data_1QDO # _model_server_result.job_id br0SVKSWS8Me9gqnEpVvSQ _model_server_result.datetime_utc '2024-11-04 23:28:36' _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 1qdo # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":241}' # _entry.id 1QDO # _exptl.entry_id 1QDO _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 40.078 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'CALCIUM ION' _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 93.21 _cell.angle_gamma 90 _cell.entry_id 1QDO _cell.length_a 60.41 _cell.length_b 64.53 _cell.length_c 126.96 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1QDO _symmetry.cell_setting monoclinic _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,H,I,J,K,L,M,N,O,P,Q,R,S,T _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 ? 4 J N N ? 4 L N N ? 4 N N N ? 4 P N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 MAN _pdbx_entity_branch_link.comp_id_2 MMA _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O3 _pdbx_entity_branch_link.leaving_atom_id_2 HO3 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n E MMA 1 E 1 MMA E 239 MMA 2 n E MAN 2 E 2 MAN E 238 MAN 2 n F MMA 1 F 1 MMA F 1239 MMA 2 n F MAN 2 F 2 MAN F 1238 MAN 2 n G MMA 1 G 1 MMA G 2239 MMA 2 n G MAN 2 G 2 MAN G 2238 MAN 2 n H MMA 1 H 1 MMA H 3239 MMA 2 n H MAN 2 H 2 MAN H 3238 MAN # 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 E O3 MMA . E MMA 1 1_555 E C1 MAN . E MAN 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.42 ? covale ? covale2 F O3 MMA . F MMA 1 1_555 F C1 MAN . F MAN 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.418 ? covale ? covale3 G O3 MMA . G MMA 1 1_555 G C1 MAN . G MAN 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.41 ? covale ? covale4 H O3 MMA . H MMA 1 1_555 H C1 MAN . H MAN 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.411 ? metalc ? metalc1 A OE2 GLU 8 A GLU 8 1_555 I MN MN . A MN 240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.949 ? metalc ? metalc2 A OD2 ASP 10 A ASP 10 1_555 I MN MN . A MN 240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.154 ? metalc ? metalc3 A OD1 ASP 10 A ASP 10 1_555 J CA CA . A CA 241 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.541 ? metalc ? metalc4 A OD2 ASP 10 A ASP 10 1_555 J CA CA . A CA 241 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.398 ? metalc ? metalc5 A O TYR 12 A TYR 12 1_555 J CA CA . A CA 241 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.202 ? metalc ? metalc6 A OD1 ASN 14 A ASN 14 1_555 J CA CA . A CA 241 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.959 ? metalc ? metalc7 A OD1 ASP 19 A ASP 19 1_555 I MN MN . A MN 240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.164 ? metalc ? metalc8 A OD2 ASP 19 A ASP 19 1_555 J CA CA . A CA 241 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.66 ? metalc ? metalc9 A NE2 HIS 24 A HIS 24 1_555 I MN MN . A MN 240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.625 ? metalc ? metalc10 B OE2 GLU 8 B GLU 8 1_555 K MN MN . B MN 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? metalc ? metalc11 B OD2 ASP 10 B ASP 10 1_555 K MN MN . B MN 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? metalc ? metalc12 B OD1 ASP 10 B ASP 10 1_555 L CA CA . B CA 243 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.428 ? metalc ? metalc13 B OD2 ASP 10 B ASP 10 1_555 L CA CA . B CA 243 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.801 ? metalc ? metalc14 B O TYR 12 B TYR 12 1_555 L CA CA . B CA 243 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? metalc ? metalc15 B OD1 ASP 19 B ASP 19 1_555 K MN MN . B MN 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.21 ? metalc ? metalc16 B OD2 ASP 19 B ASP 19 1_555 L CA CA . B CA 243 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.636 ? metalc ? metalc17 B NE2 HIS 24 B HIS 24 1_555 K MN MN . B MN 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.498 ? metalc ? metalc18 K MN MN . B MN 242 1_555 R O HOH . B HOH 1242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.124 ? metalc ? metalc19 L CA CA . B CA 243 1_555 R O HOH . B HOH 1240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.354 ? metalc ? metalc20 C OE2 GLU 8 C GLU 8 1_555 M MN MN . C MN 244 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.844 ? metalc ? metalc21 C OD2 ASP 10 C ASP 10 1_555 M MN MN . C MN 244 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? metalc ? metalc22 C OD2 ASP 10 C ASP 10 1_555 N CA CA . C CA 245 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.261 ? metalc ? metalc23 C OD1 ASP 10 C ASP 10 1_555 N CA CA . C CA 245 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.157 ? metalc ? metalc24 C O TYR 12 C TYR 12 1_555 N CA CA . C CA 245 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.223 ? metalc ? metalc25 C OD1 ASN 14 C ASN 14 1_555 N CA CA . C CA 245 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.909 ? metalc ? metalc26 C OD1 ASP 19 C ASP 19 1_555 M MN MN . C MN 244 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? metalc ? metalc27 C OD2 ASP 19 C ASP 19 1_555 N CA CA . C CA 245 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.412 ? metalc ? metalc28 C NE2 HIS 24 C HIS 24 1_555 M MN MN . C MN 244 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.518 ? metalc ? metalc29 D OE2 GLU 8 D GLU 8 1_555 O MN MN . D MN 246 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.089 ? metalc ? metalc30 D OD2 ASP 10 D ASP 10 1_555 O MN MN . D MN 246 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.866 ? metalc ? metalc31 D OD1 ASP 10 D ASP 10 1_555 P CA CA . D CA 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? metalc ? metalc32 D OD2 ASP 10 D ASP 10 1_555 P CA CA . D CA 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.949 ? metalc ? metalc33 D O TYR 12 D TYR 12 1_555 P CA CA . D CA 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.4 ? metalc ? metalc34 D OD1 ASP 19 D ASP 19 1_555 O MN MN . D MN 246 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? metalc ? metalc35 D OD2 ASP 19 D ASP 19 1_555 P CA CA . D CA 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.676 ? metalc ? metalc36 D NE2 HIS 24 D HIS 24 1_555 O MN MN . D MN 246 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.624 ? metalc ? metalc37 O MN MN . D MN 246 1_555 T O HOH . D HOH 3243 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.754 ? # _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 1QDO _atom_sites.fract_transf_matrix[1][1] 0.016554 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000928 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015497 _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] 0.007889 _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 I 3 MN A 1 240 240 MN MN . J 4 CA A 1 241 241 CA CA . K 3 MN B 1 242 242 MN MN . L 4 CA B 1 243 243 CA CA . M 3 MN C 1 244 244 MN MN . N 4 CA C 1 245 245 CA CA . O 3 MN D 1 246 246 MN MN . P 4 CA D 1 247 247 CA CA . Q 5 HOH A 1 242 6 HOH HOH . Q 5 HOH A 2 243 11 HOH HOH . Q 5 HOH A 3 244 12 HOH HOH . Q 5 HOH A 4 245 15 HOH HOH . Q 5 HOH A 5 246 29 HOH HOH . R 5 HOH B 1 1240 5 HOH HOH . R 5 HOH B 2 1241 7 HOH HOH . R 5 HOH B 3 1242 8 HOH HOH . R 5 HOH B 4 1243 10 HOH HOH . R 5 HOH B 5 1244 14 HOH HOH . R 5 HOH B 6 1245 18 HOH HOH . R 5 HOH B 7 1246 21 HOH HOH . R 5 HOH B 8 1247 22 HOH HOH . R 5 HOH B 9 1248 23 HOH HOH . R 5 HOH B 10 1249 28 HOH HOH . R 5 HOH B 11 1250 31 HOH HOH . R 5 HOH B 12 1251 33 HOH HOH . S 5 HOH C 1 2240 2 HOH HOH . S 5 HOH C 2 2241 3 HOH HOH . S 5 HOH C 3 2242 4 HOH HOH . S 5 HOH C 4 2243 9 HOH HOH . S 5 HOH C 5 2244 19 HOH HOH . S 5 HOH C 6 2245 20 HOH HOH . S 5 HOH C 7 2246 24 HOH HOH . S 5 HOH C 8 2247 27 HOH HOH . S 5 HOH C 9 2248 32 HOH HOH . T 5 HOH D 1 3240 1 HOH HOH . T 5 HOH D 2 3241 13 HOH HOH . T 5 HOH D 3 3242 16 HOH HOH . T 5 HOH D 4 3243 17 HOH HOH . T 5 HOH D 5 3244 25 HOH HOH . T 5 HOH D 6 3245 26 HOH HOH . T 5 HOH D 7 3246 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 J _atom_site.label_entity_id 4 _atom_site.Cartn_x 25.675 _atom_site.Cartn_y -21.278 _atom_site.Cartn_z 15.958 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 49.9 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 241 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 292 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 1 #