data_4XPA # _model_server_result.job_id 0gG5RFjHxC-yLHzSLd8H6g _model_server_result.datetime_utc '2024-11-06 01:49:00' _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 4xpa # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":706}' # _entry.id 4XPA # _exptl.entry_id 4XPA _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 8 _entity.src_method nat _entity.type non-polymer _entity.pdbx_description 'SODIUM 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 4XPA _cell.length_a 96.339 _cell.length_b 140.125 _cell.length_c 165.018 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4XPA _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_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 _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 ? 8 I N N ? 8 J N N # _pdbx_entity_branch.entity_id 4 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 4 _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 GLC _pdbx_entity_branch_link.comp_id_2 BGC _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 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _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 4 n D BGC 1 B 1 BGC A 607 MAL 4 n D GLC 2 B 2 GLC A 607 MAL # 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 129 A CYS 148 1_555 A SG CYS 138 A CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf2 B SG CYS 45 L CYS 23 1_555 B SG CYS 111 L CYS 89 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf3 B SG CYS 157 L CYS 135 1_555 B SG CYS 217 L CYS 195 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf4 C SG CYS 41 H CYS 22 1_555 C SG CYS 115 H CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf5 C SG CYS 165 H CYS 146 1_555 C SG CYS 220 H CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? covale ? covale1 D O4 BGC . B BGC 1 1_555 D C1 GLC . B GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.428 sing metalc ? metalc1 A O GLY 23 A GLY 42 1_555 J NA NA . A NA 706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.256 ? metalc ? metalc2 A O ALA 25 A ALA 44 1_555 I NA NA . A NA 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.372 ? metalc ? metalc3 A O VAL 26 A VAL 45 1_555 J NA NA . A NA 706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.125 ? metalc ? metalc4 A OD1 ASP 27 A ASP 46 1_555 I NA NA . A NA 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.691 ? metalc ? metalc5 A OD1 ASN 30 A ASN 49 1_555 I NA NA . A NA 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.543 ? metalc ? metalc6 A O SER 260 A SER 320 1_555 I NA NA . A NA 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.667 ? metalc ? metalc7 A OG SER 260 A SER 320 1_555 I NA NA . A NA 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.449 ? metalc ? metalc8 A OD1 ASN 292 A ASN 352 1_555 I NA NA . A NA 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.491 ? metalc ? metalc9 A O LEU 357 A LEU 417 1_555 J NA NA . A NA 706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.672 ? metalc ? metalc10 A OD1 ASP 360 A ASP 420 1_555 J NA NA . A NA 706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.444 ? metalc ? metalc11 A OD2 ASP 360 A ASP 420 1_555 J NA NA . A NA 706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.679 ? metalc ? metalc12 A OG SER 361 A SER 421 1_555 J NA NA . A NA 706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.46 ? metalc ? metalc13 I NA NA . A NA 705 1_555 K O HOH . A HOH 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.418 ? metalc ? metalc14 J NA NA . A NA 706 1_555 K O HOH . A HOH 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.506 ? # _chem_comp.formula 'Na 1' _chem_comp.formula_weight 22.99 _chem_comp.id NA _chem_comp.mon_nstd_flag . _chem_comp.name 'SODIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 4XPA _atom_sites.fract_transf_matrix[1][1] 0.01038 _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] 0.007136 _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] 0.00606 _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 5 CLR A 1 701 601 CLR CLR . F 5 CLR A 1 702 602 CLR CLR . G 6 42J A 1 703 603 42J 42J . H 7 CL A 1 704 604 CL CL . I 8 NA A 1 705 605 NA NA . J 8 NA A 1 706 606 NA NA . K 9 HOH A 1 801 709 HOH HOH . K 9 HOH A 2 802 710 HOH HOH . K 9 HOH A 3 803 703 HOH HOH . K 9 HOH A 4 804 701 HOH HOH . K 9 HOH A 5 805 706 HOH HOH . K 9 HOH A 6 806 708 HOH HOH . K 9 HOH A 7 807 707 HOH HOH . K 9 HOH A 8 808 713 HOH HOH . K 9 HOH A 9 809 705 HOH HOH . K 9 HOH A 10 810 704 HOH HOH . K 9 HOH A 11 811 712 HOH HOH . K 9 HOH A 12 812 711 HOH HOH . K 9 HOH A 13 813 702 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol NA _atom_site.label_atom_id NA _atom_site.label_comp_id NA _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 8 _atom_site.Cartn_x -51.143 _atom_site.Cartn_y -147.27 _atom_site.Cartn_z 25.696 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 86.87 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 706 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 1 #