data_3SG9
#
_model_server_result.job_id            WHRVKrfk9YZ2iOpGCvgOGQ 
_model_server_result.datetime_utc      '2024-11-28 10:07:53' 
_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          3sg9 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":305}' 
#
_entry.id    3SG9 
#
_exptl.entry_id    3SG9 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              484.499 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'KANAMYCIN A' 
_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          100.61 
_cell.angle_gamma         90 
_cell.entry_id            3SG9 
_cell.length_a            42.903 
_cell.length_b            101.426 
_cell.length_c            73.399 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3SG9 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 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
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
PISA dimeric 2 software_defined_assembly 3 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,C,F 1 1 
B,D,E,G 2 1 
A,B,C,D,E,F,G 3 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
? 2 C N N 
? 2 E N N 
#
_chem_comp.formula           'C18 H36 N4 O11' 
_chem_comp.formula_weight    484.499 
_chem_comp.id                KAN 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'KANAMYCIN A' 
_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
C1 C2 KAN sing 173 n n 
C1 O5 KAN sing 174 n n 
C1 O9 KAN sing 175 n n 
C1 H1 KAN sing 176 n n 
C2 C3 KAN sing 177 n n 
C2 O6 KAN sing 178 n n 
C2 H2 KAN sing 179 n n 
C3 C4 KAN sing 180 n n 
C3 O7 KAN sing 181 n n 
C3 H3 KAN sing 182 n n 
C4 C5 KAN sing 183 n n 
C4 O8 KAN sing 184 n n 
C4 H4 KAN sing 185 n n 
C5 C6 KAN sing 186 n n 
C5 O5 KAN sing 187 n n 
C5 H5 KAN sing 188 n n 
C6 N1 KAN sing 189 n n 
C6 H61 KAN sing 190 n n 
C6 H62 KAN sing 191 n n 
C7 C8 KAN sing 192 n n 
C7 C12 KAN sing 193 n n 
C7 N3 KAN sing 194 n n 
C7 H7 KAN sing 195 n n 
C8 C9 KAN sing 196 n n 
C8 O11 KAN sing 197 n n 
C8 H8 KAN sing 198 n n 
C9 C10 KAN sing 199 n n 
C9 O10 KAN sing 200 n n 
C9 H9 KAN sing 201 n n 
C10 C11 KAN sing 202 n n 
C10 O9 KAN sing 203 n n 
C10 H10 KAN sing 204 n n 
C11 C12 KAN sing 205 n n 
C11 N2 KAN sing 206 n n 
C11 H11 KAN sing 207 n n 
C12 H121 KAN sing 208 n n 
C12 H122 KAN sing 209 n n 
C13 C14 KAN sing 210 n n 
C13 O11 KAN sing 211 n n 
C13 O12 KAN sing 212 n n 
C13 H13 KAN sing 213 n n 
C14 C15 KAN sing 214 n n 
C14 O13 KAN sing 215 n n 
C14 H14 KAN sing 216 n n 
C15 C16 KAN sing 217 n n 
C15 N4 KAN sing 218 n n 
C15 H15 KAN sing 219 n n 
C16 C17 KAN sing 220 n n 
C16 O14 KAN sing 221 n n 
C16 H16 KAN sing 222 n n 
C17 C18 KAN sing 223 n n 
C17 O12 KAN sing 224 n n 
C17 H17 KAN sing 225 n n 
C18 O15 KAN sing 226 n n 
C18 H181 KAN sing 227 n n 
C18 H182 KAN sing 228 n n 
N1 HN11 KAN sing 229 n n 
N1 HN12 KAN sing 230 n n 
N2 HN21 KAN sing 231 n n 
N2 HN22 KAN sing 232 n n 
N3 HN31 KAN sing 233 n n 
N3 HN32 KAN sing 234 n n 
N4 HN41 KAN sing 235 n n 
N4 HN42 KAN sing 236 n n 
O6 HO6 KAN sing 237 n n 
O7 HO7 KAN sing 238 n n 
O8 HO8 KAN sing 239 n n 
O10 HO1 KAN sing 240 n n 
O13 HO3 KAN sing 241 n n 
O14 HO4 KAN sing 242 n n 
O15 HO5 KAN sing 243 n n 
#
_atom_sites.entry_id                     3SG9 
_atom_sites.fract_transf_matrix[1][1]    0.023308 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.004365 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.009859 
_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]    0.013861 
_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 KAN A 1 304 1 KAN KAN . 
