data_3L31 # _model_server_result.job_id 2q8MtfGVkL9HnI6Z_PheSg _model_server_result.datetime_utc '2024-11-15 14:55:41' _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 3l31 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1}' # _entry.id 3L31 # _exptl.entry_id 3L31 _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 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 3L31 _cell.length_a 58.96 _cell.length_b 79.61 _cell.length_c 116.36 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3L31 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 # 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 D N 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 3L31 _atom_sites.fract_transf_matrix[1][1] 0.016961 _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] 0.012561 _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] 0.008594 _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 AMP A 1 1 1 AMP AMP . D 2 AMP B 1 1 1 AMP AMP . E 3 HOH A 1 2 2 HOH HOH . E 3 HOH A 2 3 3 HOH HOH . E 3 HOH A 3 4 4 HOH HOH . E 3 HOH A 4 5 5 HOH HOH . E 3 HOH A 5 6 6 HOH HOH . E 3 HOH A 6 8 8 HOH HOH . E 3 HOH A 7 9 9 HOH HOH . E 3 HOH A 8 10 10 HOH HOH . E 3 HOH A 9 11 11 HOH HOH . E 3 HOH A 10 12 12 HOH HOH . E 3 HOH A 11 13 13 HOH HOH . E 3 HOH A 12 16 16 HOH HOH . E 3 HOH A 13 17 17 HOH HOH . E 3 HOH A 14 18 18 HOH HOH . E 3 HOH A 15 20 20 HOH HOH . E 3 HOH A 16 21 21 HOH HOH . E 3 HOH A 17 23 23 HOH HOH . E 3 HOH A 18 24 24 HOH HOH . E 3 HOH A 19 26 26 HOH HOH . E 3 HOH A 20 28 28 HOH HOH . E 3 HOH A 21 29 29 HOH HOH . E 3 HOH A 22 32 32 HOH HOH . E 3 HOH A 23 34 34 HOH HOH . E 3 HOH A 24 35 35 HOH HOH . E 3 HOH A 25 36 36 HOH HOH . E 3 HOH A 26 38 38 HOH HOH . E 3 HOH A 27 42 42 HOH HOH . E 3 HOH A 28 43 43 HOH HOH . E 3 HOH A 29 44 44 HOH HOH . E 3 HOH A 30 46 46 HOH HOH . E 3 HOH A 31 47 47 HOH HOH . E 3 HOH A 32 48 48 HOH HOH . E 3 HOH A 33 49 49 HOH HOH . E 3 HOH A 34 50 50 HOH HOH . E 3 HOH A 35 51 51 HOH HOH . E 3 HOH A 36 52 52 HOH HOH . E 3 HOH A 37 53 53 HOH HOH . E 3 HOH A 38 54 54 HOH HOH . E 3 HOH A 39 55 55 HOH HOH . E 3 HOH A 40 57 57 HOH HOH . E 3 HOH A 41 59 59 HOH HOH . E 3 HOH A 42 60 60 HOH HOH . E 3 HOH A 43 61 61 HOH HOH . E 3 HOH A 44 62 62 HOH HOH . E 3 HOH A 45 317 317 HOH HOH . E 3 HOH A 46 318 318 HOH HOH . E 3 HOH A 47 319 319 HOH HOH . E 3 HOH A 48 320 320 HOH HOH . E 3 HOH A 49 321 321 HOH HOH . E 3 HOH A 50 322 322 HOH HOH . E 3 HOH A 51 323 323 HOH HOH . E 3 HOH A 52 324 324 HOH HOH . E 3 HOH A 53 325 325 HOH HOH . E 3 HOH A 54 326 326 HOH HOH . E 3 HOH A 55 327 327 HOH HOH . E 3 HOH A 56 328 328 HOH HOH . E 3 HOH A 57 329 329 HOH HOH . E 3 HOH A 58 330 330 HOH HOH . E 3 HOH A 59 331 331 HOH HOH . E 3 HOH A 60 332 332 HOH HOH . E 3 HOH A 61 333 333 HOH HOH . E 3 HOH A 62 334 334 HOH HOH . F 3 HOH B 1 7 7 HOH HOH . F 3 HOH B 2 15 15 HOH HOH . F 3 HOH B 3 19 19 HOH HOH . F 3 HOH B 4 22 22 HOH HOH . F 3 HOH B 5 25 25 HOH HOH . F 3 HOH B 6 27 27 HOH HOH . F 3 HOH B 7 30 30 HOH HOH . F 3 HOH B 8 31 31 HOH HOH . F 3 HOH B 9 33 33 HOH HOH . F 3 HOH B 10 37 37 HOH HOH . F 3 HOH B 11 39 39 HOH HOH . F 3 HOH B 12 40 40 HOH HOH . F 3 HOH B 13 41 41 HOH HOH . F 3 HOH B 14 45 45 HOH HOH . F 3 HOH B 15 56 56 HOH HOH . F 3 HOH B 16 58 58 HOH HOH . F 3 HOH B 17 63 63 HOH HOH . F 3 HOH B 18 64 64 HOH HOH . F 3 HOH B 19 317 317 HOH HOH . F 3 HOH B 20 318 318 HOH HOH . F 3 HOH B 21 319 319 HOH HOH . F 3 HOH B 22 320 320 HOH HOH . F 3 HOH B 23 321 321 HOH HOH . F 3 HOH B 24 322 322 HOH HOH . F 3 HOH B 25 323 323 HOH HOH . F 3 HOH B 26 324 324 HOH HOH . F 3 HOH B 27 325 325 HOH HOH . F 3 HOH B 28 326 326 HOH HOH . F 3 HOH B 29 327 327 HOH HOH . F 3 HOH B 30 328 328 HOH HOH . F 3 HOH B 31 329 329 HOH HOH . F 3 HOH B 32 330 330 HOH HOH . F 3 HOH B 33 331 331 HOH HOH . F 3 HOH B 34 332 332 HOH HOH . F 3 HOH B 35 333 333 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 . . . D 2 -10.098 -17.803 12.74 1 56.95 ? P AMP 1 B 1 HETATM 2 O O1P AMP . . . D 2 -9.636 -19.071 13.365 1 56.21 ? O1P AMP 1 B 1 HETATM 3 O O2P AMP . . . D 2 -11.163 -18.038 11.718 1 54.72 ? O2P AMP 1 B 1 HETATM 4 O O3P AMP . . . D 2 -10.501 -16.707 13.713 1 56.96 ? O3P AMP 1 B 1 HETATM 5 O O5' AMP . . . D 2 -8.829 -17.273 11.899 1 49.65 ? O5' AMP 1 B 1 HETATM 6 C C5' AMP . . . D 2 -7.552 -17.016 12.473 1 51.3 ? C5' AMP 1 B 1 HETATM 7 C C4' AMP . . . D 2 -6.626 -16.446 11.39 1 51.08 ? C4' AMP 1 B 1 HETATM 8 O O4' AMP . . . D 2 -6.38 -17.435 10.357 1 52.53 ? O4' AMP 1 B 1 HETATM 9 C C3' AMP . . . D 2 -7.286 -15.256 10.691 1 48.56 ? C3' AMP 1 B 1 HETATM 10 O O3' AMP . . . D 2 -6.349 -14.309 10.165 1 49.35 ? O3' AMP 1 B 1 HETATM 11 C C2' AMP . . . D 2 -7.947 -15.857 9.476 1 48.43 ? C2' AMP 1 B 1 HETATM 12 O O2' AMP . . . D 2 -8.122 -14.908 8.397 1 44.95 ? O2' AMP 1 B 1 HETATM 13 C C1' AMP . . . D 2 -6.992 -17.01 9.128 1 50.14 ? C1' AMP 1 B 1 HETATM 14 N N9 AMP . . . D 2 -7.776 -18.123 8.569 1 52.16 ? N9 AMP 1 B 1 HETATM 15 C C8 AMP . . . D 2 -9.08 -18.328 8.825 1 51.89 ? C8 AMP 1 B 1 HETATM 16 N N7 AMP . . . D 2 -9.551 -19.417 8.178 1 52.25 ? N7 AMP 1 B 1 HETATM 17 C C5 AMP . . . D 2 -8.519 -19.912 7.485 1 56.06 ? C5 AMP 1 B 1 HETATM 18 C C6 AMP . . . D 2 -8.336 -21.053 6.576 1 58.55 ? C6 AMP 1 B 1 HETATM 19 N N6 AMP . . . D 2 -9.371 -21.885 6.302 1 59.03 ? N6 AMP 1 B 1 HETATM 20 N N1 AMP . . . D 2 -7.115 -21.218 6.039 1 60.41 ? N1 AMP 1 B 1 HETATM 21 C C2 AMP . . . D 2 -6.09 -20.394 6.334 1 59.82 ? C2 AMP 1 B 1 HETATM 22 N N3 AMP . . . D 2 -6.178 -19.337 7.139 1 57.09 ? N3 AMP 1 B 1 HETATM 23 C C4 AMP . . . D 2 -7.352 -19.055 7.733 1 55.92 ? C4 AMP 1 B 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 268 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 23 #