data_4GAF # _model_server_result.job_id q6tO61gGCI8OwYFHjc5I5w _model_server_result.datetime_utc '2024-12-26 12:39:42' _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 4gaf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":505}' # _entry.id 4GAF # _exptl.entry_id 4GAF _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 4GAF _cell.length_a 60.35 _cell.length_b 149.27 _cell.length_c 126.17 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4GAF _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 2 2 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,H,I _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 G _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 B SG CYS 6 B CYS 6 1_555 B SG CYS 87 B CYS 87 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf2 B SG CYS 27 B CYS 27 1_555 B SG CYS 79 B CYS 79 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf3 B SG CYS 104 B CYS 104 1_555 B SG CYS 147 B CYS 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.14 ? disulf ? disulf4 B SG CYS 125 B CYS 125 1_555 B SG CYS 179 B CYS 179 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.092 ? disulf ? disulf5 B SG CYS 231 B CYS 231 1_555 B SG CYS 295 B CYS 295 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.94 ? covale ? covale1 B ND2 ASN 176 B ASN 176 1_555 E C1 NAG . B NAG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale2 B ND2 ASN 216 B ASN 216 1_555 D C1 NAG . B NAG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.427 ? covale ? covale3 B ND2 ASN 232 B ASN 232 1_555 C C1 NAG . B NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale4 B ND2 ASN 246 B ASN 246 1_555 F C1 NAG . B NAG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? metalc ? metalc1 B OG SER 18 B SER 18 1_555 G NA NA . B NA 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.552 ? metalc ? metalc2 B OE1 GLU 21 B GLU 21 1_555 G NA NA . B NA 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.581 ? metalc ? metalc3 B O THR 193 B THR 193 1_555 G NA NA . B NA 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? metalc ? metalc4 B OG1 THR 193 B THR 193 1_555 G NA NA . B NA 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.556 ? metalc ? metalc5 G NA NA . B NA 505 1_555 I O HOH . B HOH 627 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.344 ? metalc ? metalc6 G NA NA . B NA 505 1_555 I O HOH . B HOH 642 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.328 ? # _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 4GAF _atom_sites.fract_transf_matrix[1][1] 0.01657 _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] 0.006699 _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] 0.007926 _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 NAG B 1 501 501 NAG NAG . D 3 NAG B 1 502 502 NAG NAG . E 3 NAG B 1 503 503 NAG NAG . F 3 NAG B 1 504 504 NAG NAG . G 4 NA B 1 505 1 NA NA . H 5 HOH A 1 201 2 HOH HOH . H 5 HOH A 2 202 6 HOH HOH . H 5 HOH A 3 203 8 HOH HOH . H 5 HOH A 4 204 9 HOH HOH . H 5 HOH A 5 205 11 HOH HOH . H 5 HOH A 6 206 13 HOH HOH . H 5 HOH A 7 207 16 HOH HOH . H 5 HOH A 8 208 17 HOH HOH . H 5 HOH A 9 209 27 HOH HOH . H 5 HOH A 10 210 29 HOH HOH . H 5 HOH A 11 211 39 HOH HOH . H 5 HOH A 12 212 45 HOH HOH . H 5 HOH A 