data_5D53 # _model_server_result.job_id n0SCnjZPvVxj53dvqc4NhA _model_server_result.datetime_utc '2024-11-23 19:22:57' _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 5d53 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":102}' # _entry.id 5D53 # _exptl.entry_id 5D53 _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 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 5D53 _cell.length_a 77.511 _cell.length_b 77.511 _cell.length_c 77.511 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5D53 _symmetry.cell_setting ? _symmetry.Int_Tables_number 199 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 21 3' # _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,G _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 ? 3 C N N ? 3 D N 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 disulf ? disulf1 A SG CYS 6 A CYS 6 1_555 A SG CYS 11 A CYS 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf2 A SG CYS 7 A CYS 7 1_555 B SG CYS 7 B CYS 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf3 A SG CYS 20 A CYS 20 1_555 B SG CYS 19 B CYS 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? # _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 290 n n P O2 PO4 sing 291 n n P O3 PO4 sing 292 n n P O4 PO4 sing 293 n n # _atom_sites.entry_id 5D53 _atom_sites.fract_transf_matrix[1][1] 0.012901 _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] 0.012901 _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] 0.012901 _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 3 PO4 B 1 101 1 PO4 PO4 . D 3 PO4 B 1 102 2 PO4 PO4 . E 4 PE5 B 1 103 1 PE5 PE5 . F 5 HOH A 1 101 73 HOH HOH . F 5 HOH A 2 102 62 HOH HOH . F 5 HOH A 3 103 41 HOH HOH . F 5 HOH A 4 104 47 HOH HOH . F 5 HOH A 5 105 50 HOH HOH . F 5 HOH A 6 106 21 HOH HOH . F 5 HOH A 7 107 74 HOH HOH . F 5 HOH A 8 108 30 HOH HOH . F 5 HOH A 9 109 28 HOH HOH . F 5 HOH A 10 110 5 HOH HOH . F 5 HOH A 11 111 3 HOH HOH . F 5 HOH A 12 112 77 HOH HOH . F 5 HOH A 13 113 7 HOH HOH . F 5 HOH A 14 114 17 HOH HOH . F 5 HOH A 15 115 15 HOH HOH . F 5 HOH A 16 116 36 HOH HOH . F 5 HOH A 17 117 19 HOH HOH . F 5 HOH A 18 118 2 HOH HOH . F 5 HOH A 19 119 44 HOH HOH . F 5 HOH A 20 120 42 HOH HOH . F 5 HOH A 21 121 37 HOH HOH . F 5 HOH A 22 122 64 HOH HOH . F 5 HOH A 23 123 33 HOH HOH . F 5 HOH A 24 124 49 HOH HOH . F 5 HOH A 25 125 35 HOH HOH . G 5 HOH B 1 201 54 HOH HOH . G 5 HOH B 2 202 78 HOH HOH . G 5 HOH B 3 203 1 HOH HOH . G 5 HOH B 4 204 72 HOH HOH . G 5 HOH B 5 205 13 HOH HOH . G 5 HOH B 6 206 38 HOH HOH . G 5 HOH B 7 207 55 HOH HOH . G 5 HOH B 8 208 34 HOH HOH . G 5 HOH B 9 209 25 HOH HOH . G 5 HOH B 10 210 18 HOH HOH . G 5 HOH B 11 211 63 HOH HOH . G 5 HOH B 12 212 26 HOH HOH . G 5 HOH B 13 213 4 HOH HOH . G 5 HOH B 14 214 22 HOH HOH . G 5 HOH B 15 215 60 HOH HOH . G 5 HOH B 16 216 10 HOH HOH . G 5 HOH B 17 217 8 HOH HOH . G 5 HOH B 18 218 11 HOH HOH . G 5 HOH B 19 219 39 HOH HOH . G 5 HOH B 20 220 6 HOH HOH . G 5 HOH B 21 221 9 HOH HOH . G 5 HOH B 22 222 23 HOH HOH . G 5 HOH B 23 223 24 HOH HOH . G 5 HOH B 24 224 52 HOH HOH . G 5 HOH B 25 225 48 HOH HOH . G 5 HOH B 26 226 70 HOH HOH . G 5 HOH B 27 227 71 HOH HOH . G 5 HOH B 28 228 12 HOH HOH . G 5 HOH B 29 229 27 HOH HOH . G 5 HOH B 30 230 68 HOH HOH . G 5 HOH B 31 231 69 HOH HOH . G 5 HOH B 32 232 76 HOH HOH . G 5 HOH B 33 233 56 HOH HOH . G 5 HOH B 34 234 20 HOH HOH . G 5 HOH B 35 235 53 HOH HOH . G 5 HOH B 36 236 46 HOH HOH . G 5 HOH B 37 237 32 HOH HOH . G 5 HOH B 38 238 51 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 -5.68 -5.734 -5.764 0.29 21.23 ? P PO4 102 B 1 HETATM 2 O O1 PO4 . . . D 3 -6.601 -6.488 -6.695 0.29 26.21 ? O1 PO4 102 B 1 HETATM 3 O O2 PO4 . . . D 3 -5.966 -4.256 -5.847 0.29 26.58 ? O2 PO4 102 B 1 HETATM 4 O O3 PO4 . . . D 3 -4.244 -5.984 -6.15 0.29 26.57 -1 O3 PO4 102 B 1 HETATM 5 O O4 PO4 . . . D 3 -5.891 -6.193 -4.345 0.29 26.58 ? O4 PO4 102 B 1 # _model_server_stats.io_time_ms 59 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 260 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 5 #