data_8CKL # _model_server_result.job_id SDF4CjtxECBzJqL29O6Zlg _model_server_result.datetime_utc '2024-12-27 14:11:36' _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 8ckl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":801}' # _entry.id 8CKL # _exptl.entry_id 8CKL _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 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 99.97 _cell.angle_gamma 90 _cell.entry_id 8CKL _cell.length_a 106.106 _cell.length_b 30.77 _cell.length_c 84.172 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8CKL _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall 'C 2y' _symmetry.space_group_name_H-M 'C 1 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,F,G _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 E N N ? 3 F N N ? 3 G 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 GU4 _pdbx_entity_branch_link.comp_id_2 YYJ _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 O2 _pdbx_entity_branch_link.leaving_atom_id_2 HO2 _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 C YYJ 1 H 2 YYJ H 1 YYJ 2 n C GU4 2 H 1 GU4 H 2 GU4 # 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 17 A CYS 665 1_555 A SG CYS 48 A CYS 696 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 A SG CYS 21 A CYS 669 1_555 A SG CYS 53 A CYS 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf3 A SG CYS 32 A CYS 680 1_555 A SG CYS 38 A CYS 686 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf4 A SG CYS 41 A CYS 689 1_555 B SG CYS 41 B CYS 689 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.998 ? disulf ? disulf5 A SG CYS 85 A CYS 733 1_555 B SG CYS 85 B CYS 733 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.999 ? disulf ? disulf6 B SG CYS 17 B CYS 665 1_555 B SG CYS 48 B CYS 696 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf7 B SG CYS 21 B CYS 669 1_555 B SG CYS 53 B CYS 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf8 B SG CYS 32 B CYS 680 1_555 B SG CYS 38 B CYS 686 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 A CD1 TRP 8 A TRP 656 1_555 E C1 MAN . A MAN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.492 ? covale ? covale2 A CD1 TRP 11 A TRP 659 1_555 D C1 MAN . A MAN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.491 ? covale ? covale3 B CD1 TRP 8 B TRP 656 1_555 F C1 MAN . B MAN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.491 ? covale ? covale4 B CD1 TRP 11 B TRP 659 1_555 G C1 MAN . B MAN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.491 ? covale ? covale5 C C1 GU4 . H GU4 1 1_555 C O2 YYJ . H YYJ 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? # _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 256 n n C1 O1 MAN sing 257 n n C1 O5 MAN sing 258 n n C1 H1 MAN sing 259 n n C2 C3 MAN sing 260 n n C2 O2 MAN sing 261 n n C2 H2 MAN sing 262 n n C3 C4 MAN sing 263 n n C3 O3 MAN sing 264 n n C3 H3 MAN sing 265 n n C4 C5 MAN sing 266 n n C4 O4 MAN sing 267 n n C4 H4 MAN sing 268 n n C5 C6 MAN sing 269 n n C5 O5 MAN sing 270 n n C5 H5 MAN sing 271 n n C6 O6 MAN sing 272 n n C6 H61 MAN sing 273 n n C6 H62 MAN sing 274 n n O1 HO1 MAN sing 275 n n O2 HO2 MAN sing 276 n n O3 HO3 MAN sing 277 n n O4 HO4 MAN sing 278 n n O6 HO6 MAN sing 279 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 8CKL _atom_sites.fract_transf_matrix[1][1] 0.009425 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001657 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.032499 _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] 0.012063 _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 3 MAN A 1 801 1 MAN MAN . E 3 MAN A 1 802 1 MAN MAN . F 3 MAN B 1 801 1 MAN MAN . G 3 MAN B 1 802 1 MAN MAN . # 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 . . . D 3 24.119 -23.317 5.378 1 120.46 ? C1 MAN 801 A 1 HETATM 2 C C2 MAN . . . D 3 24.36 -24.298 4.24 1 121.6 ? C2 MAN 801 A 1 HETATM 3 C C3 MAN . . . D 3 25.588 -25.15 4.53 1 125.65 ? C3 MAN 801 A 1 HETATM 4 C C4 MAN . . . D 3 25.497 -25.799 5.909 1 129.84 ? C4 MAN 801 A 1 HETATM 5 C C5 MAN . . . D 3 25.128 -24.782 6.989 1 120.47 ? C5 MAN 801 A 1 HETATM 6 C C6 MAN . . . D 3 26.221 -23.78 7.295 1 108.21 ? C6 MAN 801 A 1 HETATM 7 O O2 MAN . . . D 3 24.537 -23.582 3.022 1 116.05 ? O2 MAN 801 A 1 HETATM 8 O O3 MAN . . . D 3 26.78 -24.381 4.393 1 128.48 ? O3 MAN 801 A 1 HETATM 9 O O4 MAN . . . D 3 24.523 -26.838 5.895 1 127.23 ? O4 MAN 801 A 1 HETATM 10 O O5 MAN . . . D 3 23.962 -24.036 6.6 1 122.52 ? O5 MAN 801 A 1 HETATM 11 O O6 MAN . . . D 3 25.815 -22.86 8.298 1 109.33 ? O6 MAN 801 A 1 # _model_server_stats.io_time_ms 107 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 311 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 11 #