data_1ZMJ
#
_model_server_result.job_id            kQB1ifS6jZ9tt8QTH6A6sg 
_model_server_result.datetime_utc      '2024-12-17 02:36:28' 
_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          1zmj 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":1001}' 
#
_entry.id    1ZMJ 
#
_exptl.entry_id    1ZMJ 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              249.074 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (R)-1-(4-(4-(HYDROXYMETHYL)-1,3,2-DIOXABOROLAN-2-YL)BENZYL)GUANIDINE 
_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            1ZMJ 
_cell.length_a            120.775 
_cell.length_b            120.775 
_cell.length_c            120.775 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1ZMJ 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        197 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'I 2 3' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F 
_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
disulf ? disulf1 A SG CYS 29 A CYS 40 1_555 A SG CYS 45 A CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? 
disulf ? disulf2 A SG CYS 127 A CYS 136 1_555 A SG CYS 194 A CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? 
disulf ? disulf3 A SG CYS 158 A CYS 168 1_555 A SG CYS 173 A CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
disulf ? disulf4 A SG CYS 184 A CYS 191 1_555 A SG CYS 212 A CYS 219 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
covale ? covale1 A OG SER 188 A SER 195 1_555 D C04 HDB . A HDB 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
covale ? covale2 A OG SER 188 A SER 195 1_555 D B HDB . A HDB 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.414 ? 
#
_chem_comp.formula           'C11 H16 B N3 O3' 
_chem_comp.formula_weight    249.074 
_chem_comp.id                HDB 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (R)-1-(4-(4-(HYDROXYMETHYL)-1,3,2-DIOXABOROLAN-2-YL)BENZYL)GUANIDINE 
_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
C01 C02 HDB sing 129 n y 
C01 C06 HDB doub 130 n y 
C01 C07 HDB sing 131 n n 
C02 C03 HDB doub 132 n y 
C02 H02 HDB sing 133 n n 
C03 C04 HDB sing 134 n y 
C03 H03 HDB sing 135 n n 
C04 C05 HDB doub 136 n y 
C04 B HDB sing 137 n n 
C05 C06 HDB sing 138 n y 
C05 H05 HDB sing 139 n n 
C06 H06 HDB sing 140 n n 
C07 N09 HDB sing 141 n n 
C07 H071 HDB sing 142 n n 
C07 H072 HDB sing 143 n n 
B O13 HDB sing 144 n n 
B O14 HDB sing 145 n n 
N09 C10 HDB sing 146 n n 
N09 H09 HDB sing 147 n n 
C10 N11 HDB sing 148 n n 
C10 N12 HDB doub 149 n n 
N11 H111 HDB sing 150 n n 
N11 H112 HDB sing 151 n n 
N12 H12 HDB sing 152 n n 
O13 C15 HDB sing 153 n n 
O14 C16 HDB sing 154 n n 
C15 C16 HDB sing 155 n n 
C15 C17 HDB sing 156 n n 
C15 H15 HDB sing 157 n n 
C16 H161 HDB sing 158 n n 
C16 H162 HDB sing 159 n n 
C17 O18 HDB sing 160 n n 
C17 H171 HDB sing 161 n n 
C17 H172 HDB sing 162 n n 
O18 H18 HDB sing 163 n n 
#
_atom_sites.entry_id                     1ZMJ 
_atom_sites.fract_transf_matrix[1][1]    0.00828 
_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]    0.00828 
_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]    0.00828 
_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 SO4 A 1 1002 2 SO4 SO4 . 
C 2 SO4 A 1 1003 3 SO4 SO4 . 
D 3 HDB A 1 1001 1 HDB 334 . 
E 4 TRS A 1 1004 4 TRS TRS . 
F 5 HOH A 1 1005 1 HOH HOH . 
F 5 HOH A 2 1006 2 HOH HOH . 
F 5 HOH A 3 1007 3 HOH HOH . 
F 5 HOH A 4 1008 4 HOH HOH . 
F 5 HOH A 5 1009 5 HOH HOH . 
F 5 HOH A 6 1010 6 HOH HOH . 
F 5 HOH A 7 1011 7 HOH HOH . 
F 5 HOH A 8 1012 8 HOH HOH . 
F 5 HOH A 9 1013 9 HOH HOH . 
F 5 HOH A 10 1014 10 HOH HOH . 
F 5 HOH A 11 1015 11 HOH HOH . 
