data_1IDT
#
_model_server_result.job_id            Im62FkZ8h2mFLhCXuk4h5Q 
_model_server_result.datetime_utc      '2024-11-21 23:38:02' 
_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          1idt 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":1219}' 
#
_entry.id    1IDT 
#
_exptl.entry_id    1IDT 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              252.184 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            5-(AZIRIDIN-1-YL)-2,4-DINITROBENZAMIDE 
_entity.pdbx_number_of_molecules    2 
_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            1IDT 
_cell.length_a            57.556 
_cell.length_b            57.556 
_cell.length_c            266.129 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1IDT 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        92 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 41 21 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,H 
_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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 3 D N N 
? 3 E N N 
#
_chem_comp.formula           'C9 H8 N4 O5' 
_chem_comp.formula_weight    252.184 
_chem_comp.id                CB1 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              5-(AZIRIDIN-1-YL)-2,4-DINITROBENZAMIDE 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     CB1954;Tretazicar 
#
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
C C1 CB1 doub 70 n y 
C C8 CB1 sing 71 n y 
C H1 CB1 sing 72 n n 
C1 C2 CB1 sing 73 n y 
C1 N CB1 sing 74 n n 
C2 C4 CB1 doub 75 n y 
C2 C3 CB1 sing 76 n n 
C4 C5 CB1 sing 77 n y 
C4 H41 CB1 sing 78 n n 
C5 C8 CB1 doub 79 n y 
C5 N6 CB1 sing 80 n n 
C8 N3 CB1 sing 81 n n 
N O1 CB1 doub 82 n n 
N O2 CB1 sing 83 n n 
C3 N1 CB1 sing 84 n n 
C3 O CB1 doub 85 n n 
N1 HN11 CB1 sing 86 n n 
N1 HN12 CB1 sing 87 n n 
N6 C7 CB1 sing 88 n n 
N6 C9 CB1 sing 89 n n 
C7 C9 CB1 sing 90 n n 
C7 H71 CB1 sing 91 n n 
C7 H72 CB1 sing 92 n n 
C9 H91 CB1 sing 93 n n 
C9 H92 CB1 sing 94 n n 
N3 O3 CB1 doub 95 n n 
N3 O4 CB1 sing 96 n n 
#
_atom_sites.entry_id                     1IDT 
_atom_sites.fract_transf_matrix[1][1]    0.017374 
_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]    0.017374 
_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]    0.003758 
_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 FMN A 1 1218 218 FMN FMN . 
D 3 CB1 A 1 1219 219 CB1 CB1 . 
E 3 CB1 A 1 2219 219 CB1 CB1 . 
F 2 FMN B 1 2218 218 FMN FMN . 
G 4 HOH A 1 2220 1 HOH TIP . 
G 4 HOH A 2 2221 2 HOH TIP . 
G 4 HOH A 3 2222 5 HOH TIP . 
G 4 HOH A 4 2223 6 HOH TIP . 
G 4 HOH A 5 2224 7 HOH TIP . 
G 4 HOH A 6 2225 8 HOH TIP . 
G 4 HOH A 7 2226 9 HOH TIP . 
G 4 HOH A 8 2227 10 HOH TIP . 
G 4 HOH A 9 2228 11 HOH TIP . 
G 4 HOH A 10 2229 12 HOH TIP . 
G 4 HOH A 11 2230 14 HOH TIP . 
G 4 HOH A 12 2231 18 HOH TIP . 
G 4 HOH A 13 2232 19 HOH TIP . 
G 4 HOH A 14 2233 20 HOH TIP . 
G 4 HOH A 15 2234 21 HOH TIP . 
G 4 HOH A 16 2235 23 HOH TIP . 
G 4 HOH A 17 2236 26 HOH TIP . 
G 4 HOH A 18 2237 27 HOH TIP . 
G 4 HOH A 19 2238 28 HOH TIP . 
G 4 HOH A 20 2239 29 HOH TIP . 
G 4 HOH A 21 2240 30 HOH TIP . 
G 4 HOH A 22 2241 32 HOH TIP . 
G 4 HOH A 23 2242 33 HOH TIP . 
G 4 HOH A 24 2243 34 HOH TIP . 
G 4 HOH A 25 2244 37 HOH TIP . 
G 4 HOH A 26 2245 38 HOH TIP . 
G 4 HOH A 27 2246 40 HOH TIP . 
