data_3LM9
#
_model_server_result.job_id            8SdayioMcjuo1dylQWD6FA 
_model_server_result.datetime_utc      '2025-01-02 19:14:48' 
_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          3lm9 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":1001}' 
#
_entry.id    3LM9 
#
_exptl.entry_id    3LM9 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              180.156 
_entity.id                          2 
_entity.src_method                  man 
_entity.type                        non-polymer 
_entity.pdbx_description            beta-D-fructofuranose 
_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         120 
_cell.entry_id            3LM9 
_cell.length_a            112.333 
_cell.length_b            112.333 
_cell.length_c            73.958 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3LM9 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        152 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 31 2 1' 
#
_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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 6_554 -x,-x+y,-z-2/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 -49.305333 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      2 
_struct_asym.id                             B 
_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 ALA 3 A ALA 0 1_555 A N MSE 4 A MSE 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale2 A C MSE 4 A MSE 1 1_555 A N LEU 5 A LEU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.339 ? 
covale ? covale3 A C LYS 35 A LYS 32 1_555 A N MSE 36 A MSE 33 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? 
covale ? covale4 A C MSE 36 A MSE 33 1_555 A N PRO 37 A PRO 34 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.313 ? 
covale ? covale5 A C GLU 96 A GLU 93 1_555 A N MSE 97 A MSE 94 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? 
covale ? covale6 A C MSE 97 A MSE 94 1_555 A N LYS 98 A LYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale7 A C GLU 153 A GLU 150 1_555 A N MSE 154 A MSE 151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.32 ? 
covale ? covale8 A C MSE 154 A MSE 151 1_555 A N GLY 155 A GLY 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.312 ? 
covale ? covale9 A C PRO 225 A PRO 222 1_555 A N MLY 226 A MLY 223 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale10 A C MLY 226 A MLY 223 1_555 A N MLY 227 A MLY 224 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.344 ? 
covale ? covale11 A C MLY 227 A MLY 224 1_555 A N ILE 228 A ILE 225 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? 
covale ? covale12 A C VAL 234 A VAL 231 1_555 A N MSE 235 A MSE 232 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? 
covale ? covale13 A C MSE 235 A MSE 232 1_555 A N GLN 236 A GLN 233 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.312 ? 
covale ? covale14 A C ILE 251 A ILE 248 1_555 A N MSE 252 A MSE 249 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? 
covale ? covale15 A C MSE 252 A MSE 249 1_555 A N ASN 253 A ASN 250 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? 
metalc ? metalc1 A ND1 HIS 156 A HIS 153 1_555 E ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? 
metalc ? metalc2 A SG CYS 171 A CYS 168 1_555 E ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.362 ? 
metalc ? metalc3 A ND1 HIS 174 A HIS 171 1_555 E ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.081 ? 
metalc ? metalc4 A SG CYS 177 A CYS 174 1_555 E ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? 
#
_chem_comp.formula           'C6 H12 O6' 
_chem_comp.formula_weight    180.156 
_chem_comp.id                FRU 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              beta-D-fructofuranose 
_chem_comp.type              'd-saccharide, beta linking' 
_chem_comp.pdbx_synonyms     beta-D-fructose;D-fructose;fructose 
#
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 FRU sing 127 n n 
C1 O1 FRU sing 128 n n 
C1 H11 FRU sing 129 n n 
C1 H12 FRU sing 130 n n 
C2 C3 FRU sing 131 n n 
C2 O2 FRU sing 132 n n 
C2 O5 FRU sing 133 n n 
C3 C4 FRU sing 134 n n 
C3 O3 FRU sing 135 n n 
C3 H3 FRU sing 136 n n 
C4 C5 FRU sing 137 n n 
C4 O4 FRU sing 138 n n 
C4 H4 FRU sing 139 n n 
C5 C6 FRU sing 140 n n 
C5 O5 FRU sing 141 n n 
C5 H5 FRU sing 142 n n 
C6 O6 FRU sing 143 n n 
C6 H61 FRU sing 144 n n 
C6 H62 FRU sing 145 n n 
O1 HO1 FRU sing 146 n n 
O2 HO2 FRU sing 147 n n 
O3 HO3 FRU sing 148 n n 
O4 HO4 FRU sing 149 n n 
O6 HO6 FRU sing 150 n n 
#
loop_
_pdbx_chem_comp_identifier.comp_id
_pdbx_chem_comp_identifier.identifier
_pdbx_chem_comp_identifier.type
_pdbx_chem_comp_identifier.program
_pdbx_chem_comp_identifier.program_version
FRU DFrufb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 
FRU b-D-fructofuranose 'COMMON NAME' GMML 1 
FRU b-D-Fruf 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 
FRU Fru 'SNFG CARBOHYDRATE SYMBOL' GMML 1 
#
_atom_sites.entry_id                     3LM9 
_atom_sites.fract_transf_matrix[1][1]    0.008902 
_atom_sites.fract_transf_matrix[1][2]    0.00514 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.010279 
_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]    0.013521 
_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 FRU A 1 1001 1001 FRU FRU . 
