data_3C59
#
_model_server_result.job_id            gECfM6eRQXipC3cWw3_dJg 
_model_server_result.datetime_utc      '2025-04-28 06:28:58' 
_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          3c59 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":1}' 
#
_entry.id    3C59 
#
_exptl.entry_id    3C59 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              498.628 
_entity.id                          3 
_entity.src_method                  man 
_entity.type                        non-polymer 
_entity.pdbx_description            'decyl 4-O-alpha-D-glucopyranosyl-1-thio-beta-D-glucopyranoside' 
_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            3C59 
_cell.length_a            75.85 
_cell.length_b            75.85 
_cell.length_c            87.55 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3C59 
_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 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_struct_asym.id                             C 
_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
disulf ? disulf1 A SG CYS 23 A CYS 46 1_555 A SG CYS 48 A CYS 71 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.167 ? 
disulf ? disulf2 A SG CYS 39 A CYS 62 1_555 A SG CYS 81 A CYS 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? 
disulf ? disulf3 A SG CYS 62 A CYS 85 1_555 A SG CYS 103 A CYS 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
covale ? covale1 B C GLN 5 B GLN 13 1_555 B N MSE 6 B MSE 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.339 ? 
covale ? covale2 B C MSE 6 B MSE 14 1_555 B N GLU 7 B GLU 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale3 B C ARG 12 B ARG 20 1_555 B N MSE 13 B MSE 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.348 ? 
covale ? covale4 B C MSE 13 B MSE 21 1_555 B N PHE 14 B PHE 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
#
_chem_comp.formula           'C22 H42 O10 S' 
_chem_comp.formula_weight    498.628 
_chem_comp.id                10M 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'decyl 4-O-alpha-D-glucopyranosyl-1-thio-beta-D-glucopyranoside' 
_chem_comp.type              d-saccharide 
_chem_comp.pdbx_synonyms     '(2R,3R,4S,5S,6R)-2-((2R,3S,4R,5R,6S)-6-Decylsulfanyl-4,5-dihydroxy-2-hydroxymethyl-tetrahydro-pyran-3-yloxy)-6-hydroxymethyl-tetrahydro-pyran-3,4,5-triol, n-Decyl-beta-D-thiomaltoside' 
#
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
O10 C22 10M sing 1 n n 
C22 C21 10M sing 2 n n 
C22 C11 10M sing 3 n n 
C21 O9 10M sing 4 n n 
C21 C14 10M sing 5 n n 
C14 O3 10M sing 6 n n 
C14 C12 10M sing 7 n n 
O3 C15 10M sing 8 n n 
C15 C20 10M sing 9 n n 
C15 O4 10M sing 10 n n 
C20 O8 10M sing 11 n n 
C20 C19 10M sing 12 n n 
C19 O7 10M sing 13 n n 
C19 C18 10M sing 14 n n 
C18 O6 10M sing 15 n n 
C18 C16 10M sing 16 n n 
C16 C17 10M sing 17 n n 
C16 O4 10M sing 18 n n 
C17 O5 10M sing 19 n n 
C12 C13 10M sing 20 n n 
C12 O1 10M sing 21 n n 
