data_4WA5 # _model_server_result.job_id 0vn361GOM376jllaZhsX3w _model_server_result.datetime_utc '2024-12-03 02:15:01' _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 4wa5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":504}' # _entry.id 4WA5 # _exptl.entry_id 4WA5 _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 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 4WA5 _cell.length_a 90.452 _cell.length_b 90.452 _cell.length_c 108.979 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4WA5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 79 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 4' # _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # 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' 2_685 -x+1,-y+3,z -1 0 0 0 -1 0 0 0 1 90.452 271.356 0 3 'crystal symmetry operation' 3_765 -y+2,x+1,z 0 -1 0 1 0 0 0 0 1 180.904 90.452 0 4 'crystal symmetry operation' 4_475 y-1,-x+2,z 0 1 0 -1 0 0 0 0 1 -90.452 180.904 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 FUC _pdbx_entity_branch_link.comp_id_2 NAG _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 O6 _pdbx_entity_branch_link.leaving_atom_id_2 HO6 _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 B NAG 1 B 1 NAG B 1 NAG 2 n B FUC 2 B 2 FUC B 1 FUC # 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 10 A CYS 90 1_555 A SG CYS 337 A CYS 417 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? disulf ? disulf2 A SG CYS 42 A CYS 122 1_555 A SG CYS 47 A CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.996 ? disulf ? disulf3 A SG CYS 102 A CYS 182 1_555 A SG CYS 149 A CYS 229 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? disulf ? disulf4 A SG CYS 151 A CYS 231 1_555 A SG CYS 156 A CYS 236 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf5 A SG CYS 197 A CYS 277 1_555 A SG CYS 210 A CYS 290 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf6 A SG CYS 199 A CYS 279 1_555 A SG CYS 208 A CYS 288 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.002 ? disulf ? disulf7 A SG CYS 236 A CYS 316 1_555 A SG CYS 255 A CYS 335 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? disulf ? disulf8 A SG CYS 341 A CYS 421 1_555 A SG CYS 366 A CYS 446 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? covale ? covale1 A ND2 ASN 64 A ASN 144 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.47 ? covale ? covale2 B O6 NAG . B NAG 1 1_555 B C1 FUC . B FUC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? metalc ? metalc1 A O ASP 212 A ASP 292 1_555 D CA CA . A CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.727 ? metalc ? metalc2 A O GLY 216 A GLY 296 1_555 D CA CA . A CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.656 ? metalc ? metalc3 A OD2 ASP 242 A ASP 322 1_555 D CA CA . A CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.511 ? metalc ? metalc4 A O TYR 264 A TYR 344 1_555 D CA CA . A CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.241 ? # _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 4WA5 _atom_sites.fract_transf_matrix[1][1] 0.011056 _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] 0.011056 _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] 0.009176 _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 ZMR A 1 501 469 ZMR ZMR . D 4 CA A 1 504 1 CA CA . E 5 HOH A 1 601 32 HOH HOH . E 5 HOH A 2 602 1 HOH HOH . E 5 HOH A 3 603 9 HOH HOH . E 5 HOH A 4 604 5 HOH HOH . E 5 HOH A 5 605 29 HOH HOH . E 5 HOH A 6 606 15 HOH HOH . E 5 HOH A 7 607 28 HOH HOH . E 5 HOH A 8 608 4 HOH HOH . E 5 HOH A 9 609 21 HOH HOH . E 5 HOH A 10 610 13 HOH HOH . E 5 HOH A 11 611 39 HOH HOH . E 5 HOH A 12 612 2 HOH HOH . E 5 HOH A 13 613 3 HOH HOH . E 5 HOH A 14 614 6 HOH HOH . E 5 HOH A 15 615 7 HOH HOH . E 5 HOH A 16 616 8 HOH HOH . E 5 HOH A 17 617 10 HOH HOH . E 5 HOH A 18 618 11 HOH HOH . E 5 HOH A 19 619 12 HOH HOH . E 5 HOH A 20 620 14 HOH HOH . E 5 HOH A 21 621 16 HOH HOH . E 5 HOH A 22 622 17 HOH HOH . E 5 HOH A 23 623 18 HOH HOH . E 5 HOH A 24 624 19 HOH HOH . E 5 HOH A 25 625 20 HOH HOH . E 5 HOH A 26 626 22 HOH HOH . E 5 HOH A 27 627 23 HOH HOH . E 5 HOH A 28 628 24 HOH HOH . E 5 HOH A 29 629 25 HOH HOH . E 5 HOH A 30 630 26 HOH HOH . E 5 HOH A 31 631 27 HOH HOH . E 5 HOH A 32 632 30 HOH HOH . E 5 HOH A 33 633 31 HOH HOH . E 5 HOH A 34 634 33 HOH HOH . E 5 HOH A 35 635 34 HOH HOH . E 5 HOH A 36 636 35 HOH HOH . E 5 HOH A 37 637 36 HOH HOH . E 5 HOH A 38 638 37 HOH HOH . E 5 HOH A 39 639 38 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 D _atom_site.label_entity_id 4 _atom_site.Cartn_x 18.725 _atom_site.Cartn_y 104.2 _atom_site.Cartn_z 130.75 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 69.76 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 504 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 60 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 356 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #