data_8F4R
#
_model_server_result.job_id            cNr2dy7PgEF7pWOpIhkpow 
_model_server_result.datetime_utc      '2024-11-16 06:32:36' 
_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          8f4r 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":1101}' 
#
_entry.id    8F4R 
#
_exptl.entry_id    8F4R 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              449.542 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(2R,3R,4R,5R)-2-((1S,2S,3R,4S,6R)-4,6-DIAMINO-3-((2R,3R,6S)-3-AMINO-6-(AMINOMETHYL)-TETRAHYDRO-2H-PYRAN-2-YLOXY)-2-HYDR OXYCYCLOHEXYLOXY)-5-METHYL-4-(METHYLAMINO)-TETRAHYDRO-2H-PYRAN-3,5-DIOL' 
_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            8F4R 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8F4R 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_pdbx_struct_assembly.details               author_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    ? 
_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                      2 
_struct_asym.id                             D 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C19 H39 N5 O7' 
_chem_comp.formula_weight    449.542 
_chem_comp.id                LLL 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(2R,3R,4R,5R)-2-((1S,2S,3R,4S,6R)-4,6-DIAMINO-3-((2R,3R,6S)-3-AMINO-6-(AMINOMETHYL)-TETRAHYDRO-2H-PYRAN-2-YLOXY)-2-HYDR OXYCYCLOHEXYLOXY)-5-METHYL-4-(METHYLAMINO)-TETRAHYDRO-2H-PYRAN-3,5-DIOL' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     'GENTAMICIN C1A' 
#
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
C11 O11 LLL sing 192 n n 
C11 C21 LLL sing 193 n n 
C11 O51 LLL sing 194 n n 
C11 H11 LLL sing 195 n n 
O11 C42 LLL sing 196 n n 
C21 N21 LLL sing 197 n n 
C21 C31 LLL sing 198 n n 
C21 H21 LLL sing 199 n n 
N21 H211 LLL sing 200 n n 
N21 H212 LLL sing 201 n n 
C31 C41 LLL sing 202 n n 
C31 H311 LLL sing 203 n n 
C31 H312 LLL sing 204 n n 
C41 C51 LLL sing 205 n n 
C41 H411 LLL sing 206 n n 
C41 H412 LLL sing 207 n n 
C51 O51 LLL sing 208 n n 
C51 C61 LLL sing 209 n n 
C51 H51 LLL sing 210 n n 
C61 N61 LLL sing 211 n n 
C61 H611 LLL sing 212 n n 
C61 H612 LLL sing 213 n n 
N61 H11A LLL sing 214 n n 
N61 H12A LLL sing 215 n n 
C12 N12 LLL sing 216 n n 
C12 C22 LLL sing 217 n n 
C12 C62 LLL sing 218 n n 
C12 H12 LLL sing 219 n n 
N12 H121 LLL sing 220 n n 
N12 H122 LLL sing 221 n n 
C22 C32 LLL sing 222 n n 
C22 H221 LLL sing 223 n n 
C22 H222 LLL sing 224 n n 
C32 N32 LLL sing 225 n n 
C32 C42 LLL sing 226 n n 
C32 H32 LLL sing 227 n n 
N32 H321 LLL sing 228 n n 
N32 H322 LLL sing 229 n n 
C42 C52 LLL sing 230 n n 
C42 H42 LLL sing 231 n n 
C52 O52 LLL sing 232 n n 
C52 C62 LLL sing 233 n n 
C52 H52 LLL sing 234 n n 
O52 H3 LLL sing 235 n n 
C62 O62 LLL sing 236 n n 
C62 H62 LLL sing 237 n n 
O62 C13 LLL sing 238 n n 
C13 C23 LLL sing 239 n n 
C13 O53 LLL sing 240 n n 
C13 H13 LLL sing 241 n n 
C23 O23 LLL sing 242 n n 
C23 C33 LLL sing 243 n n 
C23 H23 LLL sing 244 n n 
O23 H2 LLL sing 245 n n 
C33 N33 LLL sing 246 n n 
C33 C43 LLL sing 247 n n 
C33 H1 LLL sing 248 n n 
N33 C93 LLL sing 249 n n 
N33 H33 LLL sing 250 n n 
C43 O43 LLL sing 251 n n 
C43 C53 LLL sing 252 n n 
C43 C83 LLL sing 253 n n 
O43 H43 LLL sing 254 n n 
C53 O53 LLL sing 255 n n 
C53 H531 LLL sing 256 n n 
C53 H532 LLL sing 257 n n 
C83 H831 LLL sing 258 n n 
C83 H832 LLL sing 259 n n 
C83 H833 LLL sing 260 n n 
C93 H931 LLL sing 261 n n 
C93 H932 LLL sing 262 n n 
C93 H933 LLL sing 263 n n 
#
_atom_sites.entry_id                     8F4R 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_atom_sites.fract_transf_vector[1]       0 
_atom_sites.fract_transf_vector[2]       0 
_atom_sites.fract_transf_vector[3]       0 
#
_pdbx_nonpoly_scheme.asym_id          D 
_pdbx_nonpoly_scheme.entity_id        2 
_pdbx_nonpoly_scheme.mon_id           LLL 
_pdbx_nonpoly_scheme.pdb_strand_id    B 
_pdbx_nonpoly_scheme.ndb_seq_num      1 
_pdbx_nonpoly_scheme.pdb_seq_num      1101 
_pdbx_nonpoly_scheme.auth_seq_num     1101 
_pdbx_nonpoly_scheme.pdb_mon_id       LLL 
_pdbx_nonpoly_scheme.auth_mon_id      LLL 
_pdbx_nonpoly_scheme.pdb_ins_code     . 
