data_2A8G # _model_server_result.job_id b20YkuuDQWBFtRHGdxMBLA _model_server_result.datetime_utc '2024-11-05 01:16:03' _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 2a8g # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":201}' # _entry.id 2A8G # _exptl.entry_id 2A8G _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 267.241 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "2'-DEOXY-GUANOSINE" _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 2A8G _cell.length_a 70.307 _cell.length_b 79.454 _cell.length_c 43.005 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2A8G _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA,PQS _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' 2_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id E _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 2 A CYS 4 1_555 A SG CYS 81 A CYS 83 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.003 ? disulf ? disulf2 B SG CYS 2 B CYS 4 1_555 B SG CYS 81 B CYS 83 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? covale ? covale1 A ND2 ASN 15 A ASN 17 1_555 C C1 NAG . A NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale2 B ND2 ASN 15 B ASN 17 1_555 D C1 NAG . B NAG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? # _chem_comp.formula 'C10 H13 N5 O4' _chem_comp.formula_weight 267.241 _chem_comp.id GNG _chem_comp.mon_nstd_flag n _chem_comp.name "2'-DEOXY-GUANOSINE" _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' GNG sing 129 n n O5' H5' GNG sing 130 n n C5' C4' GNG sing 131 n n C5' "H5'1" GNG sing 132 n n C5' "H5'2" GNG sing 133 n n C4' O4' GNG sing 134 n n C4' C3' GNG sing 135 n n C4' H4' GNG sing 136 n n O4' C1' GNG sing 137 n n C1' N9 GNG sing 138 n n C1' C2' GNG sing 139 n n C1' H1' GNG sing 140 n n N9 C8 GNG sing 141 n y N9 C4 GNG sing 142 n y C8 N7 GNG doub 143 n y C8 H8 GNG sing 144 n n N7 C5 GNG sing 145 n y C5 C4 GNG doub 146 n y C5 C6 GNG sing 147 n n C4 N3 GNG sing 148 n n N3 C2 GNG sing 149 n n N3 HN3 GNG sing 150 n n C2 N1 GNG doub 151 n n C2 N2 GNG sing 152 n n N1 C6 GNG sing 153 n n C6 O6 GNG doub 154 n n N2 HN21 GNG sing 155 n n N2 HN22 GNG sing 156 n n C2' C3' GNG sing 157 n n C2' "H2'1" GNG sing 158 n n C2' "H2'2" GNG sing 159 n n C3' O3' GNG sing 160 n n C3' H3' GNG sing 161 n n O3' H1 GNG sing 162 n n # _atom_sites.entry_id 2A8G _atom_sites.fract_transf_matrix[1][1] 0.014223 _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] 0.012586 _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] 0.023253 _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 NAG A 1 201 201 NAG NAG . D 2 NAG B 1 202 202 NAG NAG . E 3 GNG B 1 201 201 GNG GNG . F 4 HOH A 1 202 3 HOH HOH . F 4 HOH A 2 203 81 HOH HOH . F 4 HOH A 3 204 5 HOH HOH . F 4 HOH A 4 205 7 HOH HOH . F 4 HOH A 5 206 10 HOH HOH . F 4 HOH A 6 207 14 HOH HOH . F 4 HOH A 7 208 15 HOH HOH . F 4 HOH A 8 209 16 HOH HOH . F 4 HOH A 9 210 22 HOH HOH . F 4 HOH A 10 211 24 HOH HOH . F 4 HOH A 11 212 87 HOH HOH . F 4 HOH A 12 213 25 HOH HOH . F 4 HOH A 13 214 31 HOH HