data_8VLI # _model_server_result.job_id czks4ESrTz7K3Yn1hfVkjg _model_server_result.datetime_utc '2025-02-05 14:44:22' _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 8vli # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":705}' # _entry.id 8VLI # _exptl.entry_id 8VLI _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 379.361 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '4-methyl-2-oxo-2H-1-benzopyran-7-yl 2-acetamido-2-deoxy-beta-D-glucopyranoside' _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 8VLI _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8VLI _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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,H,I,J,K,L _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 ? _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 ? 5 G N N ? 5 L 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 NAG _pdbx_entity_branch_link.comp_id_2 NAG _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 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _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 NAG 1 C 1 NAG A 786 NAG 2 n C NAG 2 C 2 NAG A 787 NAG # 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 104 A CYS 104 1_555 A SG CYS 107 A CYS 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf2 A SG CYS 151 A CYS 151 1_555 A SG CYS 179 A CYS 179 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf3 A SG CYS 443 A CYS 443 1_555 A SG CYS 462 A CYS 462 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf4 B SG CYS 104 B CYS 104 1_555 B SG CYS 107 B CYS 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf5 B SG CYS 151 B CYS 151 1_555 B SG CYS 179 B CYS 179 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf6 B SG CYS 443 B CYS 443 1_555 B SG CYS 462 B CYS 462 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? covale ? covale1 A ND2 ASN 94 A ASN 94 1_555 E C1 NAG . A NAG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale2 A ND2 ASN 142 A ASN 142 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale3 A ND2 ASN 162 A ASN 162 1_555 D C1 NAG . A NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale4 B ND2 ASN 94 B ASN 94 1_555 I C1 NAG . B NAG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale5 B ND2 ASN 142 B ASN 142 1_555 J C1 NAG . B NAG 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale6 B ND2 ASN 162 B ASN 162 1_555 H C1 NAG . B NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale7 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? # _chem_comp.formula 'C18 H21 N O8' _chem_comp.formula_weight 379.361 _chem_comp.id A1AC0 _chem_comp.mon_nstd_flag . _chem_comp.name '4-methyl-2-oxo-2H-1-benzopyran-7-yl 2-acetamido-2-deoxy-beta-D-glucopyranoside' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 O05 C04 A1AC0 doub 1 n n C04 C03 A1AC0 sing 2 n n C04 O06 A1AC0 sing 3 n n C03 C02 A1AC0 doub 4 n n O06 C07 A1AC0 sing 5 n n C02 C01 A1AC0 sing 6 n n C02 C08 A1AC0 sing 7 n n C07 C08 A1AC0 doub 8 n y C07 C12 A1AC0 sing 9 n y C08 C09 A1AC0 sing 10 n y C12 C11 A1AC0 doub 11 n y C09 C10 A1AC0 doub 12 n y C11 C10 A1AC0 sing 13 n y C11 O13 A1AC0 sing 14 n n O13 C14 A1AC0 sing 15 n n C14 O19 A1AC0 sing 16 n n C14 C15 A1AC0 sing 17 n n O19 C18 A1AC0 sing 18 n n O21 C20 A1AC0 sing 19 n n C15 N24 A1AC0 sing 20 n n C15 C16 A1AC0 sing 21 n n C18 C20 A1AC0 sing 22 n n C18 C17 A1AC0 sing 23 n n N24 C25 A1AC0 sing 24 n n O26 C25 A1AC0 