13 213 56 HOH HOH . H 5 HOH A 14 214 57 HOH HOH . H 5 HOH A 15 215 61 HOH HOH . H 5 HOH A 16 216 66 HOH HOH . H 5 HOH A 17 217 68 HOH HOH . H 5 HOH A 18 218 70 HOH HOH . H 5 HOH A 19 219 71 HOH HOH . H 5 HOH A 20 220 73 HOH HOH . H 5 HOH A 21 221 74 HOH HOH . H 5 HOH A 22 222 76 HOH HOH . H 5 HOH A 23 223 79 HOH HOH . H 5 HOH A 24 224 82 HOH HOH . H 5 HOH A 25 225 97 HOH HOH . H 5 HOH A 26 226 102 HOH HOH . H 5 HOH A 27 227 113 HOH HOH . H 5 HOH A 28 228 114 HOH HOH . H 5 HOH A 29 229 124 HOH HOH . H 5 HOH A 30 230 125 HOH HOH . H 5 HOH A 31 231 126 HOH HOH . H 5 HOH A 32 232 132 HOH HOH . H 5 HOH A 33 233 133 HOH HOH . H 5 HOH A 34 234 145 HOH HOH . H 5 HOH A 35 235 150 HOH HOH . H 5 HOH A 36 236 151 HOH HOH . H 5 HOH A 37 237 153 HOH HOH . H 5 HOH A 38 238 155 HOH HOH . H 5 HOH A 39 239 157 HOH HOH . H 5 HOH A 40 240 158 HOH HOH . H 5 HOH A 41 241 167 HOH HOH . H 5 HOH A 42 242 171 HOH HOH . H 5 HOH A 43 243 182 HOH HOH . H 5 HOH A 44 244 184 HOH HOH . H 5 HOH A 45 245 185 HOH HOH . H 5 HOH A 46 246 198 HOH HOH . H 5 HOH A 47 247 202 HOH HOH . H 5 HOH A 48 248 203 HOH HOH . H 5 HOH A 49 249 204 HOH HOH . H 5 HOH A 50 250 209 HOH HOH . H 5 HOH A 51 251 219 HOH HOH . H 5 HOH A 52 252 237 HOH HOH . H 5 HOH A 53 253 240 HOH HOH . H 5 HOH A 54 254 254 HOH HOH . H 5 HOH A 55 255 262 HOH HOH . H 5 HOH A 56 256 269 HOH HOH . H 5 HOH A 57 257 272 HOH HOH . H 5 HOH A 58 258 273 HOH HOH . H 5 HOH A 59 259 277 HOH HOH . H 5 HOH A 60 260 278 HOH HOH . I 5 HOH B 1 601 1 HOH HOH . I 5 HOH B 2 602 3 HOH HOH . I 5 HOH B 3 603 4 HOH HOH . I 5 HOH B 4 604 5 HOH HOH . I 5 HOH B 5 605 7 HOH HOH . I 5 HOH B 6 606 10 HOH HOH . I 5 HOH B 7 607 12 HOH HOH . I 5 HOH B 8 608 14 HOH HOH . I 5 HOH B 9 609 15 HOH HOH . I 5 HOH B 10 610 18 HOH HOH . I 5 HOH B 11 611 19 HOH HOH . I 5 HOH B 12 612 20 HOH HOH . I 5 HOH B 13 613 21 HOH HOH . I 5 HOH B 14 614 22 HOH HOH . I 5 HOH B 15 615 23 HOH HOH . I 5 HOH B 16 616 24 HOH HOH . I 5 HOH B 17 617 25 HOH HOH . I 5 HOH B 18 618 26 HOH HOH . I 5 HOH B 19 619 28 HOH HOH . I 5 HOH B 20 620 30 HOH HOH . I 5 HOH B 21 621 31 HOH HOH . I 5 HOH B 22 622 32 HOH HOH . I 5 HOH B 23 623 33 HOH HOH . I 5 HOH B 24 624 34 HOH HOH . I 5 HOH B 25 625 36 HOH HOH . I 5 HOH B 26 626 37 HOH HOH . I 5 HOH B 27 627 38 HOH HOH . I 5 HOH B 28 628 40 HOH HOH . I 5 HOH B 29 629 41 HOH HOH . I 5 HOH B 30 630 42 HOH HOH . I 5 HOH B 31 631 44 HOH HOH . I 5 HOH B 32 632 46 HOH HOH . I 5 HOH B 33 633 47 HOH HOH . I 5 HOH B 34 634 48 HOH HOH . I 5 HOH B 35 635 49 HOH HOH . I 5 HOH B 36 636 50 HOH HOH . I 5 HOH B 37 637 52 HOH HOH . I 5 HOH B 38 638 53 HOH HOH . I 5 HOH B 39 639 54 HOH HOH . I 5 HOH B 40 640 59 HOH HOH . I 5 HOH B 41 641 60 HOH HOH . I 5 HOH B 42 642 62 HOH HOH . I 5 HOH B 43 643 63 HOH HOH . I 5 HOH B 44 644 64 HOH HOH . I 5 HOH B 45 645 65 HOH HOH . I 5 HOH B 46 646 67 HOH HOH . I 5 HOH B 47 647 69 HOH HOH . I 5 HOH B 48 648 72 HOH HOH . I 5 HOH B 49 649 75 HOH HOH . I 5 HOH B 50 650 77 HOH HOH . I 5 HOH B 51 651 78 HOH HOH . I 5 HOH B 52 652 80 HOH HOH . I 5 HOH B 53 653 81 HOH HOH . I 5 HOH B 54 654 83 HOH HOH . I 5 HOH B 55 655 84 HOH HOH . I 5 HOH B 56 656 85 HOH HOH . I 5 HOH B 57 657 86 HOH HOH . I 5 HOH B 58 658 87 HOH HOH . I 5 HOH B 59 659 88 HOH HOH . I 5 HOH B 60 660 89 HOH HOH . I 5 HOH B 61 661 90 HOH HOH . I 5 HOH B 62 662 91 HOH HOH . I 5 HOH B 63 663 92 HOH HOH . I 5 HOH B 64 664 93 HOH HOH . I 5 HOH B 65 665 94 HOH HOH . I 5 HOH B 66 666 96 HOH HOH . I 5 HOH B 67 667 98 HOH HOH . I 5 HOH B 68 668 100 HOH HOH . I 5 HOH B 69 669 101 HOH HOH . I 5 HOH B 70 670 104 HOH HOH . I 5 HOH B 71 671 105 HOH HOH . I 5 HOH B 72 672 106 HOH HOH . I 5 HOH B 73 673 107 HOH HOH . I 5 HOH B 74 674 108 HOH HOH . I 5 HOH B 75 675 109 HOH HOH . I 5 HOH B 76 676 110 HOH HOH . I 5 HOH B 77 677 112 HOH HOH . I 5 HOH B 78 678 115 HOH HOH . I 5 HOH B 79 679 116 HOH HOH . I 5 HOH B 80 680 117 HOH HOH . I 5 HOH B 81 681 118 HOH HOH . I 5 HOH B 82 682 119 HOH HOH . I 5 HOH B 83 683 121 HOH HOH . I 5 HOH B 84 684 128 HOH HOH . I 5 HOH B 85 685 129 HOH HOH . I 5 HOH B 86 686 130 HOH HOH . I 5 HOH B 87 687 134 HOH HOH . I 5 HOH B 88 688 135 HOH HOH . I 5 HOH B 89 689 136 HOH HOH . I 5 HOH B 90 690 141 HOH HOH . I 5 HOH B 91 691 142 HOH HOH . I 5 HOH B 92 692 143 HOH HOH . I 5 HOH B 93 693 147 HOH HOH . I 5 HOH B 94 694 148 HOH HOH . I 5 HOH B 95 695 152 HOH HOH . I 5 HOH B 96 696 154 HOH HOH . I 5 HOH B 97 697 159 HOH HOH . I 5 HOH B 98 698 165 HOH HOH . I 5 HOH B 99 699 169 HOH HOH . I 5 HOH B 100 700 170 HOH HOH . I 5 HOH B 101 701 173 HOH HOH . I 5 HOH B 102 702 176 HOH HOH . I 5 HOH B 103 703 177 HOH HOH . I 5 HOH B 104 704 178 HOH HOH . I 5 HOH B 105 705 180 HOH HOH . I 5 HOH B 106 706 181 HOH HOH . I 5 HOH B 107 707 188 HOH HOH . I 5 HOH B 108 708 190 HOH HOH . I 5 HOH B 109 709 191 HOH HOH . I 5 HOH B 110 710 192 HOH HOH . I 5 HOH B 111 711 194 HOH HOH . I 5 HOH B 112 712 197 HOH HOH . I 5 HOH B 113 713 200 HOH HOH . I 5 HOH B 114 714 201 HOH HOH . I 5 HOH B 115 715 211 HOH HOH . I 5 HOH B 116 716 212 HOH HOH . I 5 HOH B 117 717 213 HOH HOH . I 5 HOH B 118 718 214 HOH HOH . I 5 HOH B 119 719 216 HOH HOH . I 5 HOH B 120 720 222 HOH HOH . I 5 HOH B 121 721 226 HOH HOH . I 5 HOH B 122 722 228 HOH HOH . I 5 HOH B 123 723 229 HOH HOH . I 5 HOH B 124 724 232 HOH HOH . I 5 HOH B 125 725 238 HOH HOH . I 5 HOH B 126 726 239 HOH HOH . I 5 HOH B 127 727 241 HOH HOH . I 5 HOH B 128 728 242 HOH HOH . I 5 HOH B 129 729 243 HOH HOH . I 5 HOH B 130 730 244 HOH HOH . I 5 HOH B 131 731 245 HOH HOH . I 5 HOH B 132 732 246 HOH HOH . I 5 HOH B 133 733 249 HOH HOH . I 5 HOH B 134 734 250 HOH HOH . I 5 HOH B 135 735 251 HOH HOH . I 5 HOH B 136 736 252 HOH HOH . I 5 HOH B 137 737 256 HOH HOH . I 5 HOH B 138 738 257 HOH HOH . I 5 HOH B 139 739 258 HOH HOH . I 5 HOH B 140 740 263 HOH HOH . I 5 HOH B 141 741 264 HOH HOH . I 5 HOH B 142 742 265 HOH HOH . I 5 HOH B 143 743 267 HOH HOH . I 5 HOH B 144 744 268 HOH HOH . I 5 HOH B 145 745 270 HOH HOH . I 5 HOH B 146 746 275 HOH HOH . I 5 HOH B 147 747 276 HOH HOH . I 5 HOH B 148 748 282 HOH HOH . I 5 HOH B 149 749 283 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 G _atom_site.label_entity_id 4 _atom_site.Cartn_x -11.141 _atom_site.Cartn_y -61.035 _atom_site.Cartn_z 17.891 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 34.22 _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 B _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 239 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 1 #