data_6SVO # _model_server_result.job_id EYFdnJwYfFP3N_dZ8r7XhA _model_server_result.datetime_utc '2024-11-24 03:40:34' _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 6svo # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":701}' # _entry.id 6SVO # _exptl.entry_id 6SVO _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 261.167 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '2-DEOXY-2-AMINO GLUCITOL-6-PHOSPHATE' _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 6SVO _cell.length_a 152.848 _cell.length_b 152.848 _cell.length_c 165.413 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6SVO _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 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 ? 2 C N N ? 2 E N 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 covale ? covale1 A C ASP 242 A ASP 242 1_555 A N SEP 243 A SEP 243 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale2 A C SEP 243 A SEP 243 1_555 A N THR 244 A THR 244 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale3 B C ASP 242 B ASP 242 1_555 B N SEP 243 B SEP 243 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale4 B C SEP 243 B SEP 243 1_555 B N THR 244 B THR 244 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? # _chem_comp.formula 'C6 H16 N O8 P' _chem_comp.formula_weight 261.167 _chem_comp.id AGP _chem_comp.mon_nstd_flag . _chem_comp.name '2-DEOXY-2-AMINO GLUCITOL-6-PHOSPHATE' _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 C1 O1 AGP sing 1 n n C1 C2 AGP sing 2 n n C1 H11 AGP sing 3 n n C1 H12 AGP sing 4 n n O1 HO1 AGP sing 5 n n C2 N2 AGP sing 6 n n C2 C3 AGP sing 7 n n C2 H2 AGP sing 8 n n N2 HN21 AGP sing 9 n n N2 HN22 AGP sing 10 n n C3 O3 AGP sing 11 n n C3 C4 AGP sing 12 n n C3 H3 AGP sing 13 n n O3 HO3 AGP sing 14 n n C4 O4 AGP sing 15 n n C4 C5 AGP sing 16 n n C4 H4 AGP sing 17 n n O4 HO4 AGP sing 18 n n C5 O5 AGP sing 19 n n C5 C6 AGP sing 20 n n C5 H5 AGP sing 21 n n O5 HO5 AGP sing 22 n n C6 O6 AGP sing 23 n n C6 H61 AGP sing 24 n n C6 H62 AGP sing 25 n n O6 P AGP sing 26 n n P O1P AGP doub 27 n n P O2P AGP sing 28 n n P O3P AGP sing 29 n n O2P HOP2 AGP sing 30 n n O3P HOP3 AGP sing 31 n n # _atom_sites.entry_id 6SVO _atom_sites.fract_transf_matrix[1][1] 0.006542 _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] 0.006542 _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] 0.006045 _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 AGP A 1 701 1 AGP AGP . D 3 GLU A 1 702 1 GLU GLU . E 2 AGP B 1 701 2 AGP AGP . F 4 HOH A 1 801 174 HOH HOH . F 4 HOH A 2 802 107 HOH HOH . F 4 HOH A 3 803 190 HOH HOH . F 4 HOH A 4 804 7 HOH HOH . F 4 HOH A 5 805 1 HOH HOH . F 4 HOH A 6 806 22 HOH HOH . F 4 HOH A 7 807 28 