G 4 HOH A 28 2247 42 HOH TIP . 
G 4 HOH A 29 2248 43 HOH TIP . 
G 4 HOH A 30 2249 44 HOH TIP . 
G 4 HOH A 31 2250 48 HOH TIP . 
G 4 HOH A 32 2251 53 HOH TIP . 
G 4 HOH A 33 2252 55 HOH TIP . 
G 4 HOH A 34 2253 57 HOH TIP . 
G 4 HOH A 35 2254 58 HOH TIP . 
G 4 HOH A 36 2255 60 HOH TIP . 
G 4 HOH A 37 2256 63 HOH TIP . 
G 4 HOH A 38 2257 64 HOH TIP . 
G 4 HOH A 39 2258 65 HOH TIP . 
G 4 HOH A 40 2259 67 HOH TIP . 
G 4 HOH A 41 2260 70 HOH TIP . 
G 4 HOH A 42 2261 71 HOH TIP . 
G 4 HOH A 43 2262 79 HOH TIP . 
G 4 HOH A 44 2263 81 HOH TIP . 
G 4 HOH A 45 2264 84 HOH TIP . 
G 4 HOH A 46 2265 85 HOH TIP . 
G 4 HOH A 47 2266 86 HOH TIP . 
G 4 HOH A 48 2267 88 HOH TIP . 
G 4 HOH A 49 2268 89 HOH TIP . 
G 4 HOH A 50 2269 92 HOH TIP . 
G 4 HOH A 51 2270 93 HOH TIP . 
G 4 HOH A 52 2271 94 HOH TIP . 
G 4 HOH A 53 2272 96 HOH TIP . 
G 4 HOH A 54 2273 98 HOH TIP . 
G 4 HOH A 55 2274 100 HOH TIP . 
G 4 HOH A 56 2275 103 HOH TIP . 
G 4 HOH A 57 2276 106 HOH TIP . 
G 4 HOH A 58 2277 107 HOH TIP . 
G 4 HOH A 59 2278 109 HOH TIP . 
G 4 HOH A 60 2279 110 HOH TIP . 
G 4 HOH A 61 2280 112 HOH TIP . 
G 4 HOH A 62 2281 113 HOH TIP . 
G 4 HOH A 63 2282 114 HOH TIP . 
G 4 HOH A 64 2283 120 HOH TIP . 
G 4 HOH A 65 2284 122 HOH TIP . 
G 4 HOH A 66 2285 125 HOH TIP . 
G 4 HOH A 67 2286 130 HOH TIP . 
G 4 HOH A 68 2287 133 HOH TIP . 
G 4 HOH A 69 2288 135 HOH TIP . 
G 4 HOH A 70 2289 136 HOH TIP . 
G 4 HOH A 71 2290 138 HOH TIP . 
G 4 HOH A 72 2291 139 HOH TIP . 
G 4 HOH A 73 2292 140 HOH TIP . 
G 4 HOH A 74 2293 142 HOH TIP . 
G 4 HOH A 75 2294 143 HOH TIP . 
G 4 HOH A 76 2295 144 HOH TIP . 
G 4 HOH A 77 2296 145 HOH TIP . 
G 4 HOH A 78 2297 148 HOH TIP . 
G 4 HOH A 79 2298 149 HOH TIP . 
G 4 HOH A 80 2299 156 HOH TIP . 
G 4 HOH A 81 2300 157 HOH TIP . 
G 4 HOH A 82 2301 158 HOH TIP . 
G 4 HOH A 83 2302 165 HOH TIP . 
G 4 HOH A 84 2303 168 HOH TIP . 
G 4 HOH A 85 2304 170 HOH TIP . 
G 4 HOH A 86 2305 171 HOH TIP . 
G 4 HOH A 87 2306 172 HOH TIP . 
G 4 HOH A 88 2307 174 HOH TIP . 
G 4 HOH A 89 2308 181 HOH TIP . 
G 4 HOH A 90 2309 182 HOH TIP . 
G 4 HOH A 91 2310 184 HOH TIP . 
G 4 HOH A 92 2311 188 HOH TIP . 
G 4 HOH A 93 2312 196 HOH TIP . 
G 4 HOH A 94 2313 198 HOH TIP . 
G 4 HOH A 95 2314 199 HOH TIP . 
G 4 HOH A 96 2315 202 HOH TIP . 
