data_6HAC # _model_server_result.job_id p5Vao7e2uSvoPXlpRFUqJw _model_server_result.datetime_utc '2024-11-07 16:07:17' _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 6hac # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 6HAC # _exptl.entry_id 6HAC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 686.323 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'iron-guanylyl pyridinol cofactor' _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 6HAC _cell.length_a 136.985 _cell.length_b 136.985 _cell.length_c 117.317 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6HAC _symmetry.cell_setting ? _symmetry.Int_Tables_number 98 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 41 2 2' # _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 1,2 # 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' 6_544 x,-y-1/2,-z-3/4 1 0 0 0 -1 0 0 0 -1 0 -68.4925 -87.98775 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _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 metalc ? metalc1 A SG CYS 176 A CYS 176 1_555 B FE FE9 . A FE9 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.556 ? metalc ? metalc2 A O PRO 325 A PRO 325 1_555 F NA NA . A NA 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.656 ? metalc ? metalc3 B FE FE9 . A FE9 401 1_555 G O HOH . A HOH 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.321 ? metalc ? metalc4 F NA NA . A NA 405 1_555 G O HOH . A HOH 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.781 ? # _chem_comp.formula 'C21 H23 Fe N6 O13 P S 4' _chem_comp.formula_weight 686.323 _chem_comp.id FE9 _chem_comp.mon_nstd_flag . _chem_comp.name 'iron-guanylyl pyridinol cofactor' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag O2' C2' FE9 sing 120 n n O6A C6A FE9 doub 121 n n C6A N1A FE9 sing 122 n n C6A C5A FE9 sing 123 n n N1A C2A FE9 sing 124 n n N7A C5A FE9 sing 125 n y N7A C8A FE9 doub 126 n y C5A C4A FE9 doub 127 n y C8A N9A FE9 sing 128 n y C2A N2A FE9 sing 129 n n C2A N3A FE9 doub 130 n n C2' C1' FE9 sing 131 n n C2' C3' FE9 sing 132 n n C4A N3A FE9 sing 133 n n C4A N9A FE9 sing 134 n y N9A C1' FE9 sing 135 n n O3' C3' FE9 sing 136 n n C1' O4' FE9 sing 137 n n C3' C4' FE9 sing 138 n n O4' C4' FE9 sing 139 n n C4' C5' FE9 sing 140 n n O1P P1 FE9 doub 141 n n C5' O5' FE9 sing 142 n n O5' P1 FE9 sing 143 n n P1 O2P FE9 sing 144 n n P1 O3P FE9 sing 145 n n O3P C4 FE9 sing 146 n n C3M C3 FE9 sing 147 n n C4 C3 FE9 doub 148 n n C4 C5 FE9 sing 149 n n C5M C5 FE9 sing 150 n n C3 C2 FE9 sing 151 n n C5 C6 FE9 doub 152 n n C2 O2 FE9 doub 153 n n C2 N1 FE9 sing 154 n n C6 N1 FE9 sing 155 n