F 5 HOH A 12 1016 12 HOH HOH . 
F 5 HOH A 13 1017 13 HOH HOH . 
F 5 HOH A 14 1018 14 HOH HOH . 
F 5 HOH A 15 1019 15 HOH HOH . 
F 5 HOH A 16 1020 16 HOH HOH . 
F 5 HOH A 17 1021 17 HOH HOH . 
F 5 HOH A 18 1022 18 HOH HOH . 
F 5 HOH A 19 1023 19 HOH HOH . 
F 5 HOH A 20 1024 20 HOH HOH . 
F 5 HOH A 21 1025 21 HOH HOH . 
F 5 HOH A 22 1026 22 HOH HOH . 
F 5 HOH A 23 1027 23 HOH HOH . 
F 5 HOH A 24 1028 24 HOH HOH . 
F 5 HOH A 25 1029 25 HOH HOH . 
F 5 HOH A 26 1030 26 HOH HOH . 
F 5 HOH A 27 1031 27 HOH HOH . 
F 5 HOH A 28 1032 28 HOH HOH . 
F 5 HOH A 29 1033 29 HOH HOH . 
F 5 HOH A 30 1034 30 HOH HOH . 
F 5 HOH A 31 1035 31 HOH HOH . 
F 5 HOH A 32 1036 32 HOH HOH . 
F 5 HOH A 33 1037 33 HOH HOH . 
F 5 HOH A 34 1038 34 HOH HOH . 
F 5 HOH A 35 1039 35 HOH HOH . 
F 5 HOH A 36 1040 36 HOH HOH . 
F 5 HOH A 37 1041 37 HOH HOH . 
F 5 HOH A 38 1042 38 HOH HOH . 
F 5 HOH A 39 1043 39 HOH HOH . 
F 5 HOH A 40 1044 40 HOH HOH . 
F 5 HOH A 41 1045 41 HOH HOH . 
F 5 HOH A 42 1046 42 HOH HOH . 
F 5 HOH A 43 1047 43 HOH HOH . 
F 5 HOH A 44 1048 44 HOH HOH . 
F 5 HOH A 45 1049 45 HOH HOH . 
F 5 HOH A 46 1050 46 HOH HOH . 
F 5 HOH A 47 1051 47 HOH HOH . 
F 5 HOH A 48 1052 48 HOH HOH . 
F 5 HOH A 49 1053 49 HOH HOH . 
F 5 HOH A 50 1054 50 HOH HOH . 
F 5 HOH A 51 1055 51 HOH HOH . 
F 5 HOH A 52 1056 52 HOH HOH . 
F 5 HOH A 53 1057 53 HOH HOH . 
F 5 HOH A 54 1058 54 HOH HOH . 
F 5 HOH A 55 1059 55 HOH HOH . 
F 5 HOH A 56 1060 56 HOH HOH . 
F 5 HOH A 57 1061 57 HOH HOH . 
F 5 HOH A 58 1062 58 HOH HOH . 
F 5 HOH A 59 1063 59 HOH HOH . 
F 5 HOH A 60 1064 60 HOH HOH . 
F 5 HOH A 61 1065 61 HOH HOH . 
F 5 HOH A 62 1066 62 HOH HOH . 
F 5 HOH A 63 1067 63 HOH HOH . 
F 5 HOH A 64 1068 64 HOH HOH . 
F 5 HOH A 65 1069 65 HOH HOH . 
F 5 HOH A 66 1070 66 HOH HOH . 
F 5 HOH A 67 1071 67 HOH HOH . 
F 5 HOH A 68 1072 68 HOH HOH . 
F 5 HOH A 69 1073 69 HOH HOH . 
F 5 HOH A 70 1074 70 HOH HOH . 
F 5 HOH A 71 1075 71 HOH HOH . 
F 5 HOH A 72 1076 72 HOH HOH . 
F 5 HOH A 73 1077 73 HOH HOH . 
F 5 HOH A 74 1078 74 HOH HOH . 
F 5 HOH A 75 1079 75 HOH HOH . 
F 5 HOH A 76 1080 76 HOH HOH . 
F 5 HOH A 77 1081 77 HOH HOH . 
F 5 HOH A 78 1082 78 HOH HOH . 
F 5 HOH A 79 1083 79 HOH HOH . 
F 5 HOH A 80 1084 80 HOH HOH . 
F 5 HOH A 81 1085 81 HOH HOH . 