G 4 HOH A 97 2316 207 HOH TIP . 
G 4 HOH A 98 2317 214 HOH TIP . 
G 4 HOH A 99 2318 216 HOH TIP . 
G 4 HOH A 100 2319 229 HOH TIP . 
G 4 HOH A 101 2320 232 HOH TIP . 
G 4 HOH A 102 2321 234 HOH TIP . 
G 4 HOH A 103 2322 242 HOH TIP . 
G 4 HOH A 104 2323 250 HOH TIP . 
G 4 HOH A 105 2324 251 HOH TIP . 
G 4 HOH A 106 2325 255 HOH TIP . 
G 4 HOH A 107 2326 260 HOH TIP . 
G 4 HOH A 108 2327 272 HOH TIP . 
G 4 HOH A 109 2328 275 HOH TIP . 
G 4 HOH A 110 2329 283 HOH TIP . 
G 4 HOH A 111 2330 330 HOH TIP . 
G 4 HOH A 112 2331 353 HOH TIP . 
H 4 HOH B 1 2219 3 HOH TIP . 
H 4 HOH B 2 2220 4 HOH TIP . 
H 4 HOH B 3 2221 13 HOH TIP . 
H 4 HOH B 4 2222 15 HOH TIP . 
H 4 HOH B 5 2223 16 HOH TIP . 
H 4 HOH B 6 2224 17 HOH TIP . 
H 4 HOH B 7 2225 22 HOH TIP . 
H 4 HOH B 8 2226 24 HOH TIP . 
H 4 HOH B 9 2227 25 HOH TIP . 
H 4 HOH B 10 2228 31 HOH TIP . 
H 4 HOH B 11 2229 35 HOH TIP . 
H 4 HOH B 12 2230 36 HOH TIP . 
H 4 HOH B 13 2231 39 HOH TIP . 
H 4 HOH B 14 2232 45 HOH TIP . 
H 4 HOH B 15 2233 46 HOH TIP . 
H 4 HOH B 16 2234 47 HOH TIP . 
H 4 HOH B 17 2235 49 HOH TIP . 
H 4 HOH B 18 2236 50 HOH TIP . 
H 4 HOH B 19 2237 51 HOH TIP . 
H 4 HOH B 20 2238 52 HOH TIP . 
H 4 HOH B 21 2239 54 HOH TIP . 
H 4 HOH B 22 2240 56 HOH TIP . 
H 4 HOH B 23 2241 59 HOH TIP . 
H 4 HOH B 24 2242 61 HOH TIP . 
H 4 HOH B 25 2243 66 HOH TIP . 
H 4 HOH B 26 2244 73 HOH TIP . 
H 4 HOH B 27 2245 74 HOH TIP . 
H 4 HOH B 28 2246 77 HOH TIP . 
H 4 HOH B 29 2247 78 HOH TIP . 
H 4 HOH B 30 2248 82 HOH TIP . 
H 4 HOH B 31 2249 87 HOH TIP . 
H 4 HOH B 32 2250 90 HOH TIP . 
H 4 HOH B 33 2251 91 HOH TIP . 
H 4 HOH B 34 2252 95 HOH TIP . 
H 4 HOH B 35 2253 97 HOH TIP . 
H 4 HOH B 36 2254 99 HOH TIP . 
H 4 HOH B 37 2255 101 HOH TIP . 
H 4 HOH B 38 2256 102 HOH TIP . 
H 4 HOH B 39 2257 104 HOH TIP . 
H 4 HOH B 40 2258 105 HOH TIP . 
H 4 HOH B 41 2259 108 HOH TIP . 
H 4 HOH B 42 2260 115 HOH TIP . 
H 4 HOH B 43 2261 117 HOH TIP . 
H 4 HOH B 44 2262 118 HOH TIP . 
H 4 HOH B 45 2263 119 HOH TIP . 
H 4 HOH B 46 2264 121 HOH TIP . 
H 4 HOH B 47 2265 123 HOH TIP . 
H 4 HOH B 48 2266 124 HOH TIP . 
H 4 HOH B 49 2267 126 HOH TIP . 
H 4 HOH B 50 2268 127 HOH TIP . 
H 4 HOH B 51 2269 128 HOH TIP . 
H 4 HOH B 52 2270 131 HOH TIP . 
H 4 HOH B 53 2271 137 HOH TIP . 
H 4 HOH B 54 2272 141 HOH TIP . 
