data_6HDB
#
_model_server_result.job_id            w9oC8EEQWZ8hCeeBhvd66Q 
_model_server_result.datetime_utc      '2025-07-07 06:28:23' 
_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          6hdb 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":501}' 
#
_entry.id    6HDB 
#
_exptl.entry_id    6HDB 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              510.615 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            DODECYL-BETA-D-MALTOSIDE 
_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            6HDB 
_cell.length_a            131.92 
_cell.length_b            131.92 
_cell.length_c            132.79 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6HDB 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        90 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 4 21 2' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    octameric 
_pdbx_struct_assembly.oligomeric_count      8 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,D,E,F,G,H,I 1 1 
A,B,C,D,E,F,G,H,I 1 2 
A,B,C,D,E,F,G,H,I 1 3 
A,B,C,D,E,F,G,H,I 1 4 
#
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' 2_545 -x,-y-1,z -1 0 0 0 -1 0 0 0 1 0 -131.92 0 
3 'crystal symmetry operation' 3_445 -y-1/2,x-1/2,z 0 -1 0 1 0 0 0 0 1 -65.96 -65.96 0 
4 'crystal symmetry operation' 4_545 y+1/2,-x-1/2,z 0 1 0 -1 0 0 0 0 1 65.96 -65.96 0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      4 
_struct_asym.id                             D 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_pdbx_entity_branch.entity_id    3 
_pdbx_entity_branch.type         oligosaccharide 
#
_pdbx_entity_branch_link.link_id                     1 
_pdbx_entity_branch_link.details                     ? 
_pdbx_entity_branch_link.entity_id                   3 
_pdbx_entity_branch_link.entity_branch_list_num_1    2 
_pdbx_entity_branch_link.entity_branch_list_num_2    1 
_pdbx_entity_branch_link.comp_id_1                   GLC 
_pdbx_entity_branch_link.comp_id_2                   GLC 
_pdbx_entity_branch_link.atom_id_1                   C1 
_pdbx_entity_branch_link.leaving_atom_id_1           O1 
_pdbx_entity_branch_link.atom_stereo_config_1        . 
_pdbx_entity_branch_link.atom_id_2                   O4 
_pdbx_entity_branch_link.leaving_atom_id_2           HO4 
_pdbx_entity_branch_link.atom_stereo_config_2        . 
_pdbx_entity_branch_link.value_order                 sing 
#
loop_
_pdbx_branch_scheme.entity_id
_pdbx_branch_scheme.hetero
_pdbx_branch_scheme.asym_id
_pdbx_branch_scheme.mon_id
_pdbx_branch_scheme.num
_pdbx_branch_scheme.pdb_asym_id
_pdbx_branch_scheme.pdb_seq_num
_pdbx_branch_scheme.pdb_mon_id
_pdbx_branch_scheme.auth_asym_id
_pdbx_branch_scheme.auth_seq_num
_pdbx_branch_scheme.auth_mon_id
3 n C GLC 1 C 1 GLC A 501 MAL 
3 n C GLC 2 C 2 GLC A 501 MAL 
#
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 25 A CYS 25 1_555 A SG CYS 98 A CYS 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
covale ? covale1 C O4 GLC . C GLC 1 1_555 C C1 GLC . C GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.416 sing 
#
_chem_comp.formula           'C24 H46 O11' 
_chem_comp.formula_weight    510.615 