#
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 C11 LLL . . . D 2 184.063 194.363 195.988 1 30 ? C11 LLL 1101 B 1 
HETATM 2 O O11 LLL . . . D 2 183.674 193.017 196.25 1 30 ? O11 LLL 1101 B 1 
HETATM 3 C C21 LLL . . . D 2 184.799 194.994 197.216 1 30 ? C21 LLL 1101 B 1 
HETATM 4 N N21 LLL . . . D 2 185.14 193.935 198.188 1 30 ? N21 LLL 1101 B 1 
HETATM 5 C C31 LLL . . . D 2 183.932 196.079 197.849 1 30 ? C31 LLL 1101 B 1 
HETATM 6 C C41 LLL . . . D 2 183.505 197.121 196.789 1 30 ? C41 LLL 1101 B 1 
HETATM 7 C C51 LLL . . . D 2 182.929 196.455 195.545 1 30 ? C51 LLL 1101 B 1 
HETATM 8 O O51 LLL . . . D 2 182.812 195.035 195.79 1 30 ? O51 LLL 1101 B 1 
HETATM 9 C C61 LLL . . . D 2 183.854 196.686 194.273 1 30 ? C61 LLL 1101 B 1 
HETATM 10 N N61 LLL . . . D 2 183.262 197.55 193.256 1 30 ? N61 LLL 1101 B 1 
HETATM 11 C C12 LLL . . . D 2 184.376 189.109 195.01 1 30 ? C12 LLL 1101 B 1 
HETATM 12 N N12 LLL . . . D 2 184.835 187.868 194.38 1 30 ? N12 LLL 1101 B 1 
HETATM 13 C C22 LLL . . . D 2 183.795 190.107 193.966 1 30 ? C22 LLL 1101 B 1 
HETATM 14 C C32 LLL . . . D 2 183.21 191.381 194.622 1 30 ? C32 LLL 1101 B 1 
HETATM 15 N N32 LLL . . . D 2 182.668 192.316 193.613 1 30 ? N32 LLL 1101 B 1 
HETATM 16 C C42 LLL . . . D 2 184.381 192.111 195.416 1 30 ? C42 LLL 1101 B 1 
HETATM 17 C C52 LLL . . . D 2 184.97 191.059 196.469 1 30 ? C52 LLL 1101 B 1 
HETATM 18 O O52 LLL . . . D 2 186.092 191.732 197.12 1 30 ? O52 LLL 1101 B 1 
HETATM 19 C C62 LLL . . . D 2 185.597 189.842 195.704 1 30 ? C62 LLL 1101 B 1 
HETATM 20 O O62 LLL . . . D 2 185.993 188.957 196.764 1 30 ? O62 LLL 1101 B 1 
HETATM 21 C C13 LLL . . . D 2 187.183 188.268 196.41 1 30 ? C13 LLL 1101 B 1 
HETATM 22 C C23 LLL . . . D 2 187.407 186.937 197.2 1 30 ? C23 LLL 1101 B 1 
HETATM 23 O O23 LLL . . . D 2 187.562 187.333 198.583 1 30 ? O23 LLL 1101 B 1 
HETATM 24 C C33 LLL . . . D 2 188.69 186.201 196.768 1 30 ? C33 LLL 1101 B 1 
HETATM 25 N N33 LLL . . . D 2 188.387 185.189 195.738 1 30 ? N33 LLL 1101 B 1 
HETATM 26 C C43 LLL . . . D 2 189.782 187.253 196.248 1 30 ? C43 LLL 1101 B 1 
HETATM 27 O O43 LLL . . . D 2 189.519 187.436 194.834 1 30 ? O43 LLL 1101 B 1 
HETATM 28 C C53 LLL . . . D 2 189.602 188.611 196.916 1 30 ? C53 LLL 1101 B 1 
HETATM 29 O O53 LLL . . . D 2 188.255 189.169 196.767 1 30 ? O53 LLL 1101 B 1 
HETATM 30 C C83 LLL . . . D 2 191.225 186.802 196.404 1 30 ? C83 LLL 1101 B 1 
HETATM 31 C C93 LLL . . . D 2 186.966 184.712 195.803 1 30 ? C93 LLL 1101 B 1 
#
_model_server_stats.io_time_ms              48 
_model_server_stats.parse_time_ms           22 
_model_server_stats.create_model_time_ms    126 
_model_server_stats.query_time_ms           720 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           31 
#