data_3VZF # _model_server_result.job_id GVuZO8UYeAQQzDO5rhmHlA _model_server_result.datetime_utc '2025-07-13 16:49:43' _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 3vzf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 3VZF # _exptl.entry_id 3VZF _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 194.182 _entity.id 2 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 'methyl alpha-D-mannopyranoside' _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 3VZF _cell.length_a 58.192 _cell.length_b 73.045 _cell.length_c 30.46 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3VZF _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C7 H14 O6' _chem_comp.formula_weight 194.182 _chem_comp.id MMA _chem_comp.mon_nstd_flag n _chem_comp.name 'methyl alpha-D-mannopyranoside' _chem_comp.type d-saccharide _chem_comp.pdbx_synonyms 'O1-METHYL-MANNOSE;methyl alpha-D-mannoside;methyl D-mannoside;methyl mannoside' # 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 MMA sing 205 n n C1 O1 MMA sing 206 n n C1 O5 MMA sing 207 n n C1 H1 MMA sing 208 n n C2 C3 MMA sing 209 n n C2 O2 MMA sing 210 n n C2 H2 MMA sing 211 n n C3 C4 MMA sing 212 n n C3 O3 MMA sing 213 n n C3 H3 MMA sing 214 n n C4 C5 MMA sing 215 n n C4 O4 MMA sing 216 n n C4 H4 MMA sing 217 n n C5 C6 MMA sing 218 n n C5 O5 MMA sing 219 n n C5 H5 MMA sing 220 n n C6 O6 MMA sing 221 n n C6 H61 MMA sing 222 n n C6 H62 MMA sing 223 n n C7 O1 MMA sing 224 n n C7 H71 MMA sing 225 n n C7 H72 MMA sing 226 n n C7 H73 MMA sing 227 n n O2 HO2 MMA sing 228 n n O3 HO3 MMA sing 229 n n O4 HO4 MMA sing 230 n n O6 HO6 MMA sing 231 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 MMA DManp[1Me]a 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 MMA 1-methyl-a-D-mannopyranose 'COMMON NAME' GMML 1 MMA o1-methyl-mannose 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 # _atom_sites.entry_id 3VZF _atom_sites.fract_transf_matrix[1][1] 0.017184 _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] 0.01369 _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] 0.03283 _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 MMA A 1 201 509 MMA MMA . C 3 CL A 1 202 8 CL CL . D 3 CL A 1 203 9 CL CL . E 4 HOH A 1 301 2 HOH HOH . E 4 HOH A 2 302 3 HOH HOH . E 4 HOH A 3 303 4 HOH HOH . E 4 HOH A 4 304 5 HOH HOH . E 4 HOH A 5 305 10 HOH HOH . E 4 HOH A 6 306 12 HOH HOH . E 4 HOH A 7 307 14 HOH HOH . E 4 HOH A 8 308 16 HOH HOH . E 4 HOH A 9 309 17 HOH HOH . E 4 HOH A 10 310 19 HOH HOH . E 4 HOH A 11 311 21 HOH HOH . E 4 HOH A 12 312 22 HOH HOH . E 4 HOH A 13 313 23 HOH HOH . E 4 HOH A 14 314 24 HOH HOH . E 4 HOH A 15 315 26 HOH HOH . E 4 HOH A 16 316 27 HOH HOH . E 4 HOH A 17 317 28 HOH HOH . E 4 HOH A 18 318 29 HOH HOH . E 4 HOH A 19 319 30 HOH HOH . E 4 HOH A 20 320 31 HOH HOH . E 4 HOH A 21 321 32 HOH HOH . E 4 HOH A 22 322 33 HOH HOH . E 4 HOH A 23 323 34 HOH HOH . E 4 HOH A 24 324 35 HOH HOH . E 4 HOH A 25 325 36 HOH HOH . E 4 HOH A 26 326 37 HOH HOH . E 4 HOH A 27 327 38 HOH HOH . E 4 HOH A 28 328 39 HOH HOH . E 4 HOH A 29 329 40 HOH HOH . E 4 HOH A 30 330 41 HOH HOH . E 4 HOH A 31 331 42 HOH HOH . E 4 HOH A 32 332 43 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 MMA . . . B 2 -7.141 2.208 9.988 1 36.52 ? C1 MMA 201 A 1 HETATM 2 C C2 MMA . . . B 2 -7.511 2.659 11.397 1 36.37 ? C2 MMA 201 A 1 HETATM 3 C C3 MMA . . . B 2 -9.014 2.527 11.633 1 36.11 ? C3 MMA 201 A 1 HETATM 4 C C4 MMA . . . B 2 -9.81 3.197 10.512 1 36.08 ? C4 MMA 201 A 1 HETATM 5 C C5 MMA . . . B 2 -9.306 2.747 9.131 1 36.36 ? C5 MMA 201 A 1 HETATM 6 C C6 MMA . . . B 2 -10.025 3.494 8.007 1 36.45 ? C6 MMA 201 A 1 HETATM 7 C C7 MMA . . . B 2 -6.487 0.157 8.996 1 36.98 ? C7 MMA 201 A 1 HETATM 8 O O1 MMA . . . B 2 -7.436 0.814 9.836 1 36.61 ? O1 MMA 201 A 1 HETATM 9 O O2 MMA . . . B 2 -7.115 4.025 11.577 1 36.54 ? O2 MMA 201 A 1 HETATM 10 O O3 MMA . . . B 2 -9.358 3.122 12.888 1 35.94 ? O3 MMA 201 A 1 HETATM 11 O O4 MMA . . . B 2 -11.194 2.859 10.649 1 35.94 ? O4 MMA 201 A 1 HETATM 12 O O5 MMA . . . B 2 -7.889 2.973 9.028 1 36.39 ? O5 MMA 201 A 1 HETATM 13 O O6 MMA . . . B 2 -9.727 4.893 8.089 1 36.36 ? O6 MMA 201 A 1 # _model_server_stats.io_time_ms 59 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 325 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 13 #