOH HOH . F 4 HOH A 2 302 62 HOH HOH . F 4 HOH A 3 303 48 HOH HOH . F 4 HOH A 4 304 4 HOH HOH . F 4 HOH A 5 305 63 HOH HOH . F 4 HOH A 6 306 56 HOH HOH . F 4 HOH A 7 307 32 HOH HOH . F 4 HOH A 8 308 22 HOH HOH . F 4 HOH A 9 309 60 HOH HOH . F 4 HOH A 10 310 2 HOH HOH . F 4 HOH A 11 311 25 HOH HOH . F 4 HOH A 12 312 11 HOH HOH . F 4 HOH A 13 313 3 HOH HOH . F 4 HOH A 14 314 20 HOH HOH . F 4 HOH A 15 315 43 HOH HOH . F 4 HOH A 16 316 23 HOH HOH . F 4 HOH A 17 317 5 HOH HOH . F 4 HOH A 18 318 57 HOH HOH . F 4 HOH A 19 319 1 HOH HOH . F 4 HOH A 20 320 27 HOH HOH . F 4 HOH A 21 321 59 HOH HOH . F 4 HOH A 22 322 29 HOH HOH . F 4 HOH A 23 323 55 HOH HOH . F 4 HOH A 24 324 37 HOH HOH . F 4 HOH A 25 325 30 HOH HOH . F 4 HOH A 26 326 18 HOH HOH . F 4 HOH A 27 327 58 HOH HOH . F 4 HOH A 28 328 31 HOH HOH . F 4 HOH A 29 329 34 HOH HOH . F 4 HOH A 30 330 54 HOH HOH . F 4 HOH A 31 331 28 HOH HOH . F 4 HOH A 32 332 41 HOH HOH . F 4 HOH A 33 333 61 HOH HOH . F 4 HOH A 34 334 24 HOH HOH . G 4 HOH B 1 301 64 HOH HOH . G 4 HOH B 2 302 65 HOH HOH . G 4 HOH B 3 303 8 HOH HOH . G 4 HOH B 4 304 44 HOH HOH . G 4 HOH B 5 305 12 HOH HOH . G 4 HOH B 6 306 9 HOH HOH . G 4 HOH B 7 307 21 HOH HOH . G 4 HOH B 8 308 14 HOH HOH . G 4 HOH B 9 309 13 HOH HOH . G 4 HOH B 10 310 35 HOH HOH . G 4 HOH B 11 311 39 HOH HOH . G 4 HOH B 12 312 7 HOH HOH . G 4 HOH B 13 313 68 HOH HOH . G 4 HOH B 14 314 10 HOH HOH . G 4 HOH B 15 315 46 HOH HOH . G 4 HOH B 16 316 45 HOH HOH . G 4 HOH B 17 317 17 HOH HOH . G 4 HOH B 18 318 40 HOH HOH . G 4 HOH B 19 319 67 HOH HOH . G 4 HOH B 20 320 19 HOH HOH . G 4 HOH B 21 321 16 HOH HOH . G 4 HOH B 22 322 33 HOH HOH . G 4 HOH B 23 323 66 HOH HOH . G 4 HOH B 24 324 38 HOH HOH . G 4 HOH B 25 325 15 HOH HOH . G 4 HOH B 26 326 53 HOH HOH . G 4 HOH B 27 327 50 HOH HOH . G 4 HOH B 28 328 36 HOH HOH . G 4 HOH B 29 329 69 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 2AM . . . E 2 35.202 -23.811 14.574 1 89.19 ? P 2AM 201 B 1 HETATM 2 O O1P 2AM . . . E 2 34.548 -22.79 13.678 1 89.62 ? O1P 2AM 201 B 1 HETATM 3 O O2P 2AM . . . E 2 34.293 -25.008 14.726 1 89.07 ? O2P 2AM 201 B 1 HETATM 4 O O3P 2AM . . . E 2 35.445 -23.182 15.923 1 88.66 ? O3P 2AM 201 B 1 HETATM 5 C C5' 2AM . . . E 2 39.369 -27.43 16.227 1 108.52 ? C5' 2AM 201 B 1 HETATM 6 O O5' 2AM . . . E 2 39.721 -28.635 15.584 1 108.05 ? O5' 2AM 201 B 1 HETATM 7 C C4' 2AM . . . E 2 