F 5 HOH A 82 1086 82 HOH HOH . 
F 5 HOH A 83 1087 83 HOH HOH . 
F 5 HOH A 84 1088 84 HOH HOH . 
F 5 HOH A 85 1089 85 HOH HOH . 
F 5 HOH A 86 1090 86 HOH HOH . 
F 5 HOH A 87 1091 87 HOH HOH . 
F 5 HOH A 88 1092 88 HOH HOH . 
F 5 HOH A 89 1093 89 HOH HOH . 
F 5 HOH A 90 1094 90 HOH HOH . 
F 5 HOH A 91 1095 91 HOH HOH . 
F 5 HOH A 92 1096 92 HOH HOH . 
F 5 HOH A 93 1097 93 HOH HOH . 
F 5 HOH A 94 1098 94 HOH HOH . 
F 5 HOH A 95 1099 95 HOH HOH . 
F 5 HOH A 96 1100 96 HOH HOH . 
F 5 HOH A 97 1101 97 HOH HOH . 
F 5 HOH A 98 1102 98 HOH HOH . 
F 5 HOH A 99 1103 99 HOH HOH . 
F 5 HOH A 100 1104 100 HOH HOH . 
F 5 HOH A 101 1105 101 HOH HOH . 
F 5 HOH A 102 1106 102 HOH HOH . 
F 5 HOH A 103 1107 103 HOH HOH . 
F 5 HOH A 104 1108 104 HOH HOH . 
F 5 HOH A 105 1109 105 HOH HOH . 
F 5 HOH A 106 1110 106 HOH HOH . 
F 5 HOH A 107 1111 107 HOH HOH . 
F 5 HOH A 108 1112 108 HOH HOH . 
F 5 HOH A 109 1113 109 HOH HOH . 
F 5 HOH A 110 1114 110 HOH HOH . 
F 5 HOH A 111 1115 111 HOH HOH . 
F 5 HOH A 112 1116 112 HOH HOH . 
F 5 HOH A 113 1117 113 HOH HOH . 
F 5 HOH A 114 1118 114 HOH HOH . 
F 5 HOH A 115 1119 115 HOH HOH . 
F 5 HOH A 116 1120 116 HOH HOH . 
F 5 HOH A 117 1121 117 HOH HOH . 
F 5 HOH A 118 1122 118 HOH HOH . 
F 5 HOH A 119 1123 119 HOH HOH . 
F 5 HOH A 120 1124 120 HOH HOH . 
F 5 HOH A 121 1125 121 HOH HOH . 
F 5 HOH A 122 1126 122 HOH HOH . 
F 5 HOH A 123 1127 123 HOH HOH . 
F 5 HOH A 124 1128 124 HOH HOH . 
F 5 HOH A 125 1129 125 HOH HOH . 
F 5 HOH A 126 1130 126 HOH HOH . 
F 5 HOH A 127 1131 127 HOH HOH . 
F 5 HOH A 128 1132 128 HOH HOH . 
F 5 HOH A 129 1133 129 HOH HOH . 
F 5 HOH A 130 1134 130 HOH HOH . 
F 5 HOH A 131 1135 131 HOH HOH . 
F 5 HOH A 132 1136 132 HOH HOH . 
F 5 HOH A 133 1137 133 HOH HOH . 
F 5 HOH A 134 1138 134 HOH HOH . 
F 5 HOH A 135 1139 135 HOH HOH . 
F 5 HOH A 136 1140 136 HOH HOH . 
F 5 HOH A 137 1141 137 HOH HOH . 
F 5 HOH A 138 1142 138 HOH HOH . 
F 5 HOH A 139 1143 139 HOH HOH . 
F 5 HOH A 140 1144 140 HOH HOH . 
F 5 HOH A 141 1145 141 HOH HOH . 
F 5 HOH A 142 1146 142 HOH HOH . 
F 5 HOH A 143 1147 143 HOH HOH . 
F 5 HOH A 144 1148 144 HOH HOH . 
F 5 HOH A 145 1149 145 HOH HOH . 
F 5 HOH A 146 1150 146 HOH HOH . 
F 5 HOH A 147 1151 147 HOH HOH . 
F 5 HOH A 148 1152 148 HOH HOH . 
F 5 HOH A 149 1153 149 HOH HOH . 
F 5 HOH A 150 1154 150 HOH HOH . 
F 5 HOH A 151 1155 151 HOH HOH . 
F 5 HOH A 152 1156 152 HOH HOH . 
