data_8V4V # _model_server_result.job_id A2cx5RUqDSJO1NjTOtbdiw _model_server_result.datetime_utc '2024-12-14 16:40:31' _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 8v4v # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":301}' # _entry.id 8V4V # _exptl.entry_id 8V4V _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 301.188 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-6-O-phosphono-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 90 _cell.entry_id 8V4V _cell.length_a 116.873 _cell.length_b 223.646 _cell.length_c 52.734 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8V4V _symmetry.cell_setting ? _symmetry.Int_Tables_number 21 _symmetry.space_group_name_Hall 'C 2 2' _symmetry.space_group_name_H-M 'C 2 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 6_445 -x-1/2,-y-1/2,z -1 0 0 0 -1 0 0 0 1 -58.4365 -111.823 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 F N N # _struct_conn.conn_type_id metalc _struct_conn.details ? _struct_conn.id metalc1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id OG _struct_conn.ptnr1_label_comp_id SER _struct_conn.ptnr1_label_seq_id 97 _struct_conn.ptnr1_auth_asym_id B _struct_conn.ptnr1_auth_comp_id SER _struct_conn.ptnr1_auth_seq_id 97 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id E _struct_conn.ptnr2_label_atom_id NA _struct_conn.ptnr2_label_comp_id NA _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id B _struct_conn.ptnr2_auth_comp_id NA _struct_conn.ptnr2_auth_seq_id 303 _struct_conn.ptnr2_symmetry 1_555 _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 3.088 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C8 H16 N O9 P' _chem_comp.formula_weight 301.188 _chem_comp.id BMX _chem_comp.mon_nstd_flag n _chem_comp.name 2-acetamido-2-deoxy-6-O-phosphono-alpha-D-mannopyranose _chem_comp.type 'd-saccharide, alpha linking' _chem_comp.pdbx_synonyms 2-(ACETYLAMINO)-2-DEOXY-6-O-PHOSPHONO-ALPHA-D-MANNOPYRANOSE;N-acetyl-6-O-phosphono-alpha-D-mannosamine;2-acetamido-2-deoxy-6-O-phosphono-alpha-D-mannose;2-acetamido-2-deoxy-6-O-phosphono-D-mannose;2-acetamido-2-deoxy-6-O-phosphono-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 O1 BMX sing 70 n n C1 C2 BMX sing 71 n n C1 O5 BMX sing 72 n n C2 N2 BMX sing 73 n n C2 C3 BMX sing 74 n n N2 C7 BMX sing 75 n n C7 O7 BMX doub 76 n n C7 C8 BMX sing 77 n n C3 O3 BMX sing 78 n n C3 C4 BMX sing 79 n n C4 O4 BMX sing 80 n n C4 C5 BMX sing 81 n n C5 C6 BMX sing 82 n n C5 O5 BMX sing 83 n n C6 O6 BMX sing 84 n n O6 P BMX sing 85 n n P O17 BMX doub 86 n n P O18 BMX sing 87 n n P O19 BMX sing 88 n n C1 H1 BMX sing 89 n n O1 HO1 BMX sing 90 n n C2 H2 BMX sing 91 n n N2 HN2 BMX sing 92 n n C3 H3 BMX sing 93 n n C8 H81 BMX sing 94 n n C8 H82 BMX sing 95 n n C8 H83 BMX sing 96 n n O3 HO3 BMX sing 97 n n C4 