data_4NTX # _model_server_result.job_id VeOlxTnBLjec77peGuEmHw _model_server_result.datetime_utc '2025-03-26 20:47:08' _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 4ntx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":505}' # _entry.id 4NTX # _exptl.entry_id 4NTX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SODIUM ION' _entity.pdbx_number_of_molecules 3 _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 120 _cell.entry_id 4NTX _cell.length_a 151.56 _cell.length_b 151.56 _cell.length_c 123.2 _cell.Z_PDB 9 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4NTX _symmetry.cell_setting ? _symmetry.Int_Tables_number 146 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA trimeric 3 author_and_software_defined_assembly 1 PISA nonameric 9 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P 1 1 A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P 2 1,2,3 # 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_555 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 6 G N N ? 6 H N N ? 6 M N 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 81 A CYS 94 1_555 A SG CYS 182 A CYS 195 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf2 A SG CYS 160 A CYS 173 1_555 A SG CYS 167 A CYS 180 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.079 ? disulf ? disulf3 A SG CYS 278 A CYS 291 1_555 A SG CYS 353 A CYS 366 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf4 A SG CYS 296 A CYS 309 1_555 A SG CYS 349 A CYS 362 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? disulf ? disulf5 A SG CYS 300 A CYS 313 1_555 A SG CYS 347 A CYS 360 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.124 ? disulf ? disulf6 A SG CYS 309 A CYS 322 1_555 A SG CYS 331 A CYS 344 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? disulf ? disulf7 A SG CYS 311 A CYS 324 1_555 A SG CYS 323 A CYS 336 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? disulf ? disulf8 B SG CYS 7 B CYS 7 1_555 B SG CYS 58 B CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf9 B SG CYS 17 B CYS 17 1_555 B SG CYS 41 B CYS 41 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf10 B SG CYS 33 B CYS 33 1_555 B SG CYS 54 B CYS 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf11 C SG CYS 11 C CYS 11 1_555 C SG CYS 70 C CYS 70 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf12 C SG CYS 25 C CYS 25 1_555 C SG CYS 118 C CYS 118 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf13 C SG CYS 27 C CYS 27 1_555 C SG CYS 43 C CYS 43 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf14 C SG CYS 42 C CYS 42 1_555 C SG CYS 100 C CYS 100 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf15 C SG CYS 49 C CYS 49 1_555 C SG CYS 93 C CYS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? disulf ? disulf16 C SG CYS 59 C CYS 59 1_555 C SG CYS 86 C CYS 86 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf17 C SG CYS 79 C CYS 79 1_555 C SG CYS 91 C CYS 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? covale ? covale1 A ND2 ASN 354 A ASN 367 1_555 D C1 NAG . A NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale2 A ND2 ASN 381 A ASN 394 1_555 E C1 NAG . A NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.461 ? covale ? covale3 B C PCA 1 B PCA 1 1_555 B N ILE 2 B ILE 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? metalc ? metalc1 A O THR 224 A THR 237 1_555 H NA NA . A NA 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.818 ? metalc ? metalc2 A O THR 227 A THR 240 1_555 H NA NA . A NA 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.801 ? metalc ? metalc3 C O PHE 68 C PHE 68 1_555 M NA NA . C NA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.81 ? # _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 4NTX _atom_sites.fract_transf_matrix[1][1] 0.006598 _atom_sites.fract_transf_matrix[1][2] 0.003809 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007619 _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] 0.008117 _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 D 4 NAG A 1 501 501 NAG NAG . E 4 NAG A 1 502 502 NAG NAG . F 5 CL A 1 503 1 CL CL . G 6 NA A 1 504 2 NA NA . H 6 NA A 1 505 3 NA NA . I 7 P6G A 1 506 5 P6G P6G . J 8 AMR A 1 507 6 AMR AMR . K 8 AMR A 1 508 7 AMR AMR . L 8 AMR A 1 509 8 AMR AMR . M 6 NA C 1 201 4 NA NA . N 9 HOH A 1 601 1 HOH HOH . N 9 HOH A 2 602 2 HOH HOH . N 9 HOH A 3 603 3 HOH HOH . N 9 HOH A 4 604 4 HOH HOH . N 9 HOH A 5 605 5 HOH HOH . N 9 HOH A 6 606 6 HOH HOH . N 9 HOH A 7 607 8 HOH HOH . N 9 HOH A 8 608 9 HOH HOH . N 9 HOH A 9 609 10 HOH HOH . N 9 HOH A 10 610 11 HOH HOH . N 9 HOH A 11 611 12 HOH HOH . N 9 HOH A 12 612 13 HOH HOH . N 9 HOH A 13 613 14 HOH HOH . N 9 HOH A 14 614 15 HOH HOH . N 9 HOH A 15 615 16 HOH HOH . N 9 HOH A 16 616 17 HOH HOH . N 9 HOH A 17 617 18 HOH HOH . N 9 HOH A 18 618 19 HOH HOH . N 9 HOH A 19 619 20 HOH HOH . N 9 HOH A 20 620 21 HOH HOH . N 9 HOH A 21 621 22 HOH HOH . N 9 HOH A 22 622 23 HOH HOH . N 9 HOH A 23 623 24 HOH HOH . N 9 HOH A 24 624 25 HOH HOH . N 9 HOH A 25 625 26 HOH HOH . N 9 HOH A 26 626 27 HOH HOH . N 9 HOH A 27 627 28 HOH HOH . N 9 HOH A 28 628 29 HOH HOH . N 9 HOH A 29 629 30 HOH HOH . N 9 HOH A 30 630 31 HOH HOH . N 9 HOH A 31 631 32 HOH HOH . N 9 HOH A 32 632 33 HOH HOH . N 9 HOH A 33 633 34 HOH HOH . N 9 HOH A 34 634 35 HOH HOH . N 9 HOH A 35 635 36 HOH HOH . N 9 HOH A 36 636 37 HOH HOH . N 9 HOH A 37 637 38 HOH HOH . N 9 HOH A 38 638 39 HOH HOH . N 9 HOH A 39 639 40 HOH HOH . N 9 HOH A 40 640 41 HOH HOH . N 9 HOH A 41 641 43 HOH HOH . N 9 HOH A 42 642 44 HOH HOH . N 9 HOH A 43 643 45 HOH HOH . N 9 HOH A 44 644 46 HOH HOH . N 9 HOH A 45 645 47 HOH HOH . N 9 HOH A 46 646 48 HOH HOH . N 9 HOH A 47 647 49 HOH HOH . N 9 HOH A 48 648 51 HOH HOH . N 9 HOH A 49 649 52 HOH HOH . N 9 HOH A 50 650 53 HOH HOH . N 9 HOH A 51 651 54 HOH HOH . N 9 HOH A 52 652 55 HOH HOH . N 9 HOH A 53 653 58 HOH HOH . N 9 HOH A 54 654 59 HOH HOH . N 9 HOH A 55 655 60 HOH HOH . N 9 HOH A 56 656 62 HOH HOH . N 9 HOH A 57 657 63 HOH HOH . N 9 HOH A 58 658 64 HOH HOH . N 9 HOH A 59 659 65 HOH HOH . N 9 HOH A 60 660 66 HOH HOH . N 9 HOH A 61 661 68 HOH HOH . N 9 HOH A 62 662 69 HOH HOH . N 9 HOH A 63 663 70 HOH HOH . N 9 HOH A 64 664 72 HOH HOH . N 9 HOH A 65 665 73 HOH HOH . N 9 HOH A 66 666 74 HOH HOH . N 9 HOH A 67 667 75 HOH HOH . N 9 HOH A 68 668 76 HOH HOH . N 9 HOH A 69 669 77 HOH HOH . N 9 HOH A 70 670 78 HOH HOH . N 9 HOH A 71 671 79 HOH HOH . N 9 HOH A 72 672 80 HOH HOH . N 9 HOH A 73 673 81 HOH HOH . N 9 HOH A 74 674 82 HOH HOH . N 9 HOH A 75 675 84 HOH HOH . N 9 HOH A 76 676 85 HOH HOH . N 9 HOH A 77 677 86 HOH HOH . N 9 HOH A 78 678 87 HOH HOH . N 9 HOH A 79 679 88 HOH HOH . N 9 HOH A 80 680 90 HOH HOH . N 9 HOH A 81 681 91 HOH HOH . N 9 HOH A 82 682 92 HOH HOH . N 9 HOH A 83 683 93 HOH HOH . N 9 HOH A 84 684 94 HOH HOH . N 9 HOH A 85 685 95 HOH HOH . N 