data_1GGM # _model_server_result.job_id 1IN9SKOuXHWT0H_WLdeXUg _model_server_result.datetime_utc '2024-11-15 17:14:59' _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 1ggm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":2550}' # _entry.id 1GGM # _exptl.entry_id 1GGM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 404.273 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "GLYCYL-ADENOSINE-5'-PHOSPHATE" _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 1GGM _cell.length_a 122.5 _cell.length_b 250.1 _cell.length_c 106 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1GGM _symmetry.cell_setting orthorhombic _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA,PQS _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 'C12 H17 N6 O8 P' _chem_comp.formula_weight 404.273 _chem_comp.id GAP _chem_comp.mon_nstd_flag . _chem_comp.name "GLYCYL-ADENOSINE-5'-PHOSPHATE" _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 N CA GAP sing 83 n n N H1 GAP sing 84 n n N H2A GAP sing 85 n n N H3 GAP sing 86 n n CA C GAP sing 87 n n CA HA1 GAP sing 88 n n CA HA2 GAP sing 89 n n C O GAP doub 90 n n C O3A GAP sing 91 n n PA O1A GAP doub 92 n n PA O2A GAP sing 93 n n PA O3A GAP sing 94 n n PA O5' GAP sing 95 n n C5' O5' GAP sing 96 n n C5' C4' GAP sing 97 n n C5' "H5'1" GAP sing 98 n n C5' "H5'2" GAP sing 99 n n C4' O4' GAP sing 100 n n C4' C3' GAP sing 101 n n C4' H4' GAP sing 102 n n O4' C1' GAP sing 103 n n C3' O3' GAP sing 104 n n C3' C2' GAP sing 105 n n C3' H3' GAP sing 106 n n O3' "HO'3" GAP sing 107 n n C2' O2' GAP sing 108 n n C2' C1' GAP sing 109 n n C2' H2' GAP sing 110 n n O2' "HO'2" GAP sing 111 n n C1' N9 GAP sing 112 n n C1' H1' GAP sing 113 n n N9 C8 GAP sing 114 n y N9 C4 GAP sing 115 n y C8 N7 GAP doub 116 n y C8 H8 GAP sing 117 n n N7 C5 GAP sing 118 n y C5 C6 GAP sing 119 n y C5 C4 GAP doub 120 n y C6 N6 GAP sing 121 n n C6 N1 GAP doub 122 n y N6 H61 GAP sing 123 n n N6 H62 GAP sing 124 n n N1 C2 GAP sing 125 n y C2 N3 GAP doub 126 n y C2 H2 GAP sing 127 n n N3 C4 GAP sing 128 n y # _atom_sites.entry_id 1GGM _atom_sites.fract_transf_matrix[1][1] 0.008163 _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] 0.003998 _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] 0.009434 _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 GAP A 1 1550 550 GAP GAP . D 2 GAP B 1 2550 550 GAP GAP . E 3 HOH A 1 550 550 HOH HOH . F 3 HOH B 1 551 551 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 N N GAP . . . D 2 36.968 41.967 58.014 1 55.62 ? N GAP 2550 B 1 HETATM 2 C CA GAP . . . D 2 36.848 41.642 59.479 1 59.1 ? CA GAP 2550 B 1 HETATM 3 C C GAP . . . D 2 35.453 41.139 59.883 1 58.99 ? C GAP 2550 B 1 HETATM 4 O O GAP . . . D 2 34.695 40.938 58.901 1 61.04 ? O GAP 2550 B 1 HETATM 5 P PA GAP . . . D 2 33.681 40.491 61.557 1 56.24 ? PA GAP 2550 B 1 HETATM 6 O O1A GAP . . . D 2 33.916 39.726 62.825 1 57.9 ? O1A GAP 2550 B 1 HETATM 7 O O2A GAP . . . D 2 32.962 39.833 60.43 1 53.9 ? O2A GAP 2550 B 1 HETATM 8 O O3A GAP . . . D 2 35.146 41.019 61.11 1 56.6 ? O3A GAP 2550 B 1 HETATM 9 C C5' GAP . . . D 2 32.456 42.716 60.913 1 48.46 ? C5' GAP 2550 B 1 HETATM 10 O O5' GAP . . . D 2 32.856 41.803 61.926 1 52.34 ? O5' GAP 2550 B 1 HETATM 11 C C4' GAP . . . D 2 30.983 42.564 60.615 1 45.73 ? C4' GAP 2550 B 1 HETATM 12 O O4' GAP . . . D 2 30.743 41.231 60.136 1 43.05 ? O4' GAP 2550 B 1 HETATM 13 C C3' GAP . . . D 2 30.028 42.716 61.788 1 45.46 ? C3' GAP 2550 B 1 HETATM 14 O O3' GAP . . . D 2 29.66 44.087 61.952 1 43.47 ? O3' GAP 2550 B 1 HETATM 15 C C2' GAP . . . D 2 28.808 41.887 61.376 1 45.16 ? C2' GAP 2550 B 1 HETATM 16 O O2' GAP . . . D 2 27.758 42.599 60.767 1 45.83 ? O2' GAP 2550 B 1 HETATM 17 C C1' GAP . . . D 2 29.392 40.904 60.367 1 45.4 ? C1' GAP 2550 B 1 HETATM 18 N N9 GAP . . . D 2 29.321 39.531 60.818 1 46.53 ? N9 GAP 2550 B 1 HETATM 19 C C8 GAP . . . D 2 30.334 38.776 61.337 1 49.46 ? C8 GAP 2550 B 1 HETATM 20 N N7 GAP . . . D 2 29.98 37.549 61.633 1 51.45 ? N7 GAP 2550 B 1 HETATM 21 C C5 GAP . . . D 2 28.638 37.503 61.285 1 48.99 ? C5 GAP 2550 B 1 HETATM 22 C C6 GAP . . . D 2 27.704 36.472 61.339 1 48.46 ? C6 GAP 2550 B 1 HETATM 23 N N6 GAP . . . D 2 27.998 35.239 61.759 1 46.95 ? N6 GAP 2550 B 1 HETATM 24 N N1 GAP . . . D 2 26.449 36.753 60.934 1 48.14 ? N1 GAP 2550 B 1 HETATM 25 C C2 GAP . . . D 2 26.18 37.992 60.48 1 48.41 ? C2 GAP 2550 B 1 HETATM 26 N N3 GAP . . . D 2 26.99 39.042 60.363 1 44.98 ? N3 GAP 2550 B 1 HETATM 27 C C4 GAP . . . D 2 28.218 38.723 60.79 1 47.02 ? C4 GAP 2550 B 1 HETATM 28 H H1 GAP . . . D 2 37.951 42.018 57.749 1 0 ? H1 GAP 2550 B 1 HETATM 29 H H2A GAP . . . D 2 36.475 41.207 57.482 1 0 ? H2A GAP 2550 B 1 HETATM 30 H H3 GAP . . . D 2 36.488 42.861 57.831 1 0 ? H3 GAP 2550 B 1 HETATM 31 H "HO'2" GAP . . . D 2 27.073 41.964 60.571 1 0 ? "HO'2" GAP 2550 B 1 HETATM 32 H H61 GAP . . . D 2 28.94 35.014 62.049 1 0 ? H61 GAP 2550 B 1 HETATM 33 H H62 GAP . . . D 2 27.293 34.516 61.771 1 0 ? H62 GAP 2550 B 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 30 _model_server_stats.query_time_ms 285 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 33 #