C13 O2 10M sing 22 n n 
O1 C11 10M sing 23 n n 
C11 S 10M sing 24 n n 
S C10 10M sing 25 n n 
C10 C9 10M sing 26 n n 
C9 C8 10M sing 27 n n 
C8 C7 10M sing 28 n n 
C7 C6 10M sing 29 n n 
C6 C5 10M sing 30 n n 
C5 C4 10M sing 31 n n 
C4 C3 10M sing 32 n n 
C3 C2 10M sing 33 n n 
C2 C1 10M sing 34 n n 
O10 HO10 10M sing 35 n n 
C22 H22 10M sing 36 n n 
C21 H21 10M sing 37 n n 
O9 HO9 10M sing 38 n n 
C14 H14 10M sing 39 n n 
C15 H15 10M sing 40 n n 
C20 H20 10M sing 41 n n 
O8 HO8 10M sing 42 n n 
C19 H19 10M sing 43 n n 
O7 HO7 10M sing 44 n n 
C18 H18 10M sing 45 n n 
O6 HO6 10M sing 46 n n 
C16 H16 10M sing 47 n n 
C17 H17 10M sing 48 n n 
C17 H17A 10M sing 49 n n 
O5 HO5 10M sing 50 n n 
C12 H12 10M sing 51 n n 
C13 H13 10M sing 52 n n 
C13 H13A 10M sing 53 n n 
O2 HO2 10M sing 54 n n 
C11 H11 10M sing 55 n n 
C10 H10 10M sing 56 n n 
C10 H10A 10M sing 57 n n 
C9 H9 10M sing 58 n n 
C9 H9A 10M sing 59 n n 
C8 H8 10M sing 60 n n 
C8 H8A 10M sing 61 n n 
C7 H7 10M sing 62 n n 
C7 H7A 10M sing 63 n n 
C6 H6 10M sing 64 n n 
C6 H6A 10M sing 65 n n 
C5 H5 10M sing 66 n n 
C5 H5A 10M sing 67 n n 
C4 H4 10M sing 68 n n 
C4 H4A 10M sing 69 n n 
C3 H3 10M sing 70 n n 
C3 H3A 10M sing 71 n n 
C2 H2 10M sing 72 n n 
C2 H2A 10M sing 73 n n 
C1 H1 10M sing 74 n n 
C1 H1A 10M sing 75 n n 
C1 H1B 10M sing 76 n n 
#
_atom_sites.entry_id                     3C59 
_atom_sites.fract_transf_matrix[1][1]    0.013184 
_atom_sites.fract_transf_matrix[1][2]    0.007612 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.015223 
_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]    0.011422 
_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 3 10M A 1 1 1 10M 10M . 
D 4 HOH A 1 146 1 HOH HOH . 
D 4 HOH A 2 147 2 HOH HOH . 
D 4 HOH A 3 148 3 HOH HOH . 
D 4 HOH A 4 149 4 HOH HOH . 
D 4 HOH A 5 150 6 HOH HOH . 
D 4 HOH A 6 151 7 HOH HOH . 
D 4 HOH A 7 152 9 HOH HOH . 
D 4 HOH A 8 153 10 HOH HOH . 
D 4 HOH A 9 154 11 HOH HOH . 
D 4 HOH A 10 155 12 HOH HOH . 
D 4 HOH A 11 156 13 HOH HOH . 
D 4 HOH A 12 157 14 HOH HOH . 
D 4 HOH A 13 158 16 HOH HOH . 
D 4 HOH A 14 159 17 HOH HOH . 
D 4 HOH A 15 160 18 HOH HOH . 
D 4 HOH A 16 161 20 HOH HOH . 
D 4 HOH A 17 162 21 HOH HOH . 
D 4 HOH A 18 163 22 HOH HOH . 
D 4 HOH A 19 164 23 HOH HOH . 
D 4 HOH A 20 165 24 HOH HOH . 
D 4 HOH A 21 166 25 HOH HOH . 
D 4 HOH A 22 167 26 HOH HOH . 
D 4 HOH A 23 168 27 HOH HOH . 
D 4 HOH A 24 169 28 HOH HOH . 
D 4 HOH A 25 170 29 HOH HOH . 
D 4 HOH A 26 171 30 HOH HOH . 
D 4 HOH A 27 172 31 HOH HOH . 
D 4 HOH A 28 173 32 HOH HOH . 
D 4 HOH A 29 174 33 HOH HOH . 
D 4 HOH A 30 175 34 HOH HOH . 
D 4 HOH A 31 176 35 HOH HOH . 
D 4 HOH A 32 177 37 HOH HOH . 
D 4 HOH A 33 178 38 HOH HOH . 
D 4 HOH A 34 179 41 HOH HOH . 
D 4 HOH A 35 180 42 HOH HOH . 
D 4 HOH A 36 181 44 HOH HOH . 
D 4 HOH A 37 182 45 HOH HOH . 
D 4 HOH A 38 183 46 HOH HOH . 
D 4 HOH A 39 184 47 HOH HOH . 
D 4 HOH A 40 185 48 HOH HOH . 
D 4 HOH A 41 186 49 HOH HOH . 