H4 BMX sing 98 n n O4 HO4 BMX sing 99 n n C5 H5 BMX sing 100 n n C6 H61 BMX sing 101 n n C6 H62 BMX sing 102 n n O18 H18 BMX sing 103 n n O19 H19 BMX sing 104 n n # _pdbx_chem_comp_identifier.comp_id BMX _pdbx_chem_comp_identifier.identifier a-D-ManpNAc6PO3 _pdbx_chem_comp_identifier.type 'IUPAC CARBOHYDRATE SYMBOL' _pdbx_chem_comp_identifier.program PDB-CARE _pdbx_chem_comp_identifier.program_version 1 # _atom_sites.entry_id 8V4V _atom_sites.fract_transf_matrix[1][1] 0.008556 _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] 0.004471 _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] 0.018963 _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 2 BMX B 1 301 301 BMX BMX . D 3 CL B 1 302 1 CL CL . E 4 NA B 1 303 2 NA NA . F 2 BMX A 1 301 301 BMX BMX . G 4 NA A 1 302 1 NA NA . # 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 BMX . . . F 2 -34.646 -46.558 30.835 1 60.67 ? C1 BMX 301 A 1 HETATM 2 C C2 BMX . . . F 2 -35.431 -45.357 30.316 1 60.84 ? C2 BMX 301 A 1 HETATM 3 C C3 BMX . . . F 2 -34.841 -44.726 29.122 1 59.9 ? C3 BMX 301 A 1 HETATM 4 C C4 BMX . . . F 2 -33.37 -44.506 29.208 1 58.77 ? C4 BMX 301 A 1 HETATM 5 C C5 BMX . . . F 2 -32.655 -45.761 29.7 1 58.53 ? C5 BMX 301 A 1 HETATM 6 C C6 BMX . . . F 2 -31.206 -45.393 29.859 1 57.44 ? C6 BMX 301 A 1 HETATM 7 C C7 BMX . . . F 2 -36.682 -43.747 31.905 1 63.81 ? C7 BMX 301 A 1 HETATM 8 C C8 BMX . . . F 2 -36.651 -42.747 33.074 1 66.81 ? C8 BMX 301 A 1 HETATM 9 N N2 BMX . . . F 2 -35.472 -44.355 31.458 1 60.86 ? N2 BMX 301 A 1 HETATM 10 O O1 BMX . . . F 2 -34.782 -47.626 29.987 1 61.21 ? O1 BMX 301 A 1 HETATM 11 O O3 BMX . . . F 2 -35.522 -43.433 28.939 1 59.1 ? O3 BMX 301 A 1 HETATM 12 O O4 BMX . . . F 2 -32.896 -44.157 27.906 1 56.76 ? O4 BMX 301 A 1 HETATM 13 O O5 BMX . . . F 2 -33.193 -46.228 30.982 1 60.73 ? O5 BMX 301 A 1 HETATM 14 O O6 BMX . . . F 2 -31.202 -44.341 30.799 1 58.44 ? O6 BMX 301 A 1 HETATM 15 O O7 BMX . . . F 2 -37.702 -44.01 31.373 1 66.27 ? O7 BMX 301 A 1 HETATM 16 P P BMX . . . F 2 -29.866 -43.37 30.957 1 58.02 ? P BMX 301 A 1 HETATM 17 O O19 BMX . . . F 2 -29.665 -42.555 29.705 1 57.98 ? O19 BMX 301 A 1 HETATM 18 O O17 BMX . . . F 2 -30.086 -42.439 32.129 1 57.95 ? O17 BMX 301 A 1 HETATM 19 O O18 BMX . . . F 2 -28.669 -44.254 31.208 1 59.25 ? O18 BMX 301 A 1 HETATM 20 H H1 BMX . . . F 2 -35.014 -46.82 31.693 1 72.82 ? H1 BMX 301 A 1 HETATM 21 H H2 BMX . . . F 2 -36.324 -45.635 30.06 1 73.03 ? H2 BMX 301 A 1 HETATM 22 H H3 BMX . . . F 2 -34.986 -45.306 28.358 1 71.9 ? H3 BMX 301 A 1 HETATM 23 H H4 BMX . . . F 2 -33.174 -43.777 29.817 1 70.55 ? H4 BMX 301 A 1 HETATM 24 H H5 BMX . . . F 2 -32.747 -46.486 29.062 1 70.25 ? H5 BMX 301 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 246 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 24 #