data_9R4P # _model_server_result.job_id 6CH8bIgm_GoIJDYEHfoY7g _model_server_result.datetime_utc '2025-07-27 10:18:30' _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 9r4p # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":501}' # _entry.id 9R4P # _exptl.entry_id 9R4P _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 180.156 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description alpha-D-mannopyranose _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 120 _cell.entry_id 9R4P _cell.length_a 107.09 _cell.length_b 107.09 _cell.length_c 127.267 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9R4P _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall 'P 31 2"' _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 C N N ? 3 D N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _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 MAN _pdbx_entity_branch_link.comp_id_2 MAN _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 O6 _pdbx_entity_branch_link.leaving_atom_id_2 HO6 _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 2 n B MAN 1 B 1 MAN A 551 MAN 2 n B MAN 2 B 2 MAN A 550 MAN # 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 204 A CYS 204 1_555 A SG CYS 279 A CYS 279 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? disulf ? disulf2 A SG CYS 339 A CYS 339 1_555 A SG CYS 345 A CYS 345 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? covale ? covale1 B O6 MAN . B MAN 1 1_555 B C1 MAN . B MAN 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? # _chem_comp.formula 'C6 H12 O6' _chem_comp.formula_weight 180.156 _chem_comp.id MAN _chem_comp.mon_nstd_flag . _chem_comp.name alpha-D-mannopyranose _chem_comp.type 'd-saccharide, alpha linking' _chem_comp.pdbx_synonyms alpha-D-mannose;D-mannose;mannose # 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 MAN sing 218 n n C1 O1 MAN sing 219 n n C1 O5 MAN sing 220 n n C1 H1 MAN sing 221 n n C2 C3 MAN sing 222 n n C2 O2 MAN sing 223 n n C2 H2 MAN sing 224 n n C3 C4 MAN sing 225 n n C3 O3 MAN sing 226 n n C3 H3 MAN sing 227 n n C4 C5 MAN sing 228 n n C4 O4 MAN sing 229 n n C4 H4 MAN sing 230 n n C5 C6 MAN sing 231 n n C5 O5 MAN sing 232 n n C5 H5 MAN sing 233 n n C6 O6 MAN sing 234 n n C6 H61 MAN sing 235 n n C6 H62 MAN sing 236 n n O1 HO1 MAN sing 237 n n O2 HO2 MAN sing 238 n n O3 HO3 MAN sing 239 n n O4 HO4 MAN sing 240 n n O6 HO6 MAN sing 241 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 MAN DManpa 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 MAN a-D-mannopyranose 'COMMON NAME' GMML 1 MAN a-D-Manp 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 MAN Man 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 9R4P _atom_sites.fract_transf_matrix[1][1] 0.009338 _atom_sites.fract_transf_matrix[1][2] 0.005391 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010783 _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] 0.007857 _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 MAN A 1 501 552 MAN MAN . D 3 MAN A 1 502 553 MAN MAN . E 4 HOH A 1 601 10 HOH HOH . E 4 HOH A 2 602 12 HOH HOH . E 4 HOH A 3 603 11 HOH HOH . E 4 HOH A 4 604 3 HOH HOH . E 4 HOH A 5 605 20 HOH HOH . E 4 HOH A 6 606 32 HOH HOH . E 4 HOH A 7 607 1 HOH HOH . E 4 HOH A 8 608 29 HOH HOH . E 4 HOH A 9 609 4 HOH HOH . E 4 HOH A 10 610 33 HOH HOH . E 4 HOH A 11 611 8 HOH HOH . E 4 HOH A 12 612 16 HOH HOH . E 4 HOH A 13 613 5 HOH HOH . E 4 HOH A 14 614 6 HOH HOH . E 4 HOH A 15 615 17 HOH HOH . E 4 HOH A 16 616 14 HOH HOH . E 4 HOH A 17 617 7 HOH HOH . E 4 HOH A 18 618 9 HOH HOH . E 4 HOH A 19 619 2 HOH HOH . E 4 HOH A 20 620 30 HOH HOH . E 4 HOH A 21 621 26 HOH HOH . E 4 HOH A 22 622 22 HOH HOH . E 4 HOH A 23 623 13 HOH HOH . E 4 HOH A 24 624 18 HOH HOH . E 4 HOH A 25 625 19 HOH HOH . E 4 HOH A 26 626 36 HOH HOH . E 4 HOH A 27 627 34 HOH HOH . E 4 HOH A 28 628 28 HOH HOH . E 4 HOH A 29 629 24 HOH HOH . E 4 HOH A 30 630 15 HOH HOH . E 4 HOH A 31 631 21 HOH HOH . E 4 HOH A 32 632 27 HOH HOH . E 4 HOH A 33 633 35 HOH HOH . E 4 HOH A 34 634 31 HOH HOH . E 4 HOH A 35 635 25 HOH HOH . E 4 HOH A 36 636 23 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 MAN . . . C 3 0.716 46.979 14.835 0.89 96.01 ? C1 MAN 501 A 1 HETATM 2 C C2 MAN . . . C 3 -0.666 47.643 15.099 0.89 97.66 ? C2 MAN 501 A 1 HETATM 3 C C3 MAN . . . C 3 -0.515 49.131 15.525 0.89 98.65 ? C3 MAN 501 A 1 HETATM 4 C C4 MAN . . . C 3 0.839 49.392 16.202 0.89 97.39 ? C4 MAN 501 A 1 HETATM 5 C C5 MAN . . . C 3 2.007 49.06 15.224 0.89 91.33 ? C5 MAN 501 A 1 HETATM 6 C C6 MAN . . . C 3 3.33 48.809 15.923 0.89 85.07 ? C6 MAN 501 A 1 HETATM 7 O O1 MAN . . . C 3 0.476 45.911 13.923 0.89 85.38 ? O1 MAN 501 A 1 HETATM 8 O O2 MAN . . . C 3 -1.37 46.984 16.164 0.89 106.47 ? O2 MAN 501 A 1 HETATM 9 O O3 MAN . . . C 3 -1.585 49.573 16.385 0.89 97.25 ? O3 MAN 501 A 1 HETATM 10 O O4 MAN . . . C 3 0.908 50.767 16.617 0.89 93.52 ? O4 MAN 501 A 1 HETATM 11 O O5 MAN . . . C 3 1.715 47.887 14.382 0.89 94.64 ? O5 MAN 501 A 1 HETATM 12 O O6 MAN . . . C 3 3.686 50.005 16.626 0.89 85.84 ? O6 MAN 501 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 263 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 12 #