data_9DY5
#
_model_server_result.job_id            4kbPE8Hd9JdgB37n05DOtw 
_model_server_result.datetime_utc      '2025-08-24 04:42:11' 
_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          9dy5 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":502}' 
#
_entry.id    9DY5 
#
_exptl.entry_id    9DY5 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              168.213 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '4-methylsulfanylbenzoic 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          93.47 
_cell.angle_gamma         90 
_cell.entry_id            9DY5 
_cell.length_a            44.153 
_cell.length_b            51.237 
_cell.length_c            78.412 
_cell.Z_PDB               2 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 9DY5 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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 
_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                      3 
_struct_asym.id                             C 
_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 359 A CYS 358 1_555 B FE HEM . A HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.208 ? 
metalc ? metalc2 B FE HEM . A HEM 501 1_555 D O HOH . A HOH 640 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.677 ? 
#
_chem_comp.formula           'C8 H8 O2 S' 
_chem_comp.formula_weight    168.213 
_chem_comp.id                4MI 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '4-methylsulfanylbenzoic 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
O11 C09 4MI doub 1 n n 
C09 O10 4MI sing 2 n n 
C09 C06 4MI sing 3 n n 
C05 C04 4MI doub 4 n y 
C05 C06 4MI sing 5 n y 
C04 C03 4MI sing 6 n y 
C06 C07 4MI doub 7 n y 
C03 C08 4MI doub 8 n y 
C03 S02 4MI sing 9 n n 
C07 C08 4MI sing 10 n y 
C01 S02 4MI sing 11 n n 
C01 H1 4MI sing 12 n n 
C01 H2 4MI sing 13 n n 
C01 H3 4MI sing 14 n n 
C04 H4 4MI sing 15 n n 
C05 H5 4MI sing 16 n n 
C07 H6 4MI sing 17 n n 
C08 H7 4MI sing 18 n n 
O10 H8 4MI sing 19 n n 
#
_atom_sites.entry_id                     9DY5 
_atom_sites.fract_transf_matrix[1][1]    0.022649 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001373 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.019517 
_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]    0.012777 
_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 HEM A 1 501 501 HEM HEM . 
C 3 4MI A 1 502 1 4MI 4MI . 
D 4 HOH A 1 601 35 HOH HOH . 
D 4 HOH A 2 602 11 HOH HOH . 
D 4 HOH A 3 603 32 HOH HOH . 
D 4 HOH A 4 604 45 HOH HOH . 
D 4 HOH A 5 605 56 HOH HOH . 
D 4 HOH A 6 606 43 HOH HOH . 
D 4 HOH A 7 607 71 HOH HOH . 
D 4 HOH A 8 608 42 HOH HOH . 
D 4 HOH A 9 609 14 HOH HOH . 
D 4 HOH A 10 610 20 HOH HOH . 
D 4 HOH A 11 611 48 HOH HOH . 
D 4 HOH A 12 612 1 HOH HOH . 
D 4 HOH A 13 613 7 HOH HOH . 
D 4 HOH A 14 614 3 HOH HOH . 
D 4 HOH A 15 615 37 HOH HOH . 
D 4 HOH A 16 616 5 HOH HOH . 
D 4 HOH A 17 617 24 HOH HOH . 
D 4 HOH A 18 618 34 HOH HOH . 
D 4 HOH A 19 619 61 HOH HOH . 
D 4 HOH A 20 620 27 HOH HOH . 
D 4 HOH A 21 621 9 HOH HOH . 
D 4 HOH A 22 622 54 HOH HOH . 
D 4 HOH A 23 623 66 HOH HOH . 
D 4 HOH A 24 624 30 HOH HOH . 
D 4 HOH A 25 625 40 HOH HOH . 
D 4 HOH A 26 626 12 HOH HOH . 
D 4 HOH A 27 627 2 HOH HOH . 
D 4 HOH A 28 628 16 HOH HOH . 
D 4 HOH A 29 629 15 HOH HOH . 
D 4 HOH A 30 630 33 HOH HOH . 
D 4 HOH A 31 631 26 HOH HOH . 
D 4 HOH A 32 632 36 HOH HOH . 
D 4 HOH A 33 633 18 HOH HOH . 
D 4 HOH A 34 634 31 HOH HOH . 
D 4 HOH A 35 635 4 HOH HOH . 
D 4 HOH A 36 636 22 HOH HOH . 
D 4 HOH A 37 637 23 HOH HOH . 
D 4 HOH A 38 638 41 HOH HOH . 
D 4 HOH A 39 639 69 HOH HOH . 
D 4 HOH A 40 640 38 HOH HOH . 
D 4 HOH A 41 641 63 HOH HOH . 
D 4 HOH A 42 642 10 HOH HOH . 
D 4 HOH A 43 643 58 HOH HOH . 
D 4 HOH A 44 644 29 HOH HOH . 
D 4 HOH A 45 645 57 HOH HOH . 
D 4 HOH A 46 646 39 HOH HOH . 
D 4 HOH A 47 647 21 HOH HOH . 
D 4 HOH A 48 648 62 HOH HOH . 
D 4 HOH A 49 649 47 HOH HOH . 
D 4 HOH A 50 650 67 HOH HOH . 
D 4 HOH A 51 651 44 HOH HOH . 
D 4 HOH A 52 652 49 HOH HOH . 
D 4 HOH A 53 653 19 HOH HOH . 
D 4 HOH A 54 654 64 HOH HOH . 
D 4 HOH A 55 655 13 HOH HOH . 
D 4 HOH A 56 656 46 HOH HOH . 
D 4 HOH A 57 657 53 HOH HOH . 
D 4 HOH A 58 658 59 HOH HOH . 
D 4 HOH A 59 659 55 HOH HOH . 
D 4 HOH A 60 660 65 HOH HOH . 
D 4 HOH A 61 661 72 HOH HOH . 
D 4 HOH A 62 662 73 HOH HOH . 
D 4 HOH A 63 663 68 HOH HOH . 
D 4 HOH A 64 664 52 HOH HOH . 
D 4 HOH A 65 665 60 HOH HOH . 
D 4 HOH A 66 666 50 HOH HOH . 
D 4 HOH A 67 667 51 HOH HOH . 
D 4 HOH A 68 668 70 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 C01 4MI . . . C 3 5.172 -0.676 20.632 1 38.83 ? C01 4MI 502 A 1 
HETATM 2 S S02 4MI . . . C 3 3.954 -0.521 19.295 1 49.46 ? S02 4MI 502 A 1 
HETATM 3 C C03 4MI . . . C 3 4.068 1.145 18.582 1 40.82 ? C03 4MI 502 A 1 
HETATM 4 C C04 4MI . . . C 3 3.237 1.517 17.538 1 37.39 ? C04 4MI 502 A 1 
HETATM 5 C C05 4MI . . . C 3 3.331 2.788 17.001 1 40.87 ? C05 4MI 502 A 1 
HETATM 6 C C06 4MI . . . C 3 4.257 3.686 17.507 1 45.52 ? C06 4MI 502 A 1 
HETATM 7 C C07 4MI . . . C 3 5.088 3.314 18.55 1 45.07 ? C07 4MI 502 A 1 
HETATM 8 C C08 4MI . . . C 3 4.994 2.042 19.087 1 40.44 ? C08 4MI 502 A 1 
HETATM 9 C C09 4MI . . . C 3 4.361 5.089 16.917 1 36.05 ? C09 4MI 502 A 1 
HETATM 10 O O10 4MI . . . C 3 3.37 5.598 16.332 1 37.21 ? O10 4MI 502 A 1 
HETATM 11 O O11 4MI . . . C 3 5.437 5.736 17.019 1 39.35 -1 O11 4MI 502 A 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           323 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           11 
#