data_1YWT # _model_server_result.job_id LPXdKG2p1Yz8TPecc7Visg _model_server_result.datetime_utc '2024-11-05 11:35:41' _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 1ywt # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":249}' # _entry.id 1YWT # _exptl.entry_id 1YWT _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 40.078 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'CALCIUM 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 1YWT _cell.length_a 56.173 _cell.length_b 137.093 _cell.length_c 155.313 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1YWT _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # 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 tetrameric 4 author_and_software_defined_assembly 1 PISA octameric 8 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,F,G,H 1 1 A,B,C,D,E,F,G,H 2 1,2 # 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' 3_655 -x+1,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 56.173 0 77.6565 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id E _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 C C HIS 5 C HIS 5 1_555 C N SEP 6 C SEP 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale2 C C SEP 6 C SEP 6 1_555 C N TYR 7 C TYR 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale3 D C HIS 5 D HIS 5 1_555 D N SEP 6 D SEP 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale4 D C SEP 6 D SEP 6 1_555 D N TYR 7 D TYR 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? metalc ? metalc1 B OE2 GLU 31 B GLU 31 1_555 E CA CA . B CA 249 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.355 ? metalc ? metalc2 B OE2 GLU 31 B GLU 31 3_655 E CA CA . B CA 249 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.363 ? metalc ? metalc3 B NE2 HIS 106 B HIS 106 1_555 E CA CA . B CA 249 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? metalc ? metalc4 B NE2 HIS 106 B HIS 106 3_655 E CA CA . B CA 249 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? metalc ? metalc5 E CA CA . B CA 249 1_555 G O HOH . B HOH 279 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.91 ? metalc ? metalc6 E CA CA . B CA 249 1_555 G O HOH . B HOH 279 3_655 ? ? ? ? ? ? ? ? ? ? ? ? 1.937 ? # _chem_comp.formula 'Ca 2' _chem_comp.formula_weight 40.078 _chem_comp.id CA _chem_comp.mon_nstd_flag . _chem_comp.name 'CALCIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 1YWT _atom_sites.fract_transf_matrix[1][1] 0.017802 _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] 0.007294 _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] 0.006439 _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 E 3 CA B 1 249 56 CA CA2 . F 4 HOH A 1 249 1 HOH HOH . F 4 HOH A 2 250 2 HOH HOH . F 4 HOH A 3 251 5 HOH HOH . F 4 HOH A 4 252 12 HOH HOH . F 4 HOH A 5 253 18 HOH HOH . F 4 HOH A 6 254 19 HOH HOH . F 4 HOH A 7 255 20 HOH HOH . F 4 HOH A 8 256 21 HOH HOH . F 4 HOH A 9 257 23 HOH HOH . F 4 HOH A 10 258 27 HOH HOH . F 4 HOH A 11 259 32 HOH HOH . F 4 HOH A 12 260 33 HOH HOH . F 4 HOH A 13 261 34 HOH HOH . F 4 HOH A 14 262 36 HOH HOH . F 4 HOH A 15 263 37 HOH HOH . F 4 HOH A 16 264 39 HOH HOH . F 4 HOH A 17 265 42 HOH HOH . F 4 HOH A 18 266 43 HOH HOH . F 4 HOH A 19 267 45 HOH HOH . F 4 HOH A 20 268 48 HOH HOH . F 4 HOH A 21 269 50 HOH HOH . F 4 HOH A 22 270 53 HOH HOH . F 4 HOH A 23 271 54 HOH HOH . G 4 HOH B 1 250 3 HOH HOH . G 4 HOH B 2 251 4 HOH HOH . G 4 HOH B 3 252 6 HOH HOH . G 4 HOH B 4 253 7 HOH HOH . G 4 HOH B 5 254 8 HOH HOH . G 4 HOH B 6 255 9 HOH HOH . G 4 HOH B 7 256 10 HOH HOH . G 4 HOH B 8 257 11 HOH HOH . G 4 HOH B 9 258 14 HOH HOH . G 4 HOH B 10 259 15 HOH HOH . G 4 HOH B 11 260 16 HOH HOH . G 4 HOH B 12 261 17 HOH HOH . G 4 HOH B 13 262 22 HOH HOH . G 4 HOH B 14 263 24 HOH HOH . G 4 HOH B 15 264 25 HOH HOH . G 4 HOH B 16 265 26 HOH HOH . G 4 HOH B 17 266 28 HOH HOH . G 4 HOH B 18 267 29 HOH HOH . G 4 HOH B 19 268 31 HOH HOH . G 4 HOH B 20 269 35 HOH HOH . G 4 HOH B 21 270 38 HOH HOH . G 4 HOH B 22 271 40 HOH HOH . G 4 HOH B 23 272 41 HOH HOH . G 4 HOH B 24 273 44 HOH HOH . G 4 HOH B 25 274 46 HOH HOH . G 4 HOH B 26 275 47 HOH HOH . G 4 HOH B 27 276 49 HOH HOH . G 4 HOH B 28 277 51 HOH HOH . G 4 HOH B 29 278 52 HOH HOH . G 4 HOH B 30 279 55 HOH HOH . H 4 HOH D 1 13 13 HOH HOH . H 4 HOH D 2 30 30 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol CA _atom_site.label_atom_id CA _atom_site.label_comp_id CA _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id E _atom_site.label_entity_id 3 _atom_site.Cartn_x 28.102 _atom_site.Cartn_y 3.505 _atom_site.Cartn_z 38.837 _atom_site.occupancy 0.5 _atom_site.B_iso_or_equiv 46.2 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 249 _atom_site.auth_asym_id B _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 70 _model_server_stats.parse_time_ms 24 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 227 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 1 #