data_4ZPO # _model_server_result.job_id tCEHzUZhpntivO519zrGxQ _model_server_result.datetime_utc '2025-09-08 13:59:37' _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 4zpo # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":402}' # _entry.id 4ZPO # _exptl.entry_id 4ZPO _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 6 _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 4ZPO _cell.length_a 108.637 _cell.length_b 108.637 _cell.length_c 96.614 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4ZPO _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 43 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 ? 3 E N N ? 3 F N N ? 3 G N N ? 3 H 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 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 A 409 NAG 2 n B FUC 2 B 2 FUC A 411 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 67 A CYS 67 1_555 A SG CYS 73 A CYS 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? covale ? covale1 A OG SER 194 A SER 194 1_555 I C1 MAN . A MAN 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale2 A OG1 THR 196 A THR 196 1_555 J C1 MAN . A MAN 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale3 A ND2 ASN 236 A ASN 236 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale4 B O6 NAG . B NAG 1 1_555 B C1 FUC . B FUC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? metalc ? metalc1 A OE1 GLU 8 A GLU 8 1_555 G CA CA . A CA 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.667 ? metalc ? metalc2 A OE2 GLU 8 A GLU 8 1_555 H CA CA . A CA 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.416 ? metalc ? metalc3 A OE2 GLU 9 A GLU 9 1_555 H CA CA . A CA 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.73 ? metalc ? metalc4 A OD1 ASP 62 A ASP 62 1_555 H CA CA . A CA 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.409 ? metalc ? metalc5 A OE1 GLU 64 A GLU 64 1_555 G CA CA . A CA 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.562 ? metalc ? metalc6 A OE2 GLU 64 A GLU 64 1_555 G CA CA . A CA 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.504 ? metalc ? metalc7 A OE2 GLU 64 A GLU 64 1_555 H CA CA . A CA 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.61 ? metalc ? metalc8 A OD1 ASP 96 A ASP 96 1_555 G CA CA . A CA 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.607 ? metalc ? metalc9 A O LEU 97 A LEU 97 1_555 G CA CA . A CA 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.43 ? metalc ? metalc10 A OD1 ASN 98 A ASN 98 1_555 F CA CA . A CA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.462 ? metalc ? metalc11 A OD1 ASP 99 A ASP 99 1_555 G CA CA . A CA 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.801 ? metalc ? metalc12 A OD2 ASP 99 A ASP 99 1_555 H CA CA . A CA 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.592 ? metalc ? metalc13 A O ASN 100 A ASN 100 1_555 F CA CA . A CA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.404 ? metalc ? metalc14 A OE2 GLU 115 A GLU 115 1_555 D CA CA . A CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.481 ? metalc ? metalc15 A OE1 GLU 115 A GLU 115 1_555 E CA CA . A CA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.688 ? metalc ? metalc16 A OD1 ASP 130 A ASP 130 1_555 F CA CA . A CA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.709 ? metalc ? metalc17 A OD2 ASP 130 A ASP 130 1_555 F CA CA . A CA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.554 ? metalc ? metalc18 A OD2 ASP 132 A ASP 132 1_555 F CA CA . A CA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.589 ? metalc ? metalc19 A OD1 ASP 132 A ASP 132 1_555 G CA CA . A CA 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.595 ? metalc ? metalc20 A O ASN 136 A ASN 136 1_555 F CA CA . A CA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.467 ? metalc ? metalc21 A OD1 ASP 172 A ASP 172 1_555 D CA CA . A CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.472 ? metalc ? metalc22 A OE1 GLU 174 A GLU 174 1_555 E CA CA . A CA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.523 ? metalc ? metalc23 A OE2 GLU 174 A GLU 174 1_555 E CA CA . A CA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.062 ? metalc ? metalc24 A OD2 ASP 187 A ASP 187 1_555 F CA CA . A CA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.035 ? metalc ? metalc25 A OD1 ASP 205 A ASP 205 1_555 E CA CA . A CA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.486 ? metalc ? metalc26 A O VAL 206 A VAL 206 1_555 E CA CA . A CA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.512 ? metalc ? metalc27 A OD1 ASN 207 A ASN 207 1_555 C CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.935 ? metalc ? metalc28 A OD2 ASP 208 A ASP 208 1_555 D CA CA . A CA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.433 ? metalc ? metalc29 A OD1 ASP 208 A ASP 208 1_555 E CA CA . A CA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.495 ? metalc ? metalc30 A O ASN 209 A ASN 209 1_555 C CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.44 ? metalc ? metalc31 A OD1 ASP 239 A ASP 239 1_555 C CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.494 ? metalc ? metalc32 A OD2 ASP 239 A ASP 239 1_555 C CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.577 ? metalc ? metalc33 A OD2 ASP 241 A ASP 241 1_555 C CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.465 ? metalc ? metalc34 A OD1 ASP 241 A ASP 241 1_555 E CA CA . A CA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.675 ? metalc ? metalc35 A O ASN 245 A ASN 245 1_555 C CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.539 ? metalc ? metalc36 A OD2 ASP 295 A ASP 295 1_555 C CA CA . A CA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.386 ? # _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 4ZPO _atom_sites.fract_transf_matrix[1][1] 0.009205 _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] 0.009205 _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] 0.01035 _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 CA A 1 401 400 CA CA . D 3 CA A 1 402 401 CA CA . E 3 CA A 1 403 403 CA CA . F 3 CA A 1 404 404 CA CA . G 3 CA A 1 405 405 CA CA . H 3 CA A 1 406 406 CA CA . I 4 MAN A 1 409 801 MAN MAN . J 4 MAN A 1 410 802 MAN MAN . K 5 MPD A 1 411 1 MPD MPD . L 6 HOH A 1 501 13 HOH HOH . L 6 HOH A 2 502 5 HOH HOH . L 6 HOH A 3 503 10 HOH HOH . L 6 HOH A 4 504 9 HOH HOH . L 6 HOH A 5 505 2 HOH HOH . L 6 HOH A 6 506 7 HOH HOH . L 6 HOH A 7 507 14 HOH HOH . L 6 HOH A 8 508 4 HOH HOH . L 6 HOH A 9 509 15 HOH HOH . L 6 HOH A 10 510 3 HOH HOH . L 6 HOH A 11 511 1 HOH HOH . L 6 HOH A 12 512 8 HOH HOH . L 6 HOH A 13 513 6 HOH HOH . L 6 HOH A 14 514 12 HOH HOH . L 6 HOH A 15 515 11 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 3 _atom_site.Cartn_x -33.653 _atom_site.Cartn_y 9.017 _atom_site.Cartn_z 50.466 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 89.31 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 402 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 78 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 342 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #