data_5D78
#
_model_server_result.job_id            Vwk2SJrU0h2nQTUGP8Gc4Q 
_model_server_result.datetime_utc      '2025-06-17 12:58:24' 
_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          5d78 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":503}' 
#
_entry.id    5D78 
#
_exptl.entry_id    5D78 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              96.063 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'SULFATE 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          109.79 
_cell.angle_gamma         90 
_cell.entry_id            5D78 
_cell.length_a            25.842 
_cell.length_b            47.023 
_cell.length_c            30.563 
_cell.Z_PDB               2 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5D78 
_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,E 
_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                             D 
_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
covale ? covale1 A C LYS 64 A LYS 370 1_555 A N OCY 65 A OCY 371 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? 
covale ? covale2 A C OCY 65 A OCY 371 1_555 A N LEU 66 A LEU 372 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? 
#
_chem_comp.formula           'O4 S -2' 
_chem_comp.formula_weight    96.063 
_chem_comp.id                SO4 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'SULFATE ION' 
_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
S O1 SO4 doub 280 n n 
S O2 SO4 doub 281 n n 
S O3 SO4 sing 282 n n 
S O4 SO4 sing 283 n n 
#
_atom_sites.entry_id                     5D78 
_atom_sites.fract_transf_matrix[1][1]    0.038697 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.013923 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.021266 
_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]    0.034773 
_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 BME A 1 501 1 BME BME . 
C 2 BME A 1 502 2 BME BME . 
D 3 SO4 A 1 503 1 SO4 SO4 . 
E 4 HOH A 1 1001 119 HOH HOH . 
E 4 HOH A 2 1002 4 HOH HOH . 
E 4 HOH A 3 1003 115 HOH HOH . 
E 4 HOH A 4 1004 53 HOH HOH . 
E 4 HOH A 5 1005 61 HOH HOH . 
E 4 HOH A 6 1006 45 HOH HOH . 
E 4 HOH A 7 1007 57 HOH HOH . 
E 4 HOH A 8 1008 96 HOH HOH . 
E 4 HOH A 9 1009 32 HOH HOH . 
E 4 HOH A 10 1010 6 HOH HOH . 
E 4 HOH A 11 1011 21 HOH HOH . 
E 4 HOH A 12 1012 75 HOH HOH . 
E 4 HOH A 13 1013 20 HOH HOH . 
E 4 HOH A 14 1014 81 HOH HOH . 
E 4 HOH A 15 1015 19 HOH HOH . 
E 4 HOH A 16 1016 36 HOH HOH . 
E 4 HOH A 17 1017 40 HOH HOH . 
E 4 HOH A 18 1018 2 HOH HOH . 
E 4 HOH A 19 1019 37 HOH HOH . 
E 4 HOH A 20 1020 78 HOH HOH . 
E 4 HOH A 21 1021 59 HOH HOH . 
E 4 HOH A 22 1022 13 HOH HOH . 
E 4 HOH A 23 1023 58 HOH HOH . 
E 4 HOH A 24 1024 26 HOH HOH . 
E 4 HOH A 25 1025 90 HOH HOH . 
E 4 HOH A 26 1026 1 HOH HOH . 
E 4 HOH A 27 1027 49 HOH HOH . 
E 4 HOH A 28 1028 7 HOH HOH . 
E 4 HOH A 29 1029 5 HOH HOH . 
E 4 HOH A 30 1030 27 HOH HOH . 
E 4 HOH A 31 1031 8 HOH HOH . 
E 4 HOH A 32 1032 22 HOH HOH . 
E 4 HOH A 33 1033 120 HOH HOH . 
E 4 HOH A 34 1034 34 HOH HOH . 
E 4 HOH A 35 1035 33 HOH HOH . 
E 4 HOH A 36 1036 41 HOH HOH . 
E 4 HOH A 37 1037 29 HOH HOH . 
E 4 HOH A 38 1038 25 HOH HOH . 
E 4 HOH A 39 1039 68 HOH HOH . 
E 4 HOH A 40 1040 70 HOH HOH . 
E 4 HOH A 41 1041 43 HOH HOH . 
E 4 HOH A 42 1042 46 HOH HOH . 
E 4 HOH A 43 1043 39 HOH HOH . 
E 4 HOH A 44 1044 124 HOH HOH . 
E 4 HOH A 45 1045 123 HOH HOH . 
E 4 HOH A 46 1046 9 HOH HOH . 
E 4 HOH A 47 1047 129 HOH HOH . 
E 4 HOH A 48 1048 16 HOH HOH . 
E 4 HOH A 49 1049 17 HOH HOH . 
E 4 HOH A 50 1050 125 HOH HOH . 
E 4 HOH A 51 1051 76 HOH HOH . 
E 4 HOH A 52 1052 104 HOH HOH . 
E 4 HOH A 53 1053 50 HOH HOH . 
E 4 HOH A 54 1054 30 HOH HOH . 
E 4 HOH A 55 1055 84 HOH HOH . 
E 4 HOH A 56 1056 3 HOH HOH . 
E 4 HOH A 57 1057 63 HOH HOH . 
E 4 HOH A 58 1058 24 HOH HOH . 
E 4 HOH A 59 1059 31 HOH HOH . 
E 4 HOH A 60 1060 42 HOH HOH . 
E 4 HOH A 61 1061 28 HOH HOH . 
E 4 HOH A 62 1062 18 HOH HOH . 
E 4 HOH A 63 1063 12 HOH HOH . 
E 4 HOH A 64 1064 44 HOH HOH . 
E 4 HOH A 65 1065 100 HOH HOH . 
E 4 HOH A 66 1066 23 HOH HOH . 
E 4 HOH A 67 1067 72 HOH HOH . 
E 4 HOH A 68 1068 128 HOH HOH . 
E 4 HOH A 69 1069 71 HOH HOH . 
E 4 HOH A 70 1070 15 HOH HOH . 
E 4 HOH A 71 1071 67 HOH HOH . 
E 4 HOH A 72 1072 86 HOH HOH . 
E 4 HOH A 73 1073 91 HOH HOH . 
E 4 HOH A 74 1074 69 HOH HOH . 
E 4 HOH A 75 1075 62 HOH HOH . 
E 4 HOH A 76 1076 11 HOH HOH . 
E 4 HOH A 77 1077 38 HOH HOH . 
E 4 HOH A 78 1078 85 HOH HOH . 
E 4 HOH A 79 1079 82 HOH HOH . 
E 4 HOH A 80 1080 10 HOH HOH . 
E 4 HOH A 81 1081 47 HOH HOH . 
E 4 HOH A 82 1082 83 HOH HOH . 
E 4 HOH A 83 1083 101 HOH HOH . 
E 4 HOH A 84 1084 74 HOH HOH . 
E 4 HOH A 85 1085 107 HOH HOH . 
E 4 HOH A 86 1086 118 HOH HOH . 
E 4 HOH A 87 1087 35 HOH HOH . 
E 4 HOH A 88 1088 60 HOH HOH . 
E 4 HOH A 89 1089 51 HOH HOH . 
E 4 HOH A 90 1090 73 HOH HOH . 
E 4 HOH A 91 1091 66 HOH HOH . 
E 4 HOH A 92 1092 88 HOH HOH . 
E 4 HOH A 93 1093 65 HOH HOH . 
E 4 HOH A 94 1094 127 HOH HOH . 
E 4 HOH A 95 1095 80 HOH HOH . 
E 4 HOH A 96 1096 121 HOH HOH . 
E 4 HOH A 97 1097 64 HOH HOH . 
E 4 HOH A 98 1098 97 HOH HOH . 
E 4 HOH A 99 1099 54 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 S S SO4 . . . D 3 0.372 15.262 14.201 1 66.06 ? S SO4 503 A 1 
HETATM 2 O O1 SO4 . . . D 3 0.734 13.911 13.78 1 66.44 ? O1 SO4 503 A 1 
HETATM 3 O O2 SO4 . . . D 3 -0.211 15.989 13.078 1 66.07 ? O2 SO4 503 A 1 
HETATM 4 O O3 SO4 . . . D 3 -0.607 15.181 15.279 1 66.22 ? O3 SO4 503 A 1 
HETATM 5 O O4 SO4 . . . D 3 1.571 15.957 14.659 1 66.19 ? O4 SO4 503 A 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           18 
_model_server_stats.create_model_time_ms    22 
_model_server_stats.query_time_ms           321 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           5 
#