_chem_comp.id                LMT 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              DODECYL-BETA-D-MALTOSIDE 
_chem_comp.type              d-saccharide 
_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
C1B C2B LMT sing 218 n n 
C1B O1B LMT sing 219 n n 
C1B O5B LMT sing 220 n n 
C1B H1B LMT sing 221 n n 
C2B C3B LMT sing 222 n n 
C2B O2B LMT sing 223 n n 
C2B H2B LMT sing 224 n n 
C3B C4B LMT sing 225 n n 
C3B O3B LMT sing 226 n n 
C3B H3B LMT sing 227 n n 
C4B C5B LMT sing 228 n n 
C4B O4' LMT sing 229 n n 
C4B H4B LMT sing 230 n n 
C5B C6B LMT sing 231 n n 
C5B O5B LMT sing 232 n n 
C5B H5B LMT sing 233 n n 
C6B O6B LMT sing 234 n n 
C6B "H6'2" LMT sing 235 n n 
C6B "H6'1" LMT sing 236 n n 
O1B C4' LMT sing 237 n n 
O2B H2O1 LMT sing 238 n n 
O3B H3O1 LMT sing 239 n n 
O4' H4O1 LMT sing 240 n n 
O6B H6B LMT sing 241 n n 
C1' C2' LMT sing 242 n n 
C1' O1' LMT sing 243 n n 
C1' O5' LMT sing 244 n n 
C1' H1' LMT sing 245 n n 
C2' C3' LMT sing 246 n n 
C2' O2' LMT sing 247 n n 
C2' H2' LMT sing 248 n n 
C3' C4' LMT sing 249 n n 
C3' O3' LMT sing 250 n n 
C3' H3' LMT sing 251 n n 
C4' C5' LMT sing 252 n n 
C4' H4' LMT sing 253 n n 
C5' C6' LMT sing 254 n n 
C5' O5' LMT sing 255 n n 
C5' H5' LMT sing 256 n n 
C6' O6' LMT sing 257 n n 
C6' H6D LMT sing 258 n n 
C6' H6E LMT sing 259 n n 
O1' C1 LMT sing 260 n n 
O2' H2O2 LMT sing 261 n n 
O3' H3O2 LMT sing 262 n n 
O6' H6' LMT sing 263 n n 
C1 C2 LMT sing 264 n n 
C1 H12 LMT sing 265 n n 
C1 H11 LMT sing 266 n n 
C2 C3 LMT sing 267 n n 
C2 H22 LMT sing 268 n n 
C2 H21 LMT sing 269 n n 
C3 C4 LMT sing 270 n n 
C3 H32 LMT sing 271 n n 
C3 H31 LMT sing 272 n n 
C4 C5 LMT sing 273 n n 
C4 H42 LMT sing 274 n n 
C4 H41 LMT sing 275 n n 
C5 C6 LMT sing 276 n n 
C5 H52 LMT sing 277 n n 
C5 H51 LMT sing 278 n n 
C6 C7 LMT sing 279 n n 
C6 H62 LMT sing 280 n n 
C6 H61 LMT sing 281 n n 
C7 C8 LMT sing 282 n n 
C7 H72 LMT sing 283 n n 
C7 H71 LMT sing 284 n n 
C8 C9 LMT sing 285 n n 
C8 H82 LMT sing 286 n n 
C8 H81 LMT sing 287 n n 
C9 C10 LMT sing 288 n n 
C9 H92 LMT sing 289 n n 
C9 H91 LMT sing 290 n n 
C10 C11 LMT sing 291 n n 
C10 H102 LMT sing 292 n n 
C10 H101 LMT sing 293 n n 
C11 C12 LMT sing 294 n n 
C11 H112 LMT sing 295 n n 
C11 H111 LMT sing 296 n n 
C12 H123 LMT sing 297 n n 
C12 H122 LMT sing 298 n n 
C12 H121 LMT sing 299 n n 
#
_atom_sites.entry_id                     6HDB 
_atom_sites.fract_transf_matrix[1][1]    0.00758 
_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]    0.00758 
_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]    0.007531 
_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
D 4 LMT B 1 501 501 LMT LMT . 
E 5 K B 1 502 1 K K . 
F 5 K B 1 503 2 K K . 
G 6 ZN B 1 504 1 ZN ZN . 
H 7 HOH A 1 601 16 HOH HOH . 
H 7 HOH A 2 602 17 HOH HOH . 
H 7 HOH A 3 603 13 HOH HOH . 
H 7 HOH A 4 604 1 HOH HOH . 
H 7 HOH A 5 605 4 HOH HOH . 
H 7 HOH A 6 606 15 HOH HOH . 
H 7 HOH A 7 607 26 HOH HOH . 
H 7 HOH A 8 608 2 HOH HOH . 
H 7 HOH A 9 609 8 HOH HOH . 
H 7 HOH A 10 610 6 HOH HOH . 
H 7 HOH A 11 611 19 HOH HOH . 
H 7 HOH A 12 612 7 HOH HOH . 
H 7 HOH A 13 613 27 HOH HOH . 
I 7 HOH B 1 601 21 HOH HOH . 
I 7 HOH B 2 602 12 HOH HOH . 
I 7 HOH B 3 603 22 HOH HOH . 
I 7 HOH B 4 604 14 HOH HOH . 
I 7 HOH B 5 605 5 HOH HOH . 
