data_6DH9 # _model_server_result.job_id TJB5jK9dfq9S1hO0ULDDKQ _model_server_result.datetime_utc '2025-08-06 11:17:07' _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 6dh9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":502}' # _entry.id 6DH9 # _exptl.entry_id 6DH9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 158.238 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'nonanoic acid' _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 103.59 _cell.angle_gamma 90 _cell.entry_id 6DH9 _cell.length_a 93.12 _cell.length_b 60.2 _cell.length_c 118.04 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6DH9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # 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 monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_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,C,D,E 1 1 B,F 2 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 3 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C9 H18 O2' _chem_comp.formula_weight 158.238 _chem_comp.id KNA _chem_comp.mon_nstd_flag . _chem_comp.name 'nonanoic acid' _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 C1 KNA doub 218 n n C1 C2 KNA sing 219 n n C1 O1 KNA sing 220 n n O1 HO1 KNA sing 221 n n C3 C2 KNA sing 222 n n C2 H2 KNA sing 223 n n C2 H2A KNA sing 224 n n C3 C4 KNA sing 225 n n C3 H3 KNA sing 226 n n C3 H3A KNA sing 227 n n C5 C4 KNA sing 228 n n C4 H4 KNA sing 229 n n C4 H4A KNA sing 230 n n C5 C6 KNA sing 231 n n C5 H5 KNA sing 232 n n C5 H5A KNA sing 233 n n C6 C7 KNA sing 234 n n C6 H6 KNA sing 235 n n C6 H6A KNA sing 236 n n C7 C8 KNA sing 237 n n C7 H7 KNA sing 238 n n C7 H7A KNA sing 239 n n C8 C9 KNA sing 240 n n C8 H8 KNA sing 241 n n C8 H8A KNA sing 242 n n C9 H9 KNA sing 243 n n C9 H9A KNA sing 244 n n C9 H9B KNA sing 245 n n # _atom_sites.entry_id 6DH9 _atom_sites.fract_transf_matrix[1][1] 0.010739 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002596 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016611 _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] 0.008716 _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 2 GH1 A 1 501 501 GH1 GH1 . D 3 KNA A 1 502 502 KNA KNA . E 4 HOH A 1 601 601 HOH HOH . E 4 HOH A 2 602 609 HOH HOH . E 4 HOH A 3 603 602 HOH HOH . E 4 HOH A 4 604 603 HOH HOH . E 4 HOH A 5 605 604 HOH HOH . E 4 HOH A 6 606 605 HOH HOH . E 4 HOH A 7 607 606 HOH HOH . E 4 HOH A 8 608 607 HOH HOH . E 4 HOH A 9 609 608 HOH HOH . E 4 HOH A 10 610 610 HOH HOH . E 4 HOH A 11 611 611 HOH HOH . E 4 HOH A 12 612 612 HOH HOH . E 4 HOH A 13 613 613 HOH HOH . E 4 HOH A 14 614 614 HOH HOH . E 4 HOH A 15 615 615 HOH HOH . E 4 HOH A 16 616 616 HOH HOH . E 4 HOH A 17 617 617 HOH HOH . E 4 HOH A 18 618 618 HOH HOH . E 4 HOH A 19 619 619 HOH HOH . E 4 HOH A 20 620 620 HOH HOH . E 4 HOH A 21 621 621 HOH HOH . E 4 HOH A 22 622 622 HOH HOH . E 4 HOH A 23 623 623 HOH HOH . E 4 HOH A 24 624 624 HOH HOH . E 4 HOH A 25 625 625 HOH HOH . E 4 HOH A 26 626 626 HOH HOH . E 4 HOH A 27 627 627 HOH HOH . E 4 HOH A 28 628 628 HOH HOH . E 4 HOH A 29 629 629 HOH HOH . E 4 HOH A 30 630 630 HOH HOH . E 4 HOH A 31 631 631 HOH HOH . E 4 HOH A 32 632 632 HOH