HOH HOH . F 4 HOH A 8 808 69 HOH HOH . F 4 HOH A 9 809 44 HOH HOH . F 4 HOH A 10 810 76 HOH HOH . F 4 HOH A 11 811 26 HOH HOH . F 4 HOH A 12 812 183 HOH HOH . F 4 HOH A 13 813 4 HOH HOH . F 4 HOH A 14 814 88 HOH HOH . F 4 HOH A 15 815 53 HOH HOH . F 4 HOH A 16 816 56 HOH HOH . F 4 HOH A 17 817 68 HOH HOH . F 4 HOH A 18 818 15 HOH HOH . F 4 HOH A 19 819 52 HOH HOH . F 4 HOH A 20 820 96 HOH HOH . F 4 HOH A 21 821 181 HOH HOH . F 4 HOH A 22 822 30 HOH HOH . F 4 HOH A 23 823 3 HOH HOH . F 4 HOH A 24 824 48 HOH HOH . F 4 HOH A 25 825 8 HOH HOH . F 4 HOH A 26 826 114 HOH HOH . F 4 HOH A 27 827 59 HOH HOH . F 4 HOH A 28 828 65 HOH HOH . F 4 HOH A 29 829 73 HOH HOH . F 4 HOH A 30 830 16 HOH HOH . F 4 HOH A 31 831 50 HOH HOH . F 4 HOH A 32 832 13 HOH HOH . F 4 HOH A 33 833 37 HOH HOH . F 4 HOH A 34 834 41 HOH HOH . F 4 HOH A 35 835 162 HOH HOH . F 4 HOH A 36 836 123 HOH HOH . F 4 HOH A 37 837 5 HOH HOH . F 4 HOH A 38 838 27 HOH HOH . F 4 HOH A 39 839 54 HOH HOH . F 4 HOH A 40 840 23 HOH HOH . F 4 HOH A 41 841 11 HOH HOH . F 4 HOH A 42 842 116 HOH HOH . F 4 HOH A 43 843 78 HOH HOH . F 4 HOH A 44 844 79 HOH HOH . F 4 HOH A 45 845 83 HOH HOH . F 4 HOH A 46 846 29 HOH HOH . F 4 HOH A 47 847 32 HOH HOH . F 4 HOH A 48 848 204 HOH HOH . F 4 HOH A 49 849 194 HOH HOH . F 4 HOH A 50 850 12 HOH HOH . F 4 HOH A 51 851 85 HOH HOH . F 4 HOH A 52 852 82 HOH HOH . F 4 HOH A 53 853 93 HOH HOH . F 4 HOH A 54 854 70 HOH HOH . F 4 HOH A 55 855 67 HOH HOH . F 4 HOH A 56 856 36 HOH HOH . F 4 HOH A 57 857 189 HOH HOH . F 4 HOH A 58 858 127 HOH HOH . F 4 HOH A 59 859 148 HOH HOH . F 4 HOH A 60 860 57 HOH HOH . F 4 HOH A 61 861 143 HOH HOH . F 4 HOH A 62 862 206 HOH HOH . G 4 HOH B 1 801 205 HOH HOH . G 4 HOH B 2 802 109 HOH HOH . G 4 HOH B 3 803 47 HOH HOH . G 4 HOH B 4 804 2 HOH HOH . G 4 HOH B 5 805 34 HOH HOH . G 4 HOH B 6 806 18 HOH HOH . G 4 HOH B 7 807 17 HOH HOH . G 4 HOH B 8 808 6 HOH HOH . G 4 HOH B 9 809 24 HOH HOH . G 4 HOH B 10 810 92 HOH HOH . G 4 HOH B 11 811 14 HOH HOH . G 4 HOH B 12 812 177 HOH HOH . G 4 HOH B 13 813 38 HOH HOH . G 4 HOH B 14 814 19 HOH HOH . G 4 HOH B 15 815 10 HOH HOH . G 4 HOH B 16 816 21 HOH HOH . G 4 HOH B 17 817 124 HOH HOH . G 4 HOH B 18 818 75 HOH HOH . G 4 HOH B 19 819 40 HOH HOH . G 4 HOH B 20 820 125 HOH HOH . G 4 HOH B 21 821 42 HOH HOH . G 4 HOH B 22 822 106 HOH HOH . G 4 HOH B 23 823 80 HOH HOH . G 4 HOH B 24 824 25 HOH HOH . G 4 HOH B 25 825 110 HOH HOH . G 4 HOH B 26 826 20 HOH HOH . G 4 HOH B 27 827 43 HOH HOH . G 4 HOH B 28 828 39 HOH HOH . G 4 HOH B 29 829 180 HOH HOH . G 4 HOH B 30 830 46 HOH HOH . G 4 HOH B 31 831 35 HOH HOH . G 4 HOH B 32 832 61 HOH HOH . G 4 HOH B 33 833 87 HOH HOH . G 4 HOH B 34 834 49 HOH HOH . G 4 HOH B 35 835 