data_1H3D # _model_server_result.job_id g_LaAt5RHJ4uZ1s4yO53wg _model_server_result.datetime_utc '2024-11-16 19:53:24' _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 1h3d # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":400}' # _entry.id 1H3D # _exptl.entry_id 1H3D _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 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 1H3D _cell.length_a 133.645 _cell.length_b 133.645 _cell.length_c 114.118 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1H3D _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 PQS _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 _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' 17_555 x-y+1/3,-y+2/3,-z+2/3 1 0 0 0 -1 0 0 0 -1 0 77.159977 76.078667 3 'crystal symmetry operation' 2_655 -y+1,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 133.645 0 0 4 'crystal symmetry operation' 3_665 -x+y+1,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 66.8225 115.739965 0 5 'crystal symmetry operation' 16_545 y+1/3,x-1/3,-z+2/3 -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 66.8225 -38.579988 76.078667 6 'crystal symmetry operation' 18_655 -x+4/3,-x+y+2/3,-z+2/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 133.645 77.159977 76.078667 # _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 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 1H3D _atom_sites.fract_transf_matrix[1][1] 0.007482 _atom_sites.fract_transf_matrix[1][2] 0.00432 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00864 _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] 0.008763 _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 AMP A 1 400 400 AMP AMP . C 3 TLA A 1 410 410 TLA TLA . D 3 TLA A 1 411 411 TLA TLA . # 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 . . . B 2 50.139 52.344 45.262 1 61.14 ? P AMP 400 A 1 HETATM 2 O O1P AMP . . . B 2 49.423 53.328 46.202 1 61.57 ? O1P AMP 400 A 1 HETATM 3 O O2P AMP . . . B 2 51.421 51.958 45.9 1 61.25 ? O2P AMP 400 A 1 HETATM 4 O O3P AMP . . . B 2 50.353 53.032 43.887 1 62.29 ? O3P AMP 400 A 1 HETATM 5 O O5' AMP . . . B 2 49.327 50.986 45.029 1 60.45 ? O5' AMP 400 A 1 HETATM 6 C C5' AMP . . . B 2 48.034 51.036 44.496 1 61.25 ? C5' AMP 400 A 1 HETATM 7 C C4' AMP . . . B 2 47.823 50.253 43.198 1 61.66 ? C4' AMP 400 A 1 HETATM 8 O O4' AMP . . . B 2 47.945 48.838 43.332 1 61.95 ? O4' AMP 400 A 1 HETATM 9 C C3' AMP . . . B 2 46.365 50.458 42.888 1 62.15 ? C3' AMP 400 A 1 HETATM 10 O O3' AMP . . . B 2 46.124 50.438 41.508 1 62.02 ? O3' AMP 400 A 1 HETATM 11 C C2' AMP . . . B 2 45.697 49.31 43.608 1 61.63 ? C2' AMP 400 A 1 HETATM 12 O O2' AMP . . . B 2 44.598 48.951 42.867 1 60.84 ? O2' AMP 400 A 1 HETATM 13 C C1' AMP . . . B 2 46.727 48.197 43.677 1 62.27 ? C1' AMP 400 A 1 HETATM 14 N N9 AMP . . . B 2 46.884 47.779 45.074 1 63.21 ? N9 AMP 400 A 1 HETATM 15 C C8 AMP . . . B 2 47.504 48.56 46.015 1 63.95 ? C8 AMP 400 A 1 HETATM 16 N N7 AMP . . . B 2 47.508 47.935 47.21 1 63.98 ? N7 AMP 400 A 1 HETATM 17 C C5 AMP . . . B 2 46.911 46.755 47.047 1 63.7 ? C5 AMP 400 A 1 HETATM 18 C C6 AMP . . . B 2 46.693 45.763 47.973 1 64.08 ? C6 AMP 400 A 1 HETATM 19 N N6 AMP . . . B 2 47.112 45.983 49.212 1 62.1 ? N6 AMP 400 A 1 HETATM 20 N N1 AMP . . . B 2 46.046 44.604 47.577 1 64.59 ? N1 AMP 400 A 1 HETATM 21 C C2 AMP . . . B 2 45.637 44.478 46.252 1 63.89 ? C2 AMP 400 A 1 HETATM 22 N N3 AMP . . . B 2 45.868 45.491 45.326 1 63.71 ? N3 AMP 400 A 1 HETATM 23 C C4 AMP . . . B 2 46.504 46.623 45.716 1 63.73 ? C4 AMP 400 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 5 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 280 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 23 #