D 3 CL B 1 304 1 CL CL . 
E 2 KAN B 1 305 1 KAN KAN . 
F 4 HOH A 1 305 2 HOH HOH . 
F 4 HOH A 2 306 8 HOH HOH . 
F 4 HOH A 3 307 10 HOH HOH . 
F 4 HOH A 4 308 12 HOH HOH . 
F 4 HOH A 5 309 16 HOH HOH . 
F 4 HOH A 6 310 17 HOH HOH . 
F 4 HOH A 7 311 19 HOH HOH . 
F 4 HOH A 8 312 20 HOH HOH . 
F 4 HOH A 9 313 24 HOH HOH . 
F 4 HOH A 10 314 27 HOH HOH . 
F 4 HOH A 11 315 28 HOH HOH . 
F 4 HOH A 12 316 32 HOH HOH . 
F 4 HOH A 13 317 35 HOH HOH . 
F 4 HOH A 14 318 41 HOH HOH . 
F 4 HOH A 15 319 42 HOH HOH . 
F 4 HOH A 16 320 43 HOH HOH . 
F 4 HOH A 17 321 57 HOH HOH . 
F 4 HOH A 18 322 58 HOH HOH . 
F 4 HOH A 19 323 60 HOH HOH . 
F 4 HOH A 20 324 61 HOH HOH . 
F 4 HOH A 21 325 65 HOH HOH . 
F 4 HOH A 22 326 67 HOH HOH . 
F 4 HOH A 23 327 68 HOH HOH . 
F 4 HOH A 24 328 70 HOH HOH . 
F 4 HOH A 25 329 71 HOH HOH . 
F 4 HOH A 26 330 74 HOH HOH . 
F 4 HOH A 27 331 75 HOH HOH . 
F 4 HOH A 28 332 77 HOH HOH . 
F 4 HOH A 29 333 79 HOH HOH . 
F 4 HOH A 30 334 86 HOH HOH . 
F 4 HOH A 31 335 87 HOH HOH . 
F 4 HOH A 32 336 88 HOH HOH . 
F 4 HOH A 33 337 89 HOH HOH . 
F 4 HOH A 34 338 90 HOH HOH . 
F 4 HOH A 35 339 92 HOH HOH . 
F 4 HOH A 36 340 93 HOH HOH . 
F 4 HOH A 37 341 95 HOH HOH . 
F 4 HOH A 38 342 96 HOH HOH . 
F 4 HOH A 39 343 98 HOH HOH . 
F 4 HOH A 40 344 101 HOH HOH . 
F 4 HOH A 41 345 102 HOH HOH . 
F 4 HOH A 42 346 104 HOH HOH . 
F 4 HOH A 43 347 105 HOH HOH . 
F 4 HOH A 44 348 108 HOH HOH . 
F 4 HOH A 45 349 109 HOH HOH . 
F 4 HOH A 46 350 110 HOH HOH . 
F 4 HOH A 47 351 111 HOH HOH . 
F 4 HOH A 48 352 114 HOH HOH . 
F 4 HOH A 49 353 118 HOH HOH . 
F 4 HOH A 50 354 124 HOH HOH . 
F 4 HOH A 51 355 125 HOH HOH . 
F 4 HOH A 52 356 126 HOH HOH . 
F 4 HOH A 53 357 128 HOH HOH . 
F 4 HOH A 54 358 129 HOH HOH . 
F 4 HOH A 55 359 143 HOH HOH . 
F 4 HOH A 56 360 144 HOH HOH . 
F 4 HOH A 57 361 145 HOH HOH . 
F 4 HOH A 58 362 146 HOH HOH . 
F 4 HOH A 59 363 147 HOH HOH . 
F 4 HOH A 60 364 148 HOH HOH . 
F 4 HOH A 61 365 149 HOH HOH . 
F 4 HOH A 62 366 150 HOH HOH . 
F 4 HOH A 63 367 151 HOH HOH . 
F 4 HOH A 64 368 152 HOH HOH . 
F 4 HOH A 65 369 153 HOH HOH . 
F 4 HOH A 66 370 154 HOH HOH . 
F 4 HOH A 67 371 155 HOH HOH . 
F 4 HOH A 68 372 156 HOH HOH . 
F 4 HOH A 69 373 157 HOH HOH . 
F 4 HOH A 70 374 158 HOH HOH . 
F 4 HOH A 71 375 160 HOH HOH . 
F 4 HOH A 72 376 161 HOH HOH . 
F 4 HOH A 73 377 162 HOH HOH . 
F 4 HOH A 74 378 163 HOH HOH . 
F 4 HOH A 75 379 165 HOH HOH . 
F 4 HOH A 76 380 166 HOH HOH . 
F 4 HOH A 77 381 167 HOH HOH . 
F 4 HOH A 78 382 168 HOH HOH . 
F 4 HOH A 79 383 169 HOH HOH . 
F 4 HOH A 80 384 170 HOH HOH . 
F 4 HOH A 81 385 171 HOH HOH . 
F 4 HOH A 82 386 172 HOH HOH . 
F 4 HOH A 83 387 173 HOH HOH . 
F 4 HOH A 84 388 174 HOH HOH . 
G 4 HOH B 1 306 1 HOH HOH . 
G 4 HOH B 2 307 3 HOH HOH . 
G 4 HOH B 3 308 4 HOH HOH . 
G 4 HOH B 4 309 5 HOH HOH . 
G 4 HOH B 5 310 6 HOH HOH . 
G 4 HOH B 6 311 7 HOH HOH . 
G 4 HOH B 7 312 9 HOH HOH . 
G 4 HOH B 8 313 11 HOH HOH . 
G 4 HOH B 9 314 13 HOH HOH . 
G 4 HOH B 10 315 14 HOH HOH . 
G 4 HOH B 11 316 15 HOH HOH . 
G 4 HOH B 12 317 18 HOH HOH . 
G 4 HOH B 13 318 21 HOH HOH . 
G 4 HOH B 14 319 22 HOH HOH . 
G 4 HOH B 15 320 23 HOH HOH . 
G 4 HOH B 16 321 25 HOH HOH . 
G 4 HOH B 17 322 26 HOH HOH . 
G 4 HOH B 18 323 29 HOH HOH . 
G 4 HOH B 19 324 30 HOH HOH . 
G 4 HOH B 20 325 31 HOH HOH . 
G 4 HOH B 21 326 33 HOH HOH . 
G 4 HOH B 22 327 34 HOH HOH . 
G 4 HOH B 23 328 36 HOH HOH . 
G 4 HOH B 24 329 37 HOH HOH . 
G 4 HOH B 25 330 38 HOH HOH . 
G 4 HOH B 26 331 39 HOH HOH . 
G 4 HOH B 27 332 40 HOH HOH . 
G 4 HOH B 28 333 44 HOH HOH . 
G 4 HOH B 29 334 45 HOH HOH . 
G 4 HOH B 30 335 46 HOH HOH . 
G 4 HOH B 31 336 47 HOH HOH . 
G 4 HOH B 32 337 48 HOH HOH . 
G 4 HOH B 33 338 49 HOH HOH . 
G 4 HOH B 34 339 50 HOH HOH . 
G 4 HOH B 35 340 51 HOH HOH . 
G 4 HOH B 36 341 52 HOH HOH . 
G 4 HOH B 37 342 53 HOH HOH . 