F 5 HOH A 153 1157 153 HOH HOH . 
F 5 HOH A 154 1158 154 HOH HOH . 
F 5 HOH A 155 1159 155 HOH HOH . 
F 5 HOH A 156 1160 156 HOH HOH . 
F 5 HOH A 157 1161 157 HOH HOH . 
F 5 HOH A 158 1162 158 HOH HOH . 
F 5 HOH A 159 1163 159 HOH HOH . 
F 5 HOH A 160 1164 160 HOH HOH . 
F 5 HOH A 161 1165 161 HOH HOH . 
F 5 HOH A 162 1166 162 HOH HOH . 
F 5 HOH A 163 1167 163 HOH HOH . 
F 5 HOH A 164 1168 164 HOH HOH . 
F 5 HOH A 165 1169 165 HOH HOH . 
F 5 HOH A 166 1170 166 HOH HOH . 
F 5 HOH A 167 1171 167 HOH HOH . 
F 5 HOH A 168 1172 168 HOH HOH . 
F 5 HOH A 169 1173 169 HOH HOH . 
F 5 HOH A 170 1174 170 HOH HOH . 
F 5 HOH A 171 1175 171 HOH HOH . 
F 5 HOH A 172 1176 172 HOH HOH . 
F 5 HOH A 173 1177 173 HOH HOH . 
F 5 HOH A 174 1178 174 HOH HOH . 
F 5 HOH A 175 1179 175 HOH HOH . 
F 5 HOH A 176 1180 176 HOH HOH . 
F 5 HOH A 177 1181 177 HOH HOH . 
F 5 HOH A 178 1182 178 HOH HOH . 
F 5 HOH A 179 1183 179 HOH HOH . 
F 5 HOH A 180 1184 180 HOH HOH . 
F 5 HOH A 181 1185 181 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 HDB . . . D 3 9.701 71.977 81.75 1 35.35 ? C01 HDB 1001 A 1 
HETATM 2 C C02 HDB . . . D 3 8.619 72.909 82.349 1 35.82 ? C02 HDB 1001 A 1 
HETATM 3 C C03 HDB . . . D 3 8.399 72.886 83.753 1 34.74 ? C03 HDB 1001 A 1 
HETATM 4 C C04 HDB . . . D 3 9.158 72.019 84.603 1 30.95 ? C04 HDB 1001 A 1 
HETATM 5 C C05 HDB . . . D 3 10.151 71.165 84.025 1 34.01 ? C05 HDB 1001 A 1 
HETATM 6 C C06 HDB . . . D 3 10.411 71.148 82.641 1 34.82 ? C06 HDB 1001 A 1 
HETATM 7 C C07 HDB . . . D 3 10.002 71.954 80.269 1 35.92 ? C07 HDB 1001 A 1 
HETATM 8 B B HDB . . . D 3 8.956 71.985 86.102 1 28.29 ? B HDB 1001 A 1 
HETATM 9 N N09 HDB . . . D 3 11.447 72.121 80.117 1 35.98 ? N09 HDB 1001 A 1 
HETATM 10 C C10 HDB . . . D 3 12.131 71.852 78.9 1 33.92 ? C10 HDB 1001 A 1 
HETATM 11 N N11 HDB . . . D 3 13.407 72.003 78.814 1 33.36 ? N11 HDB 1001 A 1 
HETATM 12 N N12 HDB . . . D 3 11.43 71.411 77.77 1 33.04 ? N12 HDB 1001 A 1 
HETATM 13 O O13 HDB . . . D 3 7.905 72.812 86.613 1 27.25 ? O13 HDB 1001 A 1 
HETATM 14 O O14 HDB . . . D 3 8.72 70.648 86.57 1 26.84 ? O14 HDB 1001 A 1 
HETATM 15 C C15 HDB . . . D 3 7.059 71.975 87.366 1 29.94 ? C15 HDB 1001 A 1 
HETATM 16 C C16 HDB . . . D 3 7.936 70.789 87.737 1 29.39 ? C16 HDB 1001 A 1 
HETATM 17 C C17 HDB . . . D 3 6.499 72.698 88.615 1 30.72 ? C17 HDB 1001 A 1 
HETATM 18 O O18 HDB . . . D 3 6.358 74.082 88.395 1 33.16 ? O18 HDB 1001 A 1 
#
_model_server_stats.io_time_ms              79 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           486 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           18 
#