data_3L5N # _model_server_result.job_id AmM7c19spMPDOq9cfdQCtA _model_server_result.datetime_utc '2024-11-06 22:41:57' _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 3l5n # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":648}' # _entry.id 3L5N # _exptl.entry_id 3L5N _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 180.156 _entity.id 5 _entity.src_method man _entity.type non-polymer _entity.pdbx_description alpha-D-mannopyranose _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 3L5N _cell.length_a 128.026 _cell.length_b 128.026 _cell.length_c 468.591 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3L5N _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_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 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id F _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 537 A CYS 537 1_555 B SG CYS 68 B CYS 794 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.206 ? disulf ? disulf2 A SG CYS 605 A CYS 605 1_555 A SG CYS 640 A CYS 640 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? disulf ? disulf3 B SG CYS 353 B CYS 1079 1_555 B SG CYS 410 B CYS 1136 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf4 B SG CYS 610 B CYS 1336 1_555 B SG CYS 741 B CYS 1467 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.975 ? disulf ? disulf5 B SG CYS 641 B CYS 1367 1_555 B SG CYS 710 B CYS 1436 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf6 B SG CYS 758 B CYS 1484 1_555 B SG CYS 763 B CYS 1489 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf7 B SG CYS 789 B CYS 1515 1_555 B SG CYS 913 B CYS 1639 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf8 B SG CYS 889 B CYS 1615 1_555 B SG CYS 898 B CYS 1624 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? # _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 216 n n C1 O1 MAN sing 217 n n C1 O5 MAN sing 218 n n C1 H1 MAN sing 219 n n C2 C3 MAN sing 220 n n C2 O2 MAN sing 221 n n C2 H2 MAN sing 222 n n C3 C4 MAN sing 223 n n C3 O3 MAN sing 224 n n C3 H3 MAN sing 225 n n C4 C5 MAN sing 226 n n C4 O4 MAN sing 227 n n C4 H4 MAN sing 228 n n C5 C6 MAN sing 229 n n C5 O5 MAN sing 230 n n C5 H5 MAN sing 231 n n C6 O6 MAN sing 232 n n C6 H61 MAN sing 233 n n C6 H62 MAN sing 234 n n O1 HO1 MAN sing 235 n n O2 HO2 MAN sing 236 n n O3 HO3 MAN sing 237 n n O4 HO4 MAN sing 238 n n O6 HO6 MAN sing 239 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 3L5N _atom_sites.fract_transf_matrix[1][1] 0.007811 _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] 0.007811 _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] 0.002134 _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 4 NAG A 1 646 646 NAG NAG . E 4 NAG A 1 647 647 NAG NAG . F 5 MAN A 1 648 648 MAN MAN . G 4 NAG A 1 649 649 NAG NAG . # 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 . . . F 5 11.559 44.385 20.732 1 213.47 ? C1 MAN 648 A 1 HETATM 2 C C2 MAN . . . F 5 12.133 45.725 21.178 1 220.98 ? C2 MAN 648 A 1 HETATM 3 C C3 MAN . . . F 5 11.954 46.767 20.078 1 230.61 ? C3 MAN 648 A 1 HETATM 4 C C4 MAN . . . F 5 12.368 46.231 18.703 1 228.42 ? C4 MAN 648 A 1 HETATM 5 C C5 MAN . . . F 5 11.765 44.844 18.461 1 220.19 ? C5 MAN 648 A 1 HETATM 6 C C6 MAN . . . F 5 12.193 44.222 17.131 1 219.22 ? C6 MAN 648 A 1 HETATM 7 O O2 MAN . . . F 5 13.493 45.572 21.546 1 222.73 ? O2 MAN 648 A 1 HETATM 8 O O3 MAN . . . F 5 12.675 47.924 20.429 1 239.01 ? O3 MAN 648 A 1 HETATM 9 O O4 MAN . . . F 5 11.917 47.128 17.705 1 230.87 ? O4 MAN 648 A 1 HETATM 10 O O5 MAN . . . F 5 12.128 43.98 19.51 1 211.8 ? O5 MAN 648 A 1 HETATM 11 O O6 MAN . . . F 5 11.614 42.941 16.968 1 213.58 ? O6 MAN 648 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 35 _model_server_stats.query_time_ms 316 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 11 #