n C6 C7 FE9 sing 156 n n N1 FE FE9 sing 157 n n O1F C1F FE9 trip 158 n n C7 C8 FE9 sing 159 n n C1F FE FE9 sing 160 n n C8 FE FE9 sing 161 n n C8 O18 FE9 doub 162 n n FE C2F FE9 sing 163 n n C2F O2F FE9 trip 164 n n C7 H8 FE9 sing 165 n n C5M H9 FE9 sing 166 n n C5M H10 FE9 sing 167 n n C5M H11 FE9 sing 168 n n C3M H12 FE9 sing 169 n n C3M H13 FE9 sing 170 n n C3M H14 FE9 sing 171 n n O2P H15 FE9 sing 172 n n C5' H16 FE9 sing 173 n n C5' H17 FE9 sing 174 n n C4' H18 FE9 sing 175 n n C1' H19 FE9 sing 176 n n C2' H20 FE9 sing 177 n n O2' H21 FE9 sing 178 n n C3' H22 FE9 sing 179 n n O3' H23 FE9 sing 180 n n N2A H24 FE9 sing 181 n n N2A H25 FE9 sing 182 n n N1A H26 FE9 sing 183 n n C8A H27 FE9 sing 184 n n C7 H1 FE9 sing 185 n n FE O1 FE9 sing 186 n n FE S1 FE9 sing 187 n n S1 HS1 FE9 sing 188 n n O1 H2 FE9 sing 189 n n # _atom_sites.entry_id 6HAC _atom_sites.fract_transf_matrix[1][1] 0.0073 _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] 0.0073 _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] 0.008524 _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 B 2 FE9 A 1 401 401 FE9 FE9 . C 3 1PE A 1 402 1 1PE 1PE . D 4 GOL A 1 403 1 GOL GOL . E 4 GOL A 1 404 2 GOL GOL . F 5 NA A 1 405 1 NA NA . G 6 HOH A 1 501 5 HOH HOH . G 6 HOH A 2 502 52 HOH HOH . G 6 HOH A 3 503 19 HOH HOH . G 6 HOH A 4 504 15 HOH HOH . G 6 HOH A 5 505 63 HOH HOH . G 6 HOH A 6 506 68 HOH HOH . G 6 HOH A 7 507 11 HOH HOH . G 6 HOH A 8 508 18 HOH HOH . G 6 HOH A 9 509 57 HOH HOH . G 6 HOH A 10 510 4 HOH HOH . G 6 HOH A 11 511 71 HOH HOH . G 6 HOH A 12 512 26 HOH HOH . G 6 HOH A 13 513 53 HOH HOH . G 6 HOH A 14 514 49 HOH HOH . G 6 HOH A 15 515 74 HOH HOH . G 6 HOH A 16 516 110 HOH HOH . G 6 HOH A 17 517 16 HOH HOH . G 6 HOH A 18 518 35 HOH HOH . G 6 HOH A 19 519 45 HOH HOH . G 6 HOH A 20 520 66 HOH HOH . G 6 HOH A 21 521 17 HOH HOH . G 6 HOH A 22 522 62 HOH HOH . G 6 HOH A 23 523 54 HOH HOH . G 6 HOH A 24 524 10 HOH HOH . G 6 HOH A 25 525 85 HOH HOH . G 6 HOH A 26 526 21 HOH HOH . G 6 HOH A 27 527 73 HOH HOH . G 6 HOH A 28 528 70 HOH HOH . G 6 HOH A 29 529 7 HOH HOH . G 6 HOH A 30 530 102 HOH HOH . G 6 HOH A 31 531 67 HOH HOH . G 6 HOH A 32 532 60 HOH HOH . G 6 HOH A 33 533 88 HOH HOH . G 6 HOH A 34 534 9 HOH HOH . G 6 HOH A 35 535 90 HOH HOH . G 6 HOH A 36 536 106 HOH HOH . G 6 HOH A 37 537 55 HOH HOH . G 6 HOH A 38 538 22 HOH HOH . G 6 HOH A 39 539 36 HOH HOH . G 6 HOH A 40 540 59 HOH HOH . G 6 HOH A 41 541 97 HOH HOH . G 6 HOH A 42 542 6 HOH HOH . G 6 HOH A 43 543 14 HOH HOH . G 6 HOH A 44 544 78 HOH HOH . G 6 HOH A 45 545 81 HOH HOH . G 6 HOH A 46 546 96 HOH HOH . G 