data_4PMI # _model_server_result.job_id xePsMdc0UqiexD0dnkJxkg _model_server_result.datetime_utc '2025-07-31 14:39:21' _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 4pmi # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":101}' # _entry.id 4PMI # _exptl.entry_id 4PMI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 94.971 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHATE ION' _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 4PMI _cell.length_a 165.3 _cell.length_b 165.3 _cell.length_c 165.3 _cell.Z_PDB 48 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4PMI _symmetry.cell_setting ? _symmetry.Int_Tables_number 213 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 3 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 nonameric 9 author_and_software_defined_assembly 1 PISA octadecameric 18 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 1,2,3 A,B,C,D,E 2 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' 6_445 z-1/2,-x-1/2,-y 0 0 1 -1 0 0 0 -1 0 -82.65 -82.65 0 3 'crystal symmetry operation' 12_455 -y-1/2,-z,x+1/2 0 -1 0 0 0 -1 1 0 0 -82.65 0 82.65 4 'crystal symmetry operation' 13_455 y-1/4,x+1/4,-z+1/4 0 1 0 1 0 0 0 0 -1 -41.325 41.325 41.325 5 'crystal symmetry operation' 18_445 -x-3/4,z-1/4,y+1/4 -1 0 0 0 0 1 0 1 0 -123.975 -41.325 41.325 6 'crystal symmetry operation' 24_444 -z-1/4,-y-1/4,-x-1/4 0 0 -1 0 -1 0 -1 0 0 -41.325 -41.325 -41.325 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order covale ? covale1 A P G 1 A G 36 1_555 D O3 PO4 . A PO4 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.614 ? hydrog TYPE_28_PAIR hydrog1 A N1 G 1 A G 36 1_555 A O2 U 40 A U 82 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_28_PAIR hydrog2 A O6 G 1 A G 36 1_555 A N3 U 40 A U 82 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A N1 G 2 A G 37 1_555 A N3 C 39 A C 81 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N2 G 2 A G 37 1_555 A O2 C 39 A C 81 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A O6 G 2 A G 37 1_555 A N4 C 39 A C 81 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A N1 G 3 A G 38 1_555 A N3 C 38 A C 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 A N2 G 3 A G 38 1_555 A O2 C 38 A C 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A O6 G 3 A G 38 1_555 A N4 C 38 A C 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A N1 A 4 A A 39 1_555 A N3 U 37 A U 79 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A N6 A 4 A A 39 1_555 A O4 U 37 A U 79 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 A N1 G 5 A G 40 1_555 A N3 C 36 A C 78 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A N2 G 5 A G 40 1_555 A O2 C 36 A C 78 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A O6 G 5 A G 40 1_555 A N4 C 36 A C 78 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_28_PAIR hydrog14 A N3 U 6 A U 41 1_555 A O6 G 35 A G 77 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_28_PAIR hydrog15 A O2 U 6 A U 41 1_555 A N1 G 35 A G 77 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_8_PAIR hydrog16 A N1 A 9 A A 44 1_555 A N1 G 34 A G 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_8_PAIR hydrog17 A N6 A 9 A A 44 1_555 A O6 G 34 A G 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A N3 U 10 A U 45 1_555 A N1 A 33 A A 75 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 A O4 U 10 A U 45 1_555 A N6 A 33 A A 75 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 A N1 G 11 A G 46 1_555 A N3 C 32 A C 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 A N2 G 11 A G 46 1_555 A O2 C 32 A C 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 A O6 G 11 A G 46 1_555 A N4 C 32 A C 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'G-A MISPAIR' hydrog23 A N1 G 12 A G 47 1_555 A N1 A 31 A A 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_3_PAIR hydrog24 A N1 G 13 A G 48 1_555 A O6 G 29 A G 71 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog TYPE_3_PAIR hydrog25 A O6 G 13 A G 48 1_555 A N1 G 29 A G 71 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 A N3 C 14 A C 49 1_555 A N1 G 28 A G 70 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 A N4 C 14 A C 49 1_555 A O6 G 28 A G 70 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog28 A O2 C 14 A C 49 1_555 A N2 G 28 A G 70 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'G-C PAIR' hydrog29 A N1 G 15 A G 50 1_555 A N3 C 27 A C 69 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog30 A N3 C 16 A C 51 1_555 A N1 G 25 A G 67 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog31 A N4 C 16 A C 51 1_555 A O6 G 25 A G 67 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog32 A O2 C 16 A C 51 1_555 A N2 G 25 A G 67 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog33 A N1 A 17 A A 52 1_555 A N3 U 24 A U 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog34 A N6 A 17 A A 52 1_555 A O4 U 24 A U 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog35 A N3 C 18 A C 53 1_555 A N1 G 23 A G 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog36 A N4 C 18 A C 53 1_555 A O6 G 23 A G 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog37 A O2 C 18 A C 53 1_555 A N2 G 23 A G 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'U-G MISPAIR' hydrog38 A O2 U 19 A U 54 1_555 A N1 G 22 A G 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'O4 P -3' _chem_comp.formula_weight 94.971 _chem_comp.id PO4 _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHATE ION' _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 O1 PO4 doub 362 n n P O2 PO4 sing 363 n n P O3 PO4 sing 364 n n P O4 PO4 sing 365 n n # _atom_sites.entry_id 4PMI _atom_sites.fract_transf_matrix[1][1] 0.00605 _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] 0.00605 _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] 0.00605 _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 D 3 PO4 A 1 101 1 PO4 PO4 . E 4 HOH A 1 201 1 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 PO4 . . . D 3 -36.277 -19.011 33.937 1 156.37 ? P PO4 101 A 1 HETATM 2 O O1 PO4 . . . D 3 -36.054 -19.783 32.656 1 159.05 ? O1 PO4 101 A 1 HETATM 3 O O2 PO4 . . . D 3 -35.658 -17.638 33.818 1 163.3 ? O2 PO4 101 A 1 HETATM 4 O O3 PO4 . . . D 3 -37.76 -18.878 34.222 1 135.08 ? O3 PO4 101 A 1 HETATM 5 O O4 PO4 . . . D 3 -35.616 -19.754 35.075 1 155.14 ? O4 PO4 101 A 1 # _model_server_stats.io_time_ms 67 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 339 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 5 #