9 HOH A 86 686 96 HOH HOH . N 9 HOH A 87 687 97 HOH HOH . N 9 HOH A 88 688 98 HOH HOH . N 9 HOH A 89 689 100 HOH HOH . N 9 HOH A 90 690 101 HOH HOH . N 9 HOH A 91 691 103 HOH HOH . N 9 HOH A 92 692 104 HOH HOH . N 9 HOH A 93 693 105 HOH HOH . N 9 HOH A 94 694 106 HOH HOH . N 9 HOH A 95 695 107 HOH HOH . N 9 HOH A 96 696 108 HOH HOH . N 9 HOH A 97 697 111 HOH HOH . N 9 HOH A 98 698 112 HOH HOH . N 9 HOH A 99 699 113 HOH HOH . N 9 HOH A 100 700 114 HOH HOH . N 9 HOH A 101 701 115 HOH HOH . N 9 HOH A 102 702 116 HOH HOH . N 9 HOH A 103 703 117 HOH HOH . N 9 HOH A 104 704 118 HOH HOH . N 9 HOH A 105 705 119 HOH HOH . N 9 HOH A 106 706 121 HOH HOH . N 9 HOH A 107 707 123 HOH HOH . N 9 HOH A 108 708 124 HOH HOH . N 9 HOH A 109 709 125 HOH HOH . N 9 HOH A 110 710 126 HOH HOH . N 9 HOH A 111 711 127 HOH HOH . N 9 HOH A 112 712 128 HOH HOH . N 9 HOH A 113 713 129 HOH HOH . N 9 HOH A 114 714 130 HOH HOH . N 9 HOH A 115 715 131 HOH HOH . N 9 HOH A 116 716 132 HOH HOH . N 9 HOH A 117 717 133 HOH HOH . N 9 HOH A 118 718 134 HOH HOH . N 9 HOH A 119 719 135 HOH HOH . N 9 HOH A 120 720 136 HOH HOH . N 9 HOH A 121 721 138 HOH HOH . N 9 HOH A 122 722 139 HOH HOH . N 9 HOH A 123 723 140 HOH HOH . N 9 HOH A 124 724 141 HOH HOH . N 9 HOH A 125 725 142 HOH HOH . N 9 HOH A 126 726 144 HOH HOH . N 9 HOH A 127 727 146 HOH HOH . N 9 HOH A 128 728 147 HOH HOH . N 9 HOH A 129 729 148 HOH HOH . N 9 HOH A 130 730 149 HOH HOH . N 9 HOH A 131 731 151 HOH HOH . N 9 HOH A 132 732 154 HOH HOH . N 9 HOH A 133 733 157 HOH HOH . N 9 HOH A 134 734 158 HOH HOH . N 9 HOH A 135 735 160 HOH HOH . N 9 HOH A 136 736 162 HOH HOH . N 9 HOH A 137 737 163 HOH HOH . N 9 HOH A 138 738 164 HOH HOH . N 9 HOH A 139 739 165 HOH HOH . N 9 HOH A 140 740 168 HOH HOH . N 9 HOH A 141 741 170 HOH HOH . N 9 HOH A 142 742 172 HOH HOH . N 9 HOH A 143 743 174 HOH HOH . N 9 HOH A 144 744 176 HOH HOH . N 9 HOH A 145 745 177 HOH HOH . N 9 HOH A 146 746 179 HOH HOH . O 9 HOH B 1 101 50 HOH HOH . O 9 HOH B 2 102 57 HOH HOH . O 9 HOH B 3 103 61 HOH HOH . O 9 HOH B 4 104 71 HOH HOH . O 9 HOH B 5 105 83 HOH HOH . O 9 HOH B 6 106 102 HOH HOH . O 9 HOH B 7 107 109 HOH HOH . O 9 HOH B 8 108 110 HOH HOH . O 9 HOH B 9 109 143 HOH HOH . O 9 HOH B 10 110 145 HOH HOH . O 9 HOH B 11 111 166 HOH HOH . O 9 HOH B 12 112 167 HOH HOH . O 9 HOH B 13 113 169 HOH HOH . O 9 HOH B 14 114 171 HOH HOH . O 9 HOH B 15 115 173 HOH HOH . O 9 HOH B 16 116 175 HOH HOH . O 9 HOH B 17 117 180 HOH HOH . P 9 HOH C 1 301 7 HOH HOH . P 9 HOH C 2 302 42 HOH HOH . P 9 HOH C 3 303 56 HOH HOH . P 9 HOH C 4 304 67 HOH HOH . P 9 HOH C 5 305 89 HOH HOH . P 9 HOH C 6 306 99 HOH HOH . P 9 HOH C 7 307 120 HOH HOH . P 9 HOH C 8 308 122 HOH HOH . P 9 HOH C 9 309 137 HOH HOH . P 9 HOH C 10 310 150 HOH HOH . P 9 HOH C 11 311 152 HOH HOH . P 9 HOH C 12 312 153 HOH HOH . P 9 HOH C 13 313 155 HOH HOH . P 9 HOH C 14 314 156 HOH HOH . P 9 HOH C 15 315 159 HOH HOH . P 9 HOH C 16 316 161 HOH HOH . P 9 HOH C 17 317 178 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 H _atom_site.label_entity_id 6 _atom_site.Cartn_x -21.616 _atom_site.Cartn_y -1.966 _atom_site.Cartn_z -48.583 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 57.57 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 505 _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 10 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 306 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 1 #