39.33 -26.285 15.214 1 109.23 ? C4' 2AM 201 B 1 HETATM 8 O O4' 2AM . . . E 2 39.125 -26.798 13.906 1 109.68 ? O4' 2AM 201 B 1 HETATM 9 C C3' 2AM . . . E 2 38.209 -25.287 15.487 1 110.69 ? C3' 2AM 201 B 1 HETATM 10 O O3' 2AM . . . E 2 38.718 -23.974 15.546 1 110.1 ? O3' 2AM 201 B 1 HETATM 11 C C2' 2AM . . . E 2 37.25 -25.451 14.322 1 112.41 ? C2' 2AM 201 B 1 HETATM 12 O O2' 2AM . . . E 2 36.617 -24.247 13.929 1 113.89 ? O2' 2AM 201 B 1 HETATM 13 C C1' 2AM . . . E 2 38.128 -26.049 13.231 1 111.7 ? C1' 2AM 201 B 1 HETATM 14 N N9 2AM . . . E 2 37.321 -26.872 12.303 1 112.86 ? N9 2AM 201 B 1 HETATM 15 C C8 2AM . . . E 2 36.973 -26.525 11.022 1 112.76 ? C8 2AM 201 B 1 HETATM 16 N N7 2AM . . . E 2 36.236 -27.525 10.488 1 113.48 ? N7 2AM 201 B 1 HETATM 17 C C5 2AM . . . E 2 36.103 -28.507 11.406 1 114.65 ? C5 2AM 201 B 1 HETATM 18 C C6 2AM . . . E 2 35.452 -29.735 11.372 1 116.16 ? C6 2AM 201 B 1 HETATM 19 N N6 2AM . . . E 2 34.803 -30.119 10.273 1 116.89 ? N6 2AM 201 B 1 HETATM 20 N N1 2AM . . . E 2 35.484 -30.553 12.483 1 116.33 ? N1 2AM 201 B 1 HETATM 21 C C2 2AM . . . E 2 36.159 -30.146 13.617 1 115.97 ? C2 2AM 201 B 1 HETATM 22 N N3 2AM . . . E 2 36.803 -28.924 13.643 1 115.54 ? N3 2AM 201 B 1 HETATM 23 C C4 2AM . . . E 2 36.781 -28.113 12.554 1 114.53 ? C4 2AM 201 B 1 HETATM 24 H "H5'1" 2AM . . . E 2 40.096 -27.205 17.007 1 130.22 ? "H5'1" 2AM 201 B 1 HETATM 25 H "H5'2" 2AM . . . E 2 38.391 -27.538 16.696 1 130.22 ? "H5'2" 2AM 201 B 1 HETATM 26 H HO5' 2AM . . . E 2 39.862 -28.467 14.629 1 129.67 ? HO5' 2AM 201 B 1 HETATM 27 H H4' 2AM . . . E 2 40.281 -25.756 15.255 1 131.08 ? H4' 2AM 201 B 1 HETATM 28 H H3' 2AM . . . E 2 37.703 -25.549 16.417 1 132.82 ? H3' 2AM 201 B 1 HETATM 29 H HO3' 2AM . . . E 2 38.339 -23.444 14.814 1 132.13 ? HO3' 2AM 201 B 1 HETATM 30 H H2' 2AM . . . E 2 36.494 -26.186 14.598 1 134.9 ? H2' 2AM 201 B 1 HETATM 31 H H1' 2AM . . . E 2 38.595 -25.233 12.68 1 134.03 ? H1' 2AM 201 B 1 HETATM 32 H H8 2AM . . . E 2 37.245 -25.597 10.519 1 135.31 ? H8 2AM 201 B 1 HETATM 33 H HN61 2AM . . . E 2 34.784 -29.515 9.458 1 140.27 ? HN61 2AM 201 B 1 HETATM 34 H HN62 2AM . . . E 2 34.333 -31.018 10.251 1 140.27 ? HN62 2AM 201 B 1 HETATM 35 H H2 2AM . . . E 2 36.184 -30.792 14.495 1 139.16 ? H2 2AM 201 B 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 348 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 35 #