doub 25 n n C25 C27 A1AC0 sing 26 n n C17 C16 A1AC0 sing 27 n n C17 O22 A1AC0 sing 28 n n C16 O23 A1AC0 sing 29 n n C01 H1 A1AC0 sing 30 n n C01 H2 A1AC0 sing 31 n n C01 H3 A1AC0 sing 32 n n C03 H4 A1AC0 sing 33 n n C09 H5 A1AC0 sing 34 n n C10 H6 A1AC0 sing 35 n n C12 H7 A1AC0 sing 36 n n C14 H8 A1AC0 sing 37 n n C15 H9 A1AC0 sing 38 n n C16 H10 A1AC0 sing 39 n n C17 H11 A1AC0 sing 40 n n C18 H12 A1AC0 sing 41 n n C20 H13 A1AC0 sing 42 n n C20 H14 A1AC0 sing 43 n n C27 H15 A1AC0 sing 44 n n C27 H16 A1AC0 sing 45 n n C27 H17 A1AC0 sing 46 n n N24 H18 A1AC0 sing 47 n n O21 H19 A1AC0 sing 48 n n O22 H20 A1AC0 sing 49 n n O23 H21 A1AC0 sing 50 n n # _atom_sites.entry_id 8VLI _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 NAG A 1 701 778 NAG NAG . E 3 NAG A 1 702 785 NAG NAG . F 4 COA A 1 703 788 COA COA . G 5 A1AC0 A 1 704 789 A1AC0 MUG . H 3 NAG B 1 701 777 NAG NAG . I 3 NAG B 1 702 782 NAG NAG . J 3 NAG B 1 703 783 NAG NAG . K 4 COA B 1 704 784 COA COA . L 5 A1AC0 B 1 705 785 A1AC0 MUG . # 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 C01 A1AC0 . . . L 5 165.355 180.3 163.578 1 30.86 ? C01 A1AC0 705 B 1 HETATM 2 C C02 A1AC0 . . . L 5 166.854 180.306 163.749 1 33.3 ? C02 A1AC0 705 B 1 HETATM 3 C C03 A1AC0 . . . L 5 167.433 180.53 165.066 1 33.97 ? C03 A1AC0 705 B 1 HETATM 4 C C04 A1AC0 . . . L 5 168.919 180.395 165.227 1 38.88 ? C04 A1AC0 705 B 1 HETATM 5 C C07 A1AC0 . . . L 5 169.13 179.576 162.878 1 33.61 ? C07 A1AC0 705 B 1 HETATM 6 C C08 A1AC0 . . . L 5 167.747 179.914 162.617 1 42.48 ? C08 A1AC0 705 B 1 HETATM 7 C C09 A1AC0 . . . L 5 167.254 179.872 161.308 1 43.39 ? C09 A1AC0 705 B 1 HETATM 8 C C10 A1AC0 . . . L 5 168.109 179.503 160.246 1 40.85 ? C10 A1AC0 705 B 1 HETATM 9 C C11 A1AC0 . . . L 5 169.48 179.164 160.506 1 40.36 ? C11 A1AC0 705 B 1 HETATM 10 C C12 A1AC0 . . . L 5 169.977 179.207 161.829 1 32.37 ? C12 A1AC0 705 B 1 HETATM 11 C C14 A1AC0 . . . L 5 169.658 178.278 158.372 1 34 ? C14 A1AC0 705 B 1 HETATM 12 C C15 A1AC0 . . . L 5 170.63 178.048 157.2 1 31.71 ? C15 A1AC0 705 B 1 HETATM 13 C C16 A1AC0 . . . L 5 170.017 177.226 156.086 1 33.65 ? C16 A1AC0 705 B 1 HETATM 14 C C17 A1AC0 . . . L 5 168.652 176.776 156.279 1 36.7 ? C17 A1AC0 705 B 1 HETATM 15 C C18 A1AC0 . . . L 5 168.279 176.361 157.71 1 33.52 ? C18 A1AC0 705 B 1 HETATM 16 C C20 A1AC0 . . . L 5 168.47 174.913 157.842 1 30.73 ? C20 A1AC0 705 B 1 HETATM 17 C C25 A1AC0 . . . L 5 171.859 180.422 157.271 1 35.48 ? C25 A1AC0 705 B 1 HETATM 18 C C27 A1AC0 . . . L 5 172.282 181.668 156.477 1 28.11 ? C27 A1AC0 705 B 1 HETATM 19 N N24 A1AC0 . . . L 5 171.094 179.306 156.569 1 37.31 ? N24 A1AC0 705 B 1 HETATM 20 O O05 A1AC0 . . . L 5 169.496 180.947 166.142 1 36.58 ? O05 A1AC0 705 B 1 HETATM 21 O O06 A1AC0 . . . L 5 169.647 179.626 164.276 1 28.56 ? O06 A1AC0 705 B 1 HETATM 22 O O13 A1AC0 . . . L 5 170.349 178.796 159.475 1 34.2 ? O13 A1AC0 705 B 1 HETATM 23 O O19 A1AC0 . . . L 5 169.086 177.04 158.79 1 34.33 ? O19 A1AC0 705 B 1 HETATM 24 O O21 A1AC0 . . . L 5 168.753 174.605 159.238 1 34.75 ? O21 A1AC0 705 B 1 HETATM 25 O O22 A1AC0 . . . L 5 167.722 177.84 155.835 1 39.6 ? O22 A1AC0 705 B 1 HETATM 26 O O23 A1AC0 . . . L 5 170.877 176.034 155.831 1 37.17 ? O23 A1AC0 705 B 1 HETATM 27 O O26 A1AC0 . . . L 5 172.136 180.364 158.396 1 36.59 ? O26 A1AC0 705 B 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 281 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 27 #