D 4 HOH A 42 187 50 HOH HOH . 
D 4 HOH A 43 188 51 HOH HOH . 
D 4 HOH A 44 189 52 HOH HOH . 
D 4 HOH A 45 190 53 HOH HOH . 
D 4 HOH A 46 191 54 HOH HOH . 
D 4 HOH A 47 192 55 HOH HOH . 
D 4 HOH A 48 193 56 HOH HOH . 
D 4 HOH A 49 194 58 HOH HOH . 
D 4 HOH A 50 195 59 HOH HOH . 
D 4 HOH A 51 196 60 HOH HOH . 
D 4 HOH A 52 197 61 HOH HOH . 
D 4 HOH A 53 198 62 HOH HOH . 
D 4 HOH A 54 199 63 HOH HOH . 
D 4 HOH A 55 200 64 HOH HOH . 
D 4 HOH A 56 201 66 HOH HOH . 
D 4 HOH A 57 202 67 HOH HOH . 
D 4 HOH A 58 203 68 HOH HOH . 
D 4 HOH A 59 204 69 HOH HOH . 
D 4 HOH A 60 205 70 HOH HOH . 
D 4 HOH A 61 206 71 HOH HOH . 
D 4 HOH A 62 207 72 HOH HOH . 
D 4 HOH A 63 208 73 HOH HOH . 
D 4 HOH A 64 209 74 HOH HOH . 
D 4 HOH A 65 210 75 HOH HOH . 
D 4 HOH A 66 211 76 HOH HOH . 
D 4 HOH A 67 212 77 HOH HOH . 
D 4 HOH A 68 213 78 HOH HOH . 
D 4 HOH A 69 214 79 HOH HOH . 
D 4 HOH A 70 215 80 HOH HOH . 
D 4 HOH A 71 216 81 HOH HOH . 
D 4 HOH A 72 217 82 HOH HOH . 
D 4 HOH A 73 218 83 HOH HOH . 
D 4 HOH A 74 219 84 HOH HOH . 
D 4 HOH A 75 220 85 HOH HOH . 
D 4 HOH A 76 221 86 HOH HOH . 
D 4 HOH A 77 222 93 HOH HOH . 
D 4 HOH A 78 223 94 HOH HOH . 
D 4 HOH A 79 224 95 HOH HOH . 
D 4 HOH A 80 225 96 HOH HOH . 
D 4 HOH A 81 226 99 HOH HOH . 
D 4 HOH A 82 227 100 HOH HOH . 
D 4 HOH A 83 228 101 HOH HOH . 
D 4 HOH A 84 229 102 HOH HOH . 
D 4 HOH A 85 230 103 HOH HOH . 
D 4 HOH A 86 231 104 HOH HOH . 
D 4 HOH A 87 232 105 HOH HOH . 
D 4 HOH A 88 233 106 HOH HOH . 
D 4 HOH A 89 234 107 HOH HOH . 
E 4 HOH B 1 40 5 HOH HOH . 
E 4 HOH B 2 41 19 HOH HOH . 
E 4 HOH B 3 42 36 HOH HOH . 
E 4 HOH B 4 43 39 HOH HOH . 
E 4 HOH B 5 44 40 HOH HOH . 
E 4 HOH B 6 45 43 HOH HOH . 
E 4 HOH B 7 46 57 HOH HOH . 
E 4 HOH B 8 47 87 HOH HOH . 
E 4 HOH B 9 48 88 HOH HOH . 
E 4 HOH B 10 49 89 HOH HOH . 
E 4 HOH B 11 50 90 HOH HOH . 
E 4 HOH B 12 51 91 HOH HOH . 
E 4 HOH B 13 52 92 HOH HOH . 
E 4 HOH B 14 53 97 HOH HOH . 
E 4 HOH B 15 54 98 HOH HOH . 