H 4 HOH B 55 2273 147 HOH TIP . 
H 4 HOH B 56 2274 150 HOH TIP . 
H 4 HOH B 57 2275 152 HOH TIP . 
H 4 HOH B 58 2276 153 HOH TIP . 
H 4 HOH B 59 2277 154 HOH TIP . 
H 4 HOH B 60 2278 159 HOH TIP . 
H 4 HOH B 61 2279 160 HOH TIP . 
H 4 HOH B 62 2280 161 HOH TIP . 
H 4 HOH B 63 2281 162 HOH TIP . 
H 4 HOH B 64 2282 163 HOH TIP . 
H 4 HOH B 65 2283 175 HOH TIP . 
H 4 HOH B 66 2284 179 HOH TIP . 
H 4 HOH B 67 2285 180 HOH TIP . 
H 4 HOH B 68 2286 193 HOH TIP . 
H 4 HOH B 69 2287 194 HOH TIP . 
H 4 HOH B 70 2288 195 HOH TIP . 
H 4 HOH B 71 2289 204 HOH TIP . 
H 4 HOH B 72 2290 206 HOH TIP . 
H 4 HOH B 73 2291 212 HOH TIP . 
H 4 HOH B 74 2292 230 HOH TIP . 
H 4 HOH B 75 2293 235 HOH TIP . 
H 4 HOH B 76 2294 276 HOH TIP . 
H 4 HOH B 77 2295 278 HOH TIP . 
H 4 HOH B 78 2296 286 HOH TIP . 
H 4 HOH B 79 2297 323 HOH TIP . 
H 4 HOH B 80 2298 347 HOH TIP . 
#
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 C CB1 . . . D 3 -9.057 -15.466 51.407 1 53.19 ? C CB1 1219 A 1 
HETATM 2 C C1 CB1 . . . D 3 -8.012 -15.224 50.486 1 52.2 ? C1 CB1 1219 A 1 
HETATM 3 C C2 CB1 . . . D 3 -8.158 -14.143 49.565 1 52.09 ? C2 CB1 1219 A 1 
HETATM 4 C C4 CB1 . . . D 3 -9.307 -13.328 49.639 1 53.58 ? C4 CB1 1219 A 1 
HETATM 5 C C5 CB1 . . . D 3 -10.346 -13.592 50.551 1 55.02 ? C5 CB1 1219 A 1 
HETATM 6 C C8 CB1 . . . D 3 -10.21 -14.648 51.484 1 55.05 ? C8 CB1 1219 A 1 
HETATM 7 N N CB1 . . . D 3 -6.886 -16.031 50.536 1 51.54 ? N CB1 1219 A 1 
HETATM 8 O O1 CB1 . . . D 3 -6.617 -16.561 51.599 1 49.65 ? O1 CB1 1219 A 1 
HETATM 9 O O2 CB1 . . . D 3 -6.194 -16.145 49.545 1 50.64 ? O2 CB1 1219 A 1 
HETATM 10 C C3 CB1 . . . D 3 -7.126 -13.837 48.489 1 50.85 ? C3 CB1 1219 A 1 
HETATM 11 N N1 CB1 . . . D 3 -6.168 -12.899 48.702 1 49.91 ? N1 CB1 1219 A 1 
HETATM 12 O O CB1 . . . D 3 -7.189 -14.456 47.435 1 48.05 ? O CB1 1219 A 1 
HETATM 13 N N6 CB1 . . . D 3 -11.534 -12.798 50.514 1 55.95 ? N6 CB1 1219 A 1 
HETATM 14 C C7 CB1 . . . D 3 -11.971 -12.174 49.233 1 56.48 ? C7 CB1 1219 A 1 
HETATM 15 C C9 CB1 . . . D 3 -12.746 -13.33 49.828 1 56.71 ? C9 CB1 1219 A 1 
HETATM 16 N N3 CB1 . . . D 3 -11.153 -14.877 52.465 1 56.48 ? N3 CB1 1219 A 1 
HETATM 17 O O3 CB1 . . . D 3 -11.212 -15.989 52.957 1 57.29 ? O3 CB1 1219 A 1 
HETATM 18 O O4 CB1 . . . D 3 -11.862 -13.951 52.819 1 57.64 ? O4 CB1 1219 A 1 
#
_model_server_stats.io_time_ms              5 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           261 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           18 
#