C 3 SO4 A 1 2001 2001 SO4 SO4 . 
D 4 ADP A 1 3001 3001 ADP ADP . 
E 5 ZN A 1 302 302 ZN ZN . 
F 6 HOH A 1 300 1 HOH HOH . 
F 6 HOH A 2 301 3 HOH HOH . 
F 6 HOH A 3 303 4 HOH HOH . 
F 6 HOH A 4 304 5 HOH HOH . 
F 6 HOH A 5 305 7 HOH HOH . 
F 6 HOH A 6 306 8 HOH HOH . 
F 6 HOH A 7 307 11 HOH HOH . 
F 6 HOH A 8 308 12 HOH HOH . 
F 6 HOH A 9 309 13 HOH HOH . 
F 6 HOH A 10 310 14 HOH HOH . 
F 6 HOH A 11 311 15 HOH HOH . 
F 6 HOH A 12 312 16 HOH HOH . 
F 6 HOH A 13 313 17 HOH HOH . 
F 6 HOH A 14 314 20 HOH HOH . 
F 6 HOH A 15 315 21 HOH HOH . 
F 6 HOH A 16 316 22 HOH HOH . 
F 6 HOH A 17 317 26 HOH HOH . 
F 6 HOH A 18 318 30 HOH HOH . 
F 6 HOH A 19 319 34 HOH HOH . 
F 6 HOH A 20 320 37 HOH HOH . 
F 6 HOH A 21 321 38 HOH HOH . 
F 6 HOH A 22 322 42 HOH HOH . 
F 6 HOH A 23 323 48 HOH HOH . 
F 6 HOH A 24 324 58 HOH HOH . 
F 6 HOH A 25 325 61 HOH HOH . 
F 6 HOH A 26 326 66 HOH HOH . 
F 6 HOH A 27 327 70 HOH HOH . 
F 6 HOH A 28 328 74 HOH HOH . 
F 6 HOH A 29 329 77 HOH HOH . 
F 6 HOH A 30 330 87 HOH HOH . 
F 6 HOH A 31 331 89 HOH HOH . 
F 6 HOH A 32 332 101 HOH HOH . 
F 6 HOH A 33 333 132 HOH HOH . 
F 6 HOH A 34 334 133 HOH HOH . 
F 6 HOH A 35 335 135 HOH HOH . 
F 6 HOH A 36 336 136 HOH HOH . 
F 6 HOH A 37 337 137 HOH HOH . 
F 6 HOH A 38 338 138 HOH HOH . 
F 6 HOH A 39 339 140 HOH HOH . 
F 6 HOH A 40 340 141 HOH HOH . 
F 6 HOH A 41 341 142 HOH HOH . 
F 6 HOH A 42 342 143 HOH HOH . 
F 6 HOH A 43 343 144 HOH HOH . 
F 6 HOH A 44 344 145 HOH HOH . 
