data_6CGL # _model_server_result.job_id 3ddoFF6fyfuJvEaTUmQCbA _model_server_result.datetime_utc '2024-11-08 05:51:11' _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 6cgl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":801}' # _entry.id 6CGL # _exptl.entry_id 6CGL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 331.222 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" _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 6CGL _cell.length_a 161.646 _cell.length_b 182.061 _cell.length_c 155.333 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6CGL _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _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 _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 F N N # _chem_comp.formula 'C10 H14 N5 O6 P' _chem_comp.formula_weight 331.222 _chem_comp.id D5M _chem_comp.mon_nstd_flag . _chem_comp.name "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" _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 O5' C5' D5M sing 83 n n O5' P D5M sing 84 n n C5' C4' D5M sing 85 n n C5' "H5'1" D5M sing 86 n n C5' "H5'2" D5M sing 87 n n C4' O4' D5M sing 88 n n C4' C3' D5M sing 89 n n C4' H4' D5M sing 90 n n O4' C1' D5M sing 91 n n C3' O3' D5M sing 92 n n C3' C2' D5M sing 93 n n C3' H1 D5M sing 94 n n O3' H3' D5M sing 95 n n C2' C1' D5M sing 96 n n C2' "H2'1" D5M sing 97 n n C2' "H2'2" D5M sing 98 n n C1' N9 D5M sing 99 n n C1' H1' D5M sing 100 n n N9 C8 D5M sing 101 n y N9 C4 D5M sing 102 n y C8 N7 D5M doub 103 n y C8 H8 D5M sing 104 n n N7 C5 D5M sing 105 n y C5 C6 D5M sing 106 n y C5 C4 D5M doub 107 n y C6 N6 D5M sing 108 n n C6 N1 D5M doub 109 n y N6 HN61 D5M sing 110 n n N6 HN62 D5M sing 111 n n N1 C2 D5M sing 112 n y C2 N3 D5M doub 113 n y C2 H2 D5M sing 114 n n N3 C4 D5M sing 115 n y P O1P D5M doub 116 n n P O3P D5M sing 117 n n P O2P D5M sing 118 n n O3P H3P D5M sing 119 n n O2P H2P D5M sing 120 n n # _atom_sites.entry_id 6CGL _atom_sites.fract_transf_matrix[1][1] 0.006186 _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] 0.005493 _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] 0.006438 _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 D5M A 1 801 1 D5M DA . D 3 SO4 A 1 802 1 SO4 SO4 . E 3 SO4 A 1 803 3 SO4 SO4 . F 2 D5M B 1 801 2 D5M DA . G 3 SO4 B 1 802 2 SO4 SO4 . H 3 SO4 B 1 803 4 SO4 SO4 . I 3 SO4 B 1 804 5 SO4 SO4 . J 4 HOH A 1 901 7 HOH HOH . J 4 HOH A 2 902 23 HOH HOH . J 4 HOH A 3 903 22 HOH HOH . J 4 HOH A 4 904 20 HOH HOH . J 4 HOH A 5 905 16 HOH HOH . J 4 HOH A 6 906 10 HOH HOH . J 4 HOH A 7 907 4 HOH HOH . J 4 HOH A 8 908 5 HOH HOH . J 4 HOH A 9 909 21 HOH HOH . J 4 HOH A 10 910 18 HOH HOH . K 4 HOH B 1 901 8 HOH HOH . K 4 HOH B 2 902 11 HOH HOH . K 4 HOH B 3 903 12 HOH HOH . K 4 HOH B 4 904 3 HOH HOH . K 4 HOH B 5 905 13 HOH HOH . K 4 HOH B 6 906 2 HOH HOH . K 4 HOH B 7 907 15 HOH HOH . K 4 HOH B 8 908 6 HOH HOH . K 4 HOH B 9 909 9 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 O O5' D5M . . . C 2 3.614 12.667 4.72 0.9 119.05 ? O5' D5M 801 A 1 HETATM 2 C C5' D5M . . . C 2 4.434 13.715 4.165 0.9 112.78 ? C5' D5M 801 A 1 HETATM 3 C C4' D5M . . . C 2 3.831 15.07 4.452 0.9 107.74 ? C4' D5M 801 A 1 HETATM 4 O O4' D5M . . . C 2 3.264 15.078 5.78 0.9 103.42 ? O4' D5M 801 A 1 HETATM 5 C C3' D5M . . . C 2 4.829 16.223 4.439 0.9 104.97 ? C3' D5M 801 A 1 HETATM 6 O O3' D5M . . . C 2 4.203 17.452 4.055 0.9 102.21 ? O3' D5M 801 A 1 HETATM 7 C C2' D5M . . . C 2 5.325 16.261 5.873 0.9 103.71 ? C2' D5M 801 A 1 HETATM 8 C C1' D5M . . . C 2 4.166 15.694 6.695 0.9 102.27 ? C1' D5M 801 A 1 HETATM 9 N N9 D5M . . . C 2 4.552 14.693 7.694 0.9 99.08 ? N9 D5M 801 A 1 HETATM 10 C C8 D5M . . . C 2 3.992 13.457 7.918 0.9 95.99 ? C8 D5M 801 A 1 HETATM 11 N N7 D5M . . . C 2 4.556 12.792 8.897 0.9 94.58 ? N7 D5M 801 A 1 HETATM 12 C C5 D5M . . . C 2 5.548 13.648 9.354 0.9 95.3 ? C5 D5M 801 A 1 HETATM 13 C C6 D5M . . . C 2 6.5 13.53 10.384 0.9 92.75 ? C6 D5M 801 A 1 HETATM 14 N N6 D5M . . . C 2 6.614 12.455 11.168 0.9 91.5 ? N6 D5M 801 A 1 HETATM 15 N N1 D5M . . . C 2 7.345 14.567 10.582 0.9 91.52 ? N1 D5M 801 A 1 HETATM 16 C C2 D5M . . . C 2 7.232 15.645 9.793 0.9 92.39 ? C2 D5M 801 A 1 HETATM 17 N N3 D5M . . . C 2 6.378 15.874 8.796 0.9 94.21 ? N3 D5M 801 A 1 HETATM 18 C C4 D5M . . . C 2 5.554 14.824 8.626 0.9 97.04 ? C4 D5M 801 A 1 HETATM 19 P P D5M . . . C 2 4.119 11.156 4.774 0.9 124.04 ? P D5M 801 A 1 HETATM 20 O O1P D5M . . . C 2 5.418 11.043 4.058 0.9 121.89 ? O1P D5M 801 A 1 HETATM 21 O O3P D5M . . . C 2 4.391 10.918 6.214 0.9 125.83 ? O3P D5M 801 A 1 HETATM 22 O O2P D5M . . . C 2 2.987 10.279 4.38 0.9 123.18 ? O2P D5M 801 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 25 _model_server_stats.query_time_ms 296 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 22 #