6 HOH A 47 547 3 HOH HOH . G 6 HOH A 48 548 13 HOH HOH . G 6 HOH A 49 549 12 HOH HOH . G 6 HOH A 50 550 47 HOH HOH . G 6 HOH A 51 551 37 HOH HOH . G 6 HOH A 52 552 46 HOH HOH . G 6 HOH A 53 553 30 HOH HOH . G 6 HOH A 54 554 31 HOH HOH . G 6 HOH A 55 555 43 HOH HOH . G 6 HOH A 56 556 28 HOH HOH . G 6 HOH A 57 557 51 HOH HOH . G 6 HOH A 58 558 1 HOH HOH . G 6 HOH A 59 559 89 HOH HOH . G 6 HOH A 60 560 108 HOH HOH . G 6 HOH A 61 561 64 HOH HOH . G 6 HOH A 62 562 8 HOH HOH . G 6 HOH A 63 563 33 HOH HOH . G 6 HOH A 64 564 20 HOH HOH . G 6 HOH A 65 565 34 HOH HOH . G 6 HOH A 66 566 65 HOH HOH . G 6 HOH A 67 567 32 HOH HOH . G 6 HOH A 68 568 44 HOH HOH . G 6 HOH A 69 569 82 HOH HOH . G 6 HOH A 70 570 27 HOH HOH . G 6 HOH A 71 571 41 HOH HOH . G 6 HOH A 72 572 69 HOH HOH . G 6 HOH A 73 573 84 HOH HOH . G 6 HOH A 74 574 80 HOH HOH . G 6 HOH A 75 575 77 HOH HOH . G 6 HOH A 76 576 39 HOH HOH . G 6 HOH A 77 577 107 HOH HOH . G 6 HOH A 78 578 92 HOH HOH . G 6 HOH A 79 579 2 HOH HOH . G 6 HOH A 80 580 75 HOH HOH . G 6 HOH A 81 581 98 HOH HOH . G 6 HOH A 82 582 99 HOH HOH . G 6 HOH A 83 583 24 HOH HOH . G 6 HOH A 84 584 76 HOH HOH . G 6 HOH A 85 585 101 HOH HOH . G 6 HOH A 86 586 93 HOH HOH . G 6 HOH A 87 587 25 HOH HOH . G 6 HOH A 88 588 40 HOH HOH . G 6 HOH A 89 589 83 HOH HOH . G 6 HOH A 90 590 100 HOH HOH . G 6 HOH A 91 591 86 HOH HOH . G 6 HOH A 92 592 103 HOH HOH . G 6 HOH A 93 593 79 HOH HOH . G 6 HOH A 94 594 50 HOH HOH . G 6 HOH A 95 595 56 HOH HOH . G 6 HOH A 96 596 38 HOH HOH . G 6 HOH A 97 597 72 HOH HOH . G 6 HOH A 98 598 94 HOH HOH . G 6 HOH A 99 599 91 HOH HOH . G 6 HOH A 100 600 61 HOH HOH . G 6 HOH A 101 601 109 HOH HOH . G 6 HOH A 102 602 105 HOH HOH . G 6 HOH A 103 603 87 HOH HOH . G 6 HOH A 104 604 42 HOH HOH . G 6 HOH A 105 605 104 HOH HOH . G 6 HOH A 106 606 95 HOH HOH . G 6 HOH A 107 607 48 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 O O2 FE9 . . . B 2 -2.109 -50.188 -22.587 1 50.26 ? O2 FE9 401 A 1 HETATM 2 FE FE FE9 . . . B 2 -2.811 -47.054 -22.325 1 45.89 ? FE FE9 401 A 1 HETATM 3 C C1F FE9 . . . B 2 -1.296 -47.043 -21.308 1 47.75 ? C1F FE9 401 A 1 HETATM 4 O O1F FE9 . . . B 2 -0.361 -47.033 -20.678 1 49.22 ? O1F FE9 401 A 1 HETATM 5 C C2F FE9 . . . B 2 -2.284 -45.433 -22.983 1 45.16 ? C2F FE9 401 A 1 HETATM 6 O O2F FE9 . . . B 2 -1.979 -44.408 -23.336 1 43.34 ? O2F FE9 401 A 1 HETATM 7 C C8 FE9 . . . B 2 -3.905 -46.195 -21.004 1 34.74 ? C8 FE9 401 A 1 HETATM 8 O O18 FE9 . . . B 2 -3.928 -44.996 -20.821 1 31.94 ? O18 FE9 401 A 1 HETATM 9 C C7 FE9 . . . B 2 -4.828 -47.054 -20.179 1 35.15 ? C7 FE9 401 A 1 HETATM 10 C C6 FE9 . . . B 2 -4.425 -48.477 -20.422 1 28.57 ? C6 FE9 401 A 1 HETATM 11 N N1 FE9 . . . B 2 -3.458 -48.694 -21.436 1 41.86 ? N1 FE9 401 A 1 HETATM 12 C C5 FE9 . . . B 2 -4.981 -49.552 -19.571 1 32.39 ? C5 FE9 401 A 1 HETATM 13 C C5M FE9 . . . B 2 -6.022 -49.253 -18.522 1 28.9 ? C5M FE9 401 A 1 HETATM 14 C C4 FE9 . . . B 2 -4.523 -50.929 -19.832 1 35.21 ? C4 FE9 401 A 1 HETATM 15 C C3 FE9 . . . B 2 -3.542 -51.171 -20.923 1 37.82 ? C3 FE9 401 A 1 HETATM 16 C C3M FE9 . . . B 2 -3.094 -52.599 -21.149 1 31.86 ? C3M FE9 401 A 1 HETATM 17 C C2 FE9 . . . B 2 -2.994 -50.012 -21.71 1 43.89 ? C2 FE9 401 A 1 HETATM 18 O O3P FE9 . . . B 2 -5.069 -51.973 -19.149 1 42 ? O3P FE9 401 A 1 HETATM 19 P P1 FE9 . . . B 2 -4.426 -52.56 -17.804 1 39.32 ? P1 FE9 401 A 1 HETATM 20 O O1P FE9 . . . B 2 -4.628 -54.009 -17.865 1 45.62 ? O1P FE9 401 A 1 HETATM 21 O O2P FE9 . . . B 2 -2.876 -52.173 -17.614 1 38.72 ? O2P FE9 401 A 1 HETATM 22 O O5' FE9 . . . B 2 -5.197 -51.933 -16.551 1 37.38 ? O5' FE9 401 A 1 HETATM 23 C C5' FE9 . . . B 2 -6.536 -52.307 -16.269 1 31.42 ? C5' FE9 401 A 1 HETATM 24 C C4' FE9 . . . B 2 -6.568 -52.51 -14.777 1 32.29 ? C4' FE9 401 A 1 HETATM 25 O O4' FE9 . . . B 2 -7.919 -52.51 -14.342 1 36.28 ? O4' FE9 401 A 1 HETATM 26 C C1' FE9 . . . B 2 -7.958 -53.389 -13.246 1 31.44 ? C1' FE9 401 A 1 HETATM 27 C C2' FE9 . . . B 2 -7.116 -54.583 -13.669 1 36.64 ? C2' FE9 401 A 1 HETATM 28 O O2' FE9 . . . B 2 -6.697 -55.398 -12.563 1 32.11 ? O2' FE9 401 A 1 HETATM 29 C C3' FE9 . . . B 2 -5.974 -53.854 -14.365 1 34.83 ? C3' FE9 401 A 1 HETATM 30 O O3' FE9 . . . B 2 -4.914 -53.655 -13.438 1 28.94 ? O3' FE9 401 A 1 HETATM 31 N N9A FE9 . . . B 2 -9.32 -53.731 -12.87 1 28.49 ? N9A FE9 401 A 1 HETATM 32 C C4A FE9 . . . B 2 -9.932 -53.105 -11.872 1 29.19 ? C4A FE9 401 A 1 HETATM 33 N N3A FE9 . . . B 2 -9.611 -52.075 -11.061 1 26.8 ? N3A FE9 401 A 1 HETATM 34 C C2A FE9 . . . B 2 -10.471 -51.656 -10.11 1 32.36 ? C2A FE9 401 A 1 HETATM 35 N N2A FE9 . . . B 2 -10.074 -50.646 -9.297 1 31.77 ? N2A FE9 401 A 1 HETATM 36 N N1A FE9 . . . B 2 -11.692 -52.207 -9.952 1 32.8 ? N1A FE9 401 A 1 HETATM 37 C C6A FE9 . . . B 2 -12.146 -53.201 -10.727 1 34.5 ? C6A FE9 401 A 1 HETATM 38 O O6A FE9 . . . B 2 -13.251 -53.737 -10.503 1 44.04 ? O6A FE9 401 A 1 HETATM 39 C C5A FE9 . . . B 2 -11.265 -53.695 -11.805 1 30.11 ? C5A FE9 401 A 1 HETATM 40 N N7A FE9 . . . B 2 -11.291 -54.674 -12.739 1 30.27 ? N7A FE9 401 A 1 HETATM 41 C C8A FE9 . . . B 2 -10.116 -54.676 -13.401 1 25.1 ? C8A FE9 401 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 297 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 41 #