F 6 HOH A 45 345 146 HOH HOH . 
F 6 HOH A 46 346 147 HOH HOH . 
F 6 HOH A 47 347 148 HOH HOH . 
F 6 HOH A 48 348 149 HOH HOH . 
F 6 HOH A 49 349 150 HOH HOH . 
F 6 HOH A 50 350 151 HOH HOH . 
F 6 HOH A 51 351 152 HOH HOH . 
F 6 HOH A 52 352 153 HOH HOH . 
F 6 HOH A 53 353 155 HOH HOH . 
F 6 HOH A 54 354 156 HOH HOH . 
F 6 HOH A 55 355 157 HOH HOH . 
F 6 HOH A 56 356 158 HOH HOH . 
F 6 HOH A 57 357 159 HOH HOH . 
F 6 HOH A 58 358 160 HOH HOH . 
F 6 HOH A 59 359 161 HOH HOH . 
F 6 HOH A 60 360 162 HOH HOH . 
F 6 HOH A 61 361 163 HOH HOH . 
F 6 HOH A 62 362 164 HOH HOH . 
F 6 HOH A 63 363 165 HOH HOH . 
F 6 HOH A 64 364 166 HOH HOH . 
F 6 HOH A 65 365 167 HOH HOH . 
F 6 HOH A 66 366 168 HOH HOH . 
F 6 HOH A 67 367 1 HOH HOH . 
F 6 HOH A 68 368 2 HOH HOH . 
F 6 HOH A 69 369 3 HOH HOH . 
F 6 HOH A 70 370 4 HOH HOH . 
F 6 HOH A 71 371 7 HOH HOH . 
F 6 HOH A 72 372 10 HOH HOH . 
F 6 HOH A 73 373 12 HOH HOH . 
F 6 HOH A 74 374 13 HOH HOH . 
F 6 HOH A 75 375 15 HOH HOH . 
F 6 HOH A 76 376 20 HOH HOH . 
F 6 HOH A 77 377 28 HOH HOH . 
F 6 HOH A 78 378 34 HOH HOH . 
F 6 HOH A 79 379 38 HOH HOH . 
F 6 HOH A 80 380 48 HOH HOH . 
F 6 HOH A 81 381 61 HOH HOH . 
F 6 HOH A 82 382 71 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 FRU . . . B 2 39.772 -37.467 -27.293 1 50.02 ? C1 FRU 1001 A 1 
HETATM 2 C C2 FRU . . . B 2 40.872 -37.996 -26.403 1 52.54 ? C2 FRU 1001 A 1 
HETATM 3 C C3 FRU . . . B 2 40.697 -39.541 -26.307 1 51.8 ? C3 FRU 1001 A 1 
HETATM 4 C C4 FRU . . . B 2 41.396 -39.72 -24.965 1 50.88 ? C4 FRU 1001 A 1 
HETATM 5 C C5 FRU . . . B 2 40.875 -38.511 -24.123 1 51.95 ? C5 FRU 1001 A 1 
HETATM 6 C C6 FRU . . . B 2 41.751 -38.103 -22.924 1 53.85 ? C6 FRU 1001 A 1 
HETATM 7 O O1 FRU . . . B 2 38.775 -36.867 -26.485 1 51.86 ? O1 FRU 1001 A 1 
HETATM 8 O O2 FRU . . . B 2 42.215 -37.7 -26.942 1 50.58 ? O2 FRU 1001 A 1 
HETATM 9 O O3 FRU . . . B 2 41.287 -40.361 -27.37 1 49.26 ? O3 FRU 1001 A 1 
HETATM 10 O O4 FRU . . . B 2 41.233 -41.031 -24.444 1 45.56 ? O4 FRU 1001 A 1 
HETATM 11 O O5 FRU . . . B 2 40.772 -37.411 -25.05 1 49.41 ? O5 FRU 1001 A 1 
HETATM 12 O O6 FRU . . . B 2 43.158 -38.306 -23.213 1 56 ? O6 FRU 1001 A 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           468 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           12 
#