HOH . E 4 HOH A 33 633 633 HOH HOH . E 4 HOH A 34 634 634 HOH HOH . E 4 HOH A 35 635 635 HOH HOH . E 4 HOH A 36 636 636 HOH HOH . E 4 HOH A 37 637 637 HOH HOH . E 4 HOH A 38 638 638 HOH HOH . E 4 HOH A 39 639 639 HOH HOH . E 4 HOH A 40 640 640 HOH HOH . E 4 HOH A 41 641 641 HOH HOH . E 4 HOH A 42 642 642 HOH HOH . E 4 HOH A 43 643 643 HOH HOH . E 4 HOH A 44 644 644 HOH HOH . E 4 HOH A 45 645 645 HOH HOH . E 4 HOH A 46 646 646 HOH HOH . E 4 HOH A 47 647 647 HOH HOH . E 4 HOH A 48 648 648 HOH HOH . E 4 HOH A 49 649 649 HOH HOH . E 4 HOH A 50 650 651 HOH HOH . E 4 HOH A 51 651 652 HOH HOH . E 4 HOH A 52 652 653 HOH HOH . E 4 HOH A 53 653 654 HOH HOH . E 4 HOH A 54 654 650 HOH HOH . E 4 HOH A 55 655 655 HOH HOH . E 4 HOH A 56 656 656 HOH HOH . E 4 HOH A 57 657 657 HOH HOH . E 4 HOH A 58 658 658 HOH HOH . E 4 HOH A 59 659 659 HOH HOH . E 4 HOH A 60 660 660 HOH HOH . E 4 HOH A 61 661 661 HOH HOH . E 4 HOH A 62 662 662 HOH HOH . E 4 HOH A 63 663 663 HOH HOH . F 4 HOH B 1 501 501 HOH HOH . F 4 HOH B 2 502 502 HOH HOH . F 4 HOH B 3 503 503 HOH HOH . F 4 HOH B 4 504 504 HOH HOH . F 4 HOH B 5 505 505 HOH HOH . F 4 HOH B 6 506 506 HOH HOH . F 4 HOH B 7 507 507 HOH HOH . F 4 HOH B 8 508 508 HOH HOH . F 4 HOH B 9 509 509 HOH HOH . F 4 HOH B 10 510 510 HOH HOH . F 4 HOH B 11 511 511 HOH HOH . F 4 HOH B 12 512 512 HOH HOH . F 4 HOH B 13 513 513 HOH HOH . F 4 HOH B 14 514 514 HOH HOH . F 4 HOH B 15 515 515 HOH HOH . F 4 HOH B 16 516 516 HOH HOH . F 4 HOH B 17 517 517 HOH HOH . F 4 HOH B 18 518 518 HOH HOH . F 4 HOH B 19 519 519 HOH HOH . F 4 HOH B 20 520 520 HOH HOH . F 4 HOH B 21 521 521 HOH HOH . F 4 HOH B 22 522 522 HOH HOH . F 4 HOH B 23 523 523 HOH HOH . F 4 HOH B 24 524 524 HOH HOH . F 4 HOH B 25 525 525 HOH HOH . F 4 HOH B 26 526 526 HOH HOH . F 4 HOH B 27 527 527 HOH HOH . F 4 HOH B 28 528 528 HOH HOH . F 4 HOH B 29 529 529 HOH HOH . F 4 HOH B 30 530 530 HOH HOH . F 4 HOH B 31 531 531 HOH HOH . F 4 HOH B 32 532 532 HOH HOH . F 4 HOH B 33 533 533 HOH HOH . F 4 HOH B 34 534 534 HOH HOH . F 4 HOH B 35 535 535 HOH HOH . F 4 HOH B 36 536 536 HOH HOH . F 4 HOH B 37 537 537 HOH HOH . F 4 HOH B 38 538 538 HOH HOH . F 4 HOH B 39 539 539 HOH HOH . F 4 HOH B 40 540 540 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 C C1 KNA . . . D 3 11.415 73.908 11.339 1 59.92 ? C1 KNA 502 A 1 HETATM 2 O O1 KNA . . . D 3 12.23 73.98 12.304 1 54.93 ? O1 KNA 502 A 1 HETATM 3 C C2 KNA . . . D 3 11.403 72.711 10.374 1 54.72 ? C2 KNA 502 A 1 HETATM 4 O O2 KNA . . . D 3 10.589 74.845 11.156 1 68.03 ? O2 KNA 502 A 1 HETATM 5 C C3 KNA . . . D 3 12.503 71.695 10.705 1 44.61 ? C3 KNA 502 A 1 HETATM 6 C C4 KNA . . . D 3 13.618 71.732 9.669 1 42.41 ? C4 KNA 502 A 1 HETATM 7 C C5 KNA . . . D 3 14.938 71.875 10.414 1 41.4 ? C5 KNA 502 A 1 HETATM 8 C C6 KNA . . . D 3 15.054 73.306 10.952 1 42.41 ? C6 KNA 502 A 1 HETATM 9 C C7 KNA . . . D 3 15.662 74.218 9.879 1 42.86 ? C7 KNA 502 A 1 HETATM 10 C C8 KNA . . . D 3 17.17 73.955 9.798 1 44.34 ? C8 KNA 502 A 1 HETATM 11 C C9 KNA . . . D 3 17.544 73.419 8.42 1 35.09 ? C9 KNA 502 A 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 341 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 11 #