G 4 HOH B 38 343 54 HOH HOH . 
G 4 HOH B 39 344 55 HOH HOH . 
G 4 HOH B 40 345 56 HOH HOH . 
G 4 HOH B 41 346 59 HOH HOH . 
G 4 HOH B 42 347 62 HOH HOH . 
G 4 HOH B 43 348 63 HOH HOH . 
G 4 HOH B 44 349 64 HOH HOH . 
G 4 HOH B 45 350 66 HOH HOH . 
G 4 HOH B 46 351 69 HOH HOH . 
G 4 HOH B 47 352 72 HOH HOH . 
G 4 HOH B 48 353 73 HOH HOH . 
G 4 HOH B 49 354 76 HOH HOH . 
G 4 HOH B 50 355 78 HOH HOH . 
G 4 HOH B 51 356 80 HOH HOH . 
G 4 HOH B 52 357 81 HOH HOH . 
G 4 HOH B 53 358 82 HOH HOH . 
G 4 HOH B 54 359 83 HOH HOH . 
G 4 HOH B 55 360 84 HOH HOH . 
G 4 HOH B 56 361 85 HOH HOH . 
G 4 HOH B 57 362 91 HOH HOH . 
G 4 HOH B 58 363 94 HOH HOH . 
G 4 HOH B 59 364 97 HOH HOH . 
G 4 HOH B 60 365 99 HOH HOH . 
G 4 HOH B 61 366 100 HOH HOH . 
G 4 HOH B 62 367 103 HOH HOH . 
G 4 HOH B 63 368 106 HOH HOH . 
G 4 HOH B 64 369 107 HOH HOH . 
G 4 HOH B 65 370 112 HOH HOH . 
G 4 HOH B 66 371 113 HOH HOH . 
G 4 HOH B 67 372 115 HOH HOH . 
G 4 HOH B 68 373 116 HOH HOH . 
G 4 HOH B 69 374 117 HOH HOH . 
G 4 HOH B 70 375 119 HOH HOH . 
G 4 HOH B 71 376 120 HOH HOH . 
G 4 HOH B 72 377 121 HOH HOH . 
G 4 HOH B 73 378 122 HOH HOH . 
G 4 HOH B 74 379 123 HOH HOH . 
G 4 HOH B 75 380 127 HOH HOH . 
G 4 HOH B 76 381 130 HOH HOH . 
G 4 HOH B 77 382 131 HOH HOH . 
G 4 HOH B 78 383 132 HOH HOH . 
G 4 HOH B 79 384 133 HOH HOH . 
G 4 HOH B 80 385 134 HOH HOH . 
G 4 HOH B 81 386 135 HOH HOH . 
G 4 HOH B 82 387 136 HOH HOH . 
G 4 HOH B 83 388 137 HOH HOH . 
G 4 HOH B 84 389 138 HOH HOH . 
G 4 HOH B 85 390 139 HOH HOH . 
G 4 HOH B 86 391 140 HOH HOH . 
G 4 HOH B 87 392 141 HOH HOH . 
G 4 HOH B 88 393 142 HOH HOH . 
G 4 HOH B 89 394 159 HOH HOH . 
G 4 HOH B 90 395 164 HOH HOH . 