E 4 HOH B 16 55 108 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 O O10 10M . . . C 3 5.745 56.385 -2.725 1 67.65 ? O10 10M 1 A 1 
HETATM 2 C C22 10M . . . C 3 5.447 54.987 -2.751 1 67.38 ? C22 10M 1 A 1 
HETATM 3 C C21 10M . . . C 3 6.652 54.174 -3.215 1 67.93 ? C21 10M 1 A 1 
HETATM 4 O O9 10M . . . C 3 7.694 54.289 -2.254 1 67.83 ? O9 10M 1 A 1 
HETATM 5 C C14 10M . . . C 3 6.325 52.693 -3.348 1 71.33 ? C14 10M 1 A 1 
HETATM 6 O O3 10M . . . C 3 7.465 52.094 -3.969 1 77.56 ? O3 10M 1 A 1 
HETATM 7 C C15 10M . . . C 3 7.804 50.752 -3.594 1 82.65 ? C15 10M 1 A 1 
HETATM 8 C C20 10M . . . C 3 9.336 50.596 -3.68 1 85.28 ? C20 10M 1 A 1 
HETATM 9 O O8 10M . . . C 3 9.964 51.799 -3.206 1 85.77 ? O8 10M 1 A 1 
HETATM 10 C C19 10M . . . C 3 9.883 50.316 -5.093 1 86.58 ? C19 10M 1 A 1 
HETATM 11 O O7 10M . . . C 3 11.178 49.718 -4.977 1 87.33 ? O7 10M 1 A 1 
HETATM 12 C C18 10M . . . C 3 8.957 49.428 -5.943 1 87.76 ? C18 10M 1 A 1 
HETATM 13 O O6 10M . . . C 3 9.365 49.329 -7.316 1 87.54 ? O6 10M 1 A 1 
HETATM 14 C C16 10M . . . C 3 7.541 50.003 -5.853 1 87.14 ? C16 10M 1 A 1 
HETATM 15 C C17 10M . . . C 3 6.57 49.423 -6.89 1 86.9 ? C17 10M 1 A 1 
HETATM 16 O O5 10M . . . C 3 6.679 50.111 -8.155 1 83.28 ? O5 10M 1 A 1 
HETATM 17 O O4 10M . . . C 3 7.126 49.829 -4.479 1 85.19 ? O4 10M 1 A 1 
HETATM 18 C C12 10M . . . C 3 5.048 52.465 -4.177 1 69.31 ? C12 10M 1 A 1 
HETATM 19 C C13 10M . . . C 3 4.5 51.061 -3.944 1 66.89 ? C13 10M 1 A 1 
HETATM 20 O O2 10M . . . C 3 3.512 50.792 -4.928 1 64.17 ? O2 10M 1 A 1 
HETATM 21 O O1 10M . . . C 3 3.972 53.357 -3.84 1 67.44 ? O1 10M 1 A 1 
HETATM 22 C C11 10M . . . C 3 4.253 54.754 -3.675 1 66.62 ? C11 10M 1 A 1 
HETATM 23 S S 10M . . . C 3 2.844 55.511 -2.959 1 60.26 ? S 10M 1 A 1 
HETATM 24 C C10 10M . . . C 3 1.477 55.51 -4.09 1 67.15 ? C10 10M 1 A 1 
HETATM 25 C C9 10M . . . C 3 1.852 56.073 -5.459 1 70.91 ? C9 10M 1 A 1 
HETATM 26 C C8 10M . . . C 3 1.002 57.296 -5.785 1 73.77 ? C8 10M 1 A 1 
HETATM 27 C C7 10M . . . C 3 1.567 58.063 -6.982 1 76.77 ? C7 10M 1 A 1 
HETATM 28 C C6 10M . . . C 3 0.565 58.163 -8.13 1 80.2 ? C6 10M 1 A 1 
HETATM 29 C C5 10M . . . C 3 -0.568 59.155 -7.851 1 83.36 ? C5 10M 1 A 1 
HETATM 30 C C4 10M . . . C 3 -1.938 58.604 -8.256 1 85.1 ? C4 10M 1 A 1 
HETATM 31 C C3 10M . . . C 3 -2.89 59.738 -8.637 1 86.59 ? C3 10M 1 A 1 
HETATM 32 C C2 10M . . . C 3 -4.248 59.206 -9.087 1 87.39 ? C2 10M 1 A 1 
HETATM 33 C C1 10M . . . C 3 -5.356 60.11 -8.575 1 88.52 ? C1 10M 1 A 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           274 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           33 
#