data_4LDE # _model_server_result.job_id qrMrJlN4h9ON8DC8I-6HIQ _model_server_result.datetime_utc '2025-02-02 12:58:45' _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 4lde # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1402}' # _entry.id 4LDE # _exptl.entry_id 4LDE _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SODIUM 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 4LDE _cell.length_a 49.67 _cell.length_b 66.48 _cell.length_c 303.1 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4LDE _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 PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 # _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 # 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 255 A CYS 1106 1_555 A SG CYS 340 A CYS 1191 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 A SG CYS 333 A CYS 1184 1_555 A SG CYS 339 A CYS 1190 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf3 B SG CYS 22 B CYS 22 1_555 B SG CYS 95 B CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? metalc ? metalc1 A OD1 ASN 252 A ASN 1103 1_555 D NA NA . A NA 1402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.402 ? metalc ? metalc2 A O CYS 333 A CYS 1184 1_555 D NA NA . A NA 1402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.334 ? metalc ? metalc3 A O GLU 336 A GLU 1187 1_555 D NA NA . A NA 1402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.463 ? metalc ? metalc4 A O CYS 339 A CYS 1190 1_555 D NA NA . A NA 1402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.407 ? metalc ? metalc5 D NA NA . A NA 1402 1_555 F O HOH . A HOH 1502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.428 ? # _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 4LDE _atom_sites.fract_transf_matrix[1][1] 0.020133 _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] 0.015042 _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] 0.003299 _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 P0G A 1 1401 366 P0G P0G . D 4 NA A 1 1402 1 NA NA . E 5 1WV A 1 1403 1 1WV 1WW . F 6 HOH A 1 1501 1 HOH HOH . F 6 HOH A 2 1502 2 HOH HOH . F 6 HOH A 3 1503 3 HOH HOH . F 6 HOH A 4 1504 4 HOH HOH . F 6 HOH A 5 1505 5 HOH HOH . F 6 HOH A 6 1506 6 HOH HOH . F 6 HOH A 7 1507 7 HOH HOH . F 6 HOH A 8 1508 10 HOH HOH . F 6 HOH A 9 1509 11 HOH HOH . F 6 HOH A 10 1510 12 HOH HOH . F 6 HOH A 11 1511 13 HOH HOH . F 6 HOH A 12 1512 14 HOH HOH . F 6 HOH A 13 1513 15 HOH HOH . F 6 HOH A 14 1514 16 HOH HOH . F 6 HOH A 15 1515 17 HOH HOH . F 6 HOH A 16 1516 18 HOH HOH . F 6 HOH A 17 1517 19 HOH HOH . F 6 HOH A 18 1518 20 HOH HOH . F 6 HOH A 19 1519 21 HOH HOH . F 6 HOH A 20 1520 24 HOH HOH . F 6 HOH A 21 1521 25 HOH HOH . F 6 HOH A 22 1522 26 HOH HOH . F 6 HOH A 23 1523 27 HOH HOH . F 6 HOH A 24 1524 28 HOH HOH . F 6 HOH A 25 1525 30 HOH HOH . F 6 HOH A 26 1526 31 HOH HOH . F 6 HOH A 27 1527 34 HOH HOH . F 6 HOH A 28 1528 35 HOH HOH . F 6 HOH A 29 1529 36 HOH HOH . F 6 HOH A 30 1530 37 HOH HOH . F 6 HOH A 31 1531 38 HOH HOH . F 6 HOH A 32 1532 39 HOH HOH . F 6 HOH A 33 1533 40 HOH HOH . F 6 HOH A 34 1534 41 HOH HOH . F 6 HOH A 35 1535 42 HOH HOH . F 6 HOH A 36 1536 43 HOH HOH . F 6 HOH A 37 1537 44 HOH HOH . F 6 HOH A 38 1538 48 HOH HOH . F 6 HOH A 39 1539 49 HOH HOH . F 6 HOH A 40 1540 50 HOH HOH . F 6 HOH A 41 1541 51 HOH HOH . F 6 HOH A 42 1542 52 HOH HOH . F 6 HOH A 43 1543 55 HOH HOH . F 6 HOH A 44 1544 56 HOH HOH . F 6 HOH A 45 1545 57 HOH HOH . F 6 HOH A 46 1546 58 HOH HOH . F 6 HOH A 47 1547 59 HOH HOH . F 6 HOH A 48 1548 60 HOH HOH . F 6 HOH A 49 1549 61 HOH HOH . F 6 HOH A 50 1550 62 HOH HOH . F 6 HOH A 51 1551 63 HOH HOH . F 6 HOH A 52 1552 64 HOH HOH . F 6 HOH A 53 1553 65 HOH HOH . F 6 HOH A 54 1554 66 HOH HOH . F 6 HOH A 55 1555 67 HOH HOH . F 6 HOH A 56 1556 68 HOH HOH . F 6 HOH A 57 1557 69 HOH HOH . F 6 HOH A 58 1558 70 HOH HOH . F 6 HOH A 59 1559 71 HOH HOH . F 6 HOH A 60 1560 72 HOH HOH . F 6 HOH A 61 1561 75 HOH HOH . F 6 HOH A 62 1562 76 HOH HOH . F 6 HOH A 63 1563 78 HOH HOH . F 6 HOH A 64 1564 79 HOH HOH . F 6 HOH A 65 1565 80 HOH HOH . F 6 HOH A 66 1566 81 HOH HOH . F 6 HOH A 67 1567 82 HOH HOH . F 6 HOH A 68 1568 83 HOH HOH . F 6 HOH A 69 1569 84 HOH HOH . G 6 HOH B 1 201 8 HOH HOH . G 6 HOH B 2 202 9 HOH HOH . G 6 HOH B 3 203 22 HOH HOH . G 6 HOH B 4 204 23 HOH HOH . G 6 HOH B 5 205 29 HOH HOH . G 6 HOH B 6 206 32 HOH HOH . G 6 HOH B 7 207 33 HOH HOH . G 6 HOH B 8 208 45 HOH HOH . G 6 HOH B 9 209 46 HOH HOH . G 6 HOH B 10 210 47 HOH HOH . G 6 HOH B 11 211 53 HOH HOH . G 6 HOH B 12 212 54 HOH HOH . G 6 HOH B 13 213 73 HOH HOH . G 6 HOH B 14 214 74 HOH HOH . G 6 HOH B 15 215 77 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 D _atom_site.label_entity_id 4 _atom_site.Cartn_x -6.539 _atom_site.Cartn_y -4.817 _atom_site.Cartn_z -62.255 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 52.55 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 1402 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 289 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 1 #