I 7 HOH B 6 606 3 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 C1B LMT . . . D 4 6.813 -54.077 88.915 1 143.41 ? C1B LMT 501 B 1 
HETATM 2 C C2B LMT . . . D 4 6.917 -55.638 89.199 1 146.07 ? C2B LMT 501 B 1 
HETATM 3 C C3B LMT . . . D 4 6.017 -56.538 88.261 1 147.41 ? C3B LMT 501 B 1 
HETATM 4 C C4B LMT . . . D 4 4.7 -55.821 87.774 1 146.97 ? C4B LMT 501 B 1 
HETATM 5 C C5B LMT . . . D 4 4.992 -54.347 87.316 1 147.24 ? C5B LMT 501 B 1 
HETATM 6 C C6B LMT . . . D 4 3.677 -53.516 87.066 1 149.94 ? C6B LMT 501 B 1 
HETATM 7 O O1B LMT . . . D 4 7.797 -53.77 87.962 1 140.27 ? O1B LMT 501 B 1 
HETATM 8 O O2B LMT . . . D 4 8.227 -56.149 89.004 1 145.32 ? O2B LMT 501 B 1 
HETATM 9 O O3B LMT . . . D 4 5.506 -57.624 89.014 1 147.17 ? O3B LMT 501 B 1 
HETATM 10 O O4' LMT . . . D 4 4.253 -56.485 86.628 1 145.87 ? O4' LMT 501 B 1 
HETATM 11 O O5B LMT . . . D 4 5.586 -53.638 88.398 1 145.09 ? O5B LMT 501 B 1 
HETATM 12 O O6B LMT . . . D 4 2.821 -54.238 86.224 1 151.02 ? O6B LMT 501 B 1 
HETATM 13 C C1' LMT . . . D 4 10.722 -51.21 86.862 1 144.14 ? C1' LMT 501 B 1 
HETATM 14 C C2' LMT . . . D 4 11.134 -52.151 88.046 1 144.13 ? C2' LMT 501 B 1 
HETATM 15 C C3' LMT . . . D 4 10.135 -53.35 87.956 1 142.54 ? C3' LMT 501 B 1 
HETATM 16 C C4' LMT . . . D 4 8.716 -52.76 88.263 1 140.68 ? C4' LMT 501 B 1 
HETATM 17 C C5' LMT . . . D 4 8.423 -51.6 87.228 1 141.35 ? C5' LMT 501 B 1 
HETATM 18 C C6' LMT . . . D 4 7.213 -50.706 87.622 1 140.97 ? C6' LMT 501 B 1 
HETATM 19 O O1' LMT . . . D 4 11.642 -50.142 86.791 1 144.84 ? O1' LMT 501 B 1 
HETATM 20 O O2' LMT . . . D 4 12.413 -52.649 87.871 1 144.3 ? O2' LMT 501 B 1 
HETATM 21 O O3' LMT . . . D 4 10.396 -54.344 88.913 1 142.16 ? O3' LMT 501 B 1 
HETATM 22 O O5' LMT . . . D 4 9.484 -50.66 87.244 1 142.68 ? O5' LMT 501 B 1 
HETATM 23 O O6' LMT . . . D 4 6.073 -51.311 87.107 1 140.08 ? O6' LMT 501 B 1 
HETATM 24 C C1 LMT . . . D 4 11.422 -49.244 85.703 1 143.72 ? C1 LMT 501 B 1 
HETATM 25 C C2 LMT . . . D 4 12.531 -48.149 85.727 1 141.61 ? C2 LMT 501 B 1 
HETATM 26 C C3 LMT . . . D 4 12.132 -47.104 84.664 1 140.55 ? C3 LMT 501 B 1 
HETATM 27 C C4 LMT . . . D 4 12.953 -45.819 84.684 1 138.79 ? C4 LMT 501 B 1 
HETATM 28 C C5 LMT . . . D 4 12.502 -44.934 83.505 1 138.18 ? C5 LMT 501 B 1 
HETATM 29 C C6 LMT . . . D 4 13.5 -43.764 83.208 1 136.93 ? C6 LMT 501 B 1 
HETATM 30 C C7 LMT . . . D 4 14.641 -44.181 82.26 1 134.83 ? C7 LMT 501 B 1 
HETATM 31 H H1B LMT . . . D 4 6.859 -53.52 89.849 1 143.31 ? H1B LMT 501 B 1 
HETATM 32 H H2B LMT . . . D 4 6.631 -55.807 90.236 1 146.3 ? H2B LMT 501 B 1 
HETATM 33 H H3B LMT . . . D 4 6.591 -56.886 87.403 1 147.47 ? H3B LMT 501 B 1 