G 4 HOH B 91 396 175 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 KAN . . . E 2 14.119 30.059 -6.469 1 102.13 ? C1 KAN 305 B 1 
HETATM 2 C C2 KAN . . . E 2 14.905 29.018 -7.279 1 100.63 ? C2 KAN 305 B 1 
HETATM 3 C C3 KAN . . . E 2 15.004 29.431 -8.752 1 100.17 ? C3 KAN 305 B 1 
HETATM 4 C C4 KAN . . . E 2 13.599 29.635 -9.312 1 100.48 ? C4 KAN 305 B 1 
HETATM 5 C C5 KAN . . . E 2 12.908 30.79 -8.553 1 100.51 ? C5 KAN 305 B 1 
HETATM 6 C C6 KAN . . . E 2 11.446 31.09 -8.937 1 99.77 ? C6 KAN 305 B 1 
HETATM 7 C C7 KAN . . . E 2 13.968 35.1 -4.474 1 111.83 ? C7 KAN 305 B 1 
HETATM 8 C C8 KAN . . . E 2 13.049 33.875 -4.075 1 111.48 ? C8 KAN 305 B 1 
HETATM 9 C C9 KAN . . . E 2 13.614 32.5 -4.555 1 109.84 ? C9 KAN 305 B 1 
HETATM 10 C C10 KAN . . . E 2 14.352 32.491 -5.915 1 109.27 ? C10 KAN 305 B 1 
HETATM 11 C C11 KAN . . . E 2 15.303 33.725 -6.052 1 110.95 ? C11 KAN 305 B 1 
HETATM 12 C C12 KAN . . . E 2 14.49 35.025 -5.924 1 111.42 ? C12 KAN 305 B 1 
HETATM 13 C C13 KAN . . . E 2 11.754 32.912 -2.074 1 113.17 ? C13 KAN 305 B 1 
HETATM 14 C C14 KAN . . . E 2 11.348 33.164 -0.588 1 113.21 ? C14 KAN 305 B 1 
HETATM 15 C C15 KAN . . . E 2 12.294 32.542 0.483 1 112.98 ? C15 KAN 305 B 1 
HETATM 16 C C16 KAN . . . E 2 13.223 31.371 0.012 1 113.71 ? C16 KAN 305 B 1 
HETATM 17 C C17 KAN . . . E 2 13.297 31.151 -1.514 1 113.82 ? C17 KAN 305 B 1 
HETATM 18 C C18 KAN . . . E 2 13.744 29.731 -1.906 1 114.53 ? C18 KAN 305 B 1 
HETATM 19 N N1 KAN . . . E 2 11.411 31.726 -10.261 1 99.1 ? N1 KAN 305 B 1 
HETATM 20 N N2 KAN . . . E 2 16.071 33.744 -7.315 1 111 ? N2 KAN 305 B 1 
HETATM 21 N N3 KAN . . . E 2 13.349 36.425 -4.266 1 111.39 ? N3 KAN 305 B 1 
HETATM 22 N N4 KAN . . . E 2 11.507 32.14 1.67 1 111.43 ? N4 KAN 305 B 1 
HETATM 23 O O5 KAN . . . E 2 12.876 30.492 -7.13 1 101.08 ? O5 KAN 305 B 1 
HETATM 24 O O6 KAN . . . E 2 16.199 28.841 -6.71 1 99.57 ? O6 KAN 305 B 1 
HETATM 25 O O7 KAN . . . E 2 15.668 28.426 -9.513 1 99.79 ? O7 KAN 305 B 1 
HETATM 26 O O8 KAN . . . E 2 13.679 29.892 -10.716 1 100.22 ? O8 KAN 305 B 1 
HETATM 27 O O9 KAN . . . E 2 14.991 31.162 -6.074 1 106.24 ? O9 KAN 305 B 1 
HETATM 28 O O10 KAN . . . E 2 12.548 31.555 -4.634 1 109 ? O10 KAN 305 B 1 
HETATM 29 O O11 KAN . . . E 2 12.833 33.794 -2.596 1 112.28 ? O11 KAN 305 B 1 
HETATM 30 O O12 KAN . . . E 2 12.063 31.484 -2.211 1 113.53 ? O12 KAN 305 B 1 
HETATM 31 O O13 KAN . . . E 2 11.214 34.562 -0.332 1 112.56 ? O13 KAN 305 B 1 
HETATM 32 O O14 KAN . . . E 2 14.568 31.615 0.468 1 114.18 ? O14 KAN 305 B 1 
HETATM 33 O O15 KAN . . . E 2 14.801 29.853 -2.868 1 115.13 ? O15 KAN 305 B 1 
#
_model_server_stats.io_time_ms              16 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    11 
_model_server_stats.query_time_ms           391 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           33 
#