data_2Y5Y # _model_server_result.job_id vCTg5KBA7TtqZkbHnuk8oQ _model_server_result.datetime_utc '2024-11-04 22:51:51' _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 2y5y # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":701}' # _entry.id 2Y5Y # _exptl.entry_id 2Y5Y _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 240.274 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '2-sulfanylethyl beta-D-galactopyranoside' _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 90 _cell.angle_gamma 90 _cell.entry_id 2Y5Y _cell.length_a 102.56 _cell.length_b 127.84 _cell.length_c 189.87 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2Y5Y _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _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 # _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 ? 3 D N N ? 3 F N 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 SG CYS 122 A CYS 122 1_555 D S15 TGA . A TGA 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? covale ? covale2 B SG CYS 122 B CYS 122 1_555 F S15 TGA . B TGA 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? metalc ? metalc1 A OE1 GLU 130 A GLU 130 1_555 C BA BA . A BA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.419 ? metalc ? metalc2 A OE2 GLU 130 A GLU 130 1_555 C BA BA . A BA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.368 ? metalc ? metalc3 A OD1 ASN 204 A ASN 204 1_555 C BA BA . A BA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.141 ? metalc ? metalc4 B OE2 GLU 130 B GLU 130 1_555 E BA BA . B BA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.368 ? metalc ? metalc5 B OE1 GLU 130 B GLU 130 1_555 E BA BA . B BA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.415 ? metalc ? metalc6 B OD1 ASN 204 B ASN 204 1_555 E BA BA . B BA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.013 ? # _chem_comp.formula 'C8 H16 O6 S' _chem_comp.formula_weight 240.274 _chem_comp.id TGA _chem_comp.mon_nstd_flag n _chem_comp.name '2-sulfanylethyl beta-D-galactopyranoside' _chem_comp.type d-saccharide _chem_comp.pdbx_synonyms 'METHANETHIOSULFONYL-GALACTOSIDE;2-sulfanylethyl beta-D-galactoside;2-sulfanylethyl D-galactoside;2-sulfanylethyl galactoside' # 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 O2 C2 TGA sing 288 n n C2 C3 TGA sing 289 n n C2 C1 TGA sing 290 n n C3 O3 TGA sing 291 n n C3 C4 TGA sing 292 n n C4 O4 TGA sing 293 n n C4 C5 TGA sing 294 n n C5 C6 TGA sing 295 n n C5 O5 TGA sing 296 n n C6 O6 TGA sing 297 n n O5 C1 TGA sing 298 n n C1 O1 TGA sing 299 n n O1 C13 TGA sing 300 n n C13 C14 TGA sing 301 n n C14 S15 TGA sing 302 n n S15 H TGA sing 303 n n O2 HO2 TGA sing 304 n n C2 H2 TGA sing 305 n n C3 H3 TGA sing 306 n n C1 H1 TGA sing 307 n n O3 HO3 TGA sing 308 n n C4 H4 TGA sing 309 n n O4 HO4 TGA sing 310 n n C5 H5 TGA sing 311 n n C6 H61 TGA sing 312 n n C6 H62 TGA sing 313 n n O6 HO6 TGA sing 314 n n C13 H131 TGA sing 315 n n C13 H132 TGA sing 316 n n C14 H141 TGA sing 317 n n C14 H142 TGA sing 318 n n # _atom_sites.entry_id 2Y5Y _atom_sites.fract_transf_matrix[1][1] 0.00975 _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] 0.007822 _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] 0.005267 _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 BA A 1 501 501 BA BA . D 3 TGA A 1 701 701 TGA TGA . E 2 BA B 1 501 501 BA BA . F 3 TGA B 1 801 801 TGA TGA . # 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 O2 TGA . . . D 3 60.533 72.945 167.107 1 191.63 ? O2 TGA 701 A 1 HETATM 2 C C2 TGA . . . D 3 60.253 74.001 166.183 1 232.12 ? C2 TGA 701 A 1 HETATM 3 C C3 TGA . . . D 3 60.314 75.338 166.939 1 134.94 ? C3 TGA 701 A 1 HETATM 4 O O3 TGA . . . D 3 61.678 75.712 167.148 1 167.89 ? O3 TGA 701 A 1 HETATM 5 C C4 TGA . . . D 3 59.591 76.452 166.185 1 253.95 ? C4 TGA 701 A 1 HETATM 6 O O4 TGA . . . D 3 60.282 76.739 164.961 1 194.06 ? O4 TGA 701 A 1 HETATM 7 C C5 TGA . . . D 3 58.166 76 165.884 1 141.14 ? C5 TGA 701 A 1 HETATM 8 C C6 TGA . . . D 3 57.238 77.124 165.409 1 144.29 ? C6 TGA 701 A 1 HETATM 9 O O6 TGA . . . D 3 57.888 77.952 164.437 1 121.78 ? O6 TGA 701 A 1 HETATM 10 O O5 TGA . . . D 3 58.225 74.905 164.957 1 125.93 ? O5 TGA 701 A 1 HETATM 11 C C1 TGA . . . D 3 58.891 73.736 165.501 1 177.22 ? C1 TGA 701 A 1 HETATM 12 O O1 TGA . . . D 3 59.098 72.823 164.402 1 227.35 ? O1 TGA 701 A 1 HETATM 13 C C13 TGA . . . D 3 57.957 71.96 164.224 1 209.02 ? C13 TGA 701 A 1 HETATM 14 C C14 TGA . . . D 3 56.912 72.611 163.308 1 242.63 ? C14 TGA 701 A 1 HETATM 15 S S15 TGA . . . D 3 56.03 71.422 162.226 1 155.03 ? S15 TGA 701 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 251 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 15 #