HETATM 34 H H4B LMT . . . D 4 3.942 -55.839 88.556 1 147.18 ? H4B LMT 501 B 1 
HETATM 35 H H5B LMT . . . D 4 5.618 -54.333 86.424 1 147.13 ? H5B LMT 501 B 1 
HETATM 36 H "H6'2" LMT . . . D 4 3.906 -52.597 86.529 1 150.13 ? "H6'2" LMT 501 B 1 
HETATM 37 H "H6'1" LMT . . . D 4 3.214 -53.215 88.005 1 150.12 ? "H6'1" LMT 501 B 1 
HETATM 38 H H2O1 LMT . . . D 4 8.888 -55.519 89.395 1 145.43 ? H2O1 LMT 501 B 1 
HETATM 39 H H3O1 LMT . . . D 4 6.234 -58.293 89.112 1 147.35 ? H3O1 LMT 501 B 1 
HETATM 40 H H4O1 LMT . . . D 4 4.398 -57.46 86.754 1 145.91 ? H4O1 LMT 501 B 1 
HETATM 41 H H6B LMT . . . D 4 1.929 -53.8 86.256 1 151.06 ? H6B LMT 501 B 1 
HETATM 42 H H1' LMT . . . D 4 10.646 -51.753 85.922 1 144.41 ? H1' LMT 501 B 1 
HETATM 43 H H2' LMT . . . D 4 11.03 -51.639 89.001 1 144.47 ? H2' LMT 501 B 1 
HETATM 44 H H3' LMT . . . D 4 10.13 -53.778 86.955 1 142.82 ? H3' LMT 501 B 1 
HETATM 45 H H4' LMT . . . D 4 8.672 -52.384 89.283 1 140.81 ? H4' LMT 501 B 1 
HETATM 46 H H5' LMT . . . D 4 8.258 -52.018 86.237 1 141.26 ? H5' LMT 501 B 1 
HETATM 47 H H6D LMT . . . D 4 7.318 -49.727 87.156 1 140.95 ? H6D LMT 501 B 1 
HETATM 48 H H6E LMT . . . D 4 7.177 -50.527 88.695 1 141 ? H6E LMT 501 B 1 
HETATM 49 H H2O2 LMT . . . D 4 13.018 -51.862 87.882 1 144.33 ? H2O2 LMT 501 B 1 
HETATM 50 H H3O2 LMT . . . D 4 11.026 -55 88.515 1 141.91 ? H3O2 LMT 501 B 1 
HETATM 51 H H6' LMT . . . D 4 5.482 -51.501 87.882 1 140.1 ? H6' LMT 501 B 1 
HETATM 52 H H12 LMT . . . D 4 10.441 -48.78 85.792 1 143.58 ? H12 LMT 501 B 1 
HETATM 53 H H11 LMT . . . D 4 11.437 -49.782 84.757 1 143.91 ? H11 LMT 501 B 1 
HETATM 54 H H22 LMT . . . D 4 13.51 -48.576 85.515 1 141.34 ? H22 LMT 501 B 1 
HETATM 55 H H21 LMT . . . D 4 12.614 -47.697 86.714 1 141.6 ? H21 LMT 501 B 1 
HETATM 56 H H32 LMT . . . D 4 11.085 -46.832 84.785 1 140.85 ? H32 LMT 501 B 1 
HETATM 57 H H31 LMT . . . D 4 12.195 -47.567 83.681 1 140.83 ? H31 LMT 501 B 1 
HETATM 58 H H42 LMT . . . D 4 14.02 -46.031 84.647 1 138.92 ? H42 LMT 501 B 1 
HETATM 59 H H41 LMT . . . D 4 12.801 -45.29 85.624 1 138.86 ? H41 LMT 501 B 1 
HETATM 60 H H52 LMT . . . D 4 11.515 -44.528 83.723 1 138.09 ? H52 LMT 501 B 1 
HETATM 61 H H51 LMT . . . D 4 12.343 -45.542 82.616 1 137.98 ? H51 LMT 501 B 1 
HETATM 62 H H62 LMT . . . D 4 13.918 -43.39 84.142 1 137.09 ? H62 LMT 501 B 1 
HETATM 63 H H61 LMT . . . D 4 12.963 -42.918 82.781 1 136.82 ? H61 LMT 501 B 1 
#
_model_server_stats.io_time_ms              22 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    7 
_model_server_stats.query_time_ms           246 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           63 
#