135 HOH HOH . G 4 HOH B 36 836 81 HOH HOH . G 4 HOH B 37 837 104 HOH HOH . G 4 HOH B 38 838 139 HOH HOH . G 4 HOH B 39 839 71 HOH HOH . G 4 HOH B 40 840 136 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 AGP . . . E 2 0.121 36.89 -17.679 1 60.72 ? C1 AGP 701 B 1 HETATM 2 O O1 AGP . . . E 2 1.455 36.637 -17.336 1 60.01 ? O1 AGP 701 B 1 HETATM 3 C C2 AGP . . . E 2 -0.805 36.236 -16.654 1 61.06 ? C2 AGP 701 B 1 HETATM 4 N N2 AGP . . . E 2 -0.544 34.811 -16.625 1 61.1 ? N2 AGP 701 B 1 HETATM 5 C C3 AGP . . . E 2 -2.266 36.504 -17.03 1 61.91 ? C3 AGP 701 B 1 HETATM 6 O O3 AGP . . . E 2 -2.333 37.021 -18.329 1 63.7 ? O3 AGP 701 B 1 HETATM 7 C C4 AGP . . . E 2 -3.101 35.228 -16.981 1 57.87 ? C4 AGP 701 B 1 HETATM 8 O O4 AGP . . . E 2 -2.757 34.402 -18.058 1 53.59 ? O4 AGP 701 B 1 HETATM 9 C C5 AGP . . . E 2 -4.568 35.623 -17.085 1 60.33 ? C5 AGP 701 B 1 HETATM 10 O O5 AGP . . . E 2 -4.938 36.319 -15.925 1 59.89 ? O5 AGP 701 B 1 HETATM 11 C C6 AGP . . . E 2 -5.435 34.377 -17.237 1 61.89 ? C6 AGP 701 B 1 HETATM 12 O O6 AGP . . . E 2 -5.406 33.626 -16.057 1 59.46 ? O6 AGP 701 B 1 HETATM 13 P P AGP . . . E 2 -5.897 32.052 -16.125 1 61.79 ? P AGP 701 B 1 HETATM 14 O O1P AGP . . . E 2 -4.959 31.262 -17.003 1 53.91 ? O1P AGP 701 B 1 HETATM 15 O O2P AGP . . . E 2 -7.292 31.992 -16.696 1 55.88 ? O2P AGP 701 B 1 HETATM 16 O O3P AGP . . . E 2 -5.897 31.471 -14.732 1 60.31 ? O3P AGP 701 B 1 HETATM 17 H H11 AGP . . . E 2 -0.033 37.848 -17.689 1 72.91 ? H11 AGP 701 B 1 HETATM 18 H H12 AGP . . . E 2 -0.058 36.526 -18.558 1 72.91 ? H12 AGP 701 B 1 HETATM 19 H HO1 AGP . . . E 2 1.747 37.269 -16.848 1 72.06 ? HO1 AGP 701 B 1 HETATM 20 H H2 AGP . . . E 2 -0.627 36.611 -15.777 1 73.32 ? H2 AGP 701 B 1 HETATM 21 H HN21 AGP . . . E 2 -0.124 34.601 -15.869 1 73.36 ? HN21 AGP 701 B 1 HETATM 22 H HN22 AGP . . . E 2 -0.033 34.592 -17.319 1 73.36 ? HN22 AGP 701 B 1 HETATM 23 H H3 AGP . . . E 2 -2.639 37.152 -16.411 1 74.34 ? H3 AGP 701 B 1 HETATM 24 H HO3 AGP . . . E 2 -2.39 37.868 -18.294 1 76.49 ? HO3 AGP 701 B 1 HETATM 25 H H4 AGP . . . E 2 -2.954 34.762 -16.143 1 69.5 ? H4 AGP 701 B 1 HETATM 26 H HO4 AGP . . . E 2 -2.585 33.62 -17.772 1 64.35 ? HO4 AGP 701 B 1 HETATM 27 H H5 AGP . . . E 2 -4.692 36.197 -17.857 1 72.45 ? H5 AGP 701 B 1 HETATM 28 H HO5 AGP . . . E 2 -5.445 35.829 -15.45 1 71.91 ? HO5 AGP 701 B 1 HETATM 29 H H61 AGP . . . E 2 -5.117 33.835 -17.976 1 74.32 ? H61 AGP 701 B 1 HETATM 30 H H62 AGP . . . E 2 -6.349 34.649 -17.416 1 74.32 ? H62 AGP 701 B 1 # _model_server_stats.io_time_ms 52 _model_server_stats.parse_time_ms 45 _model_server_stats.create_model_time_ms 34 _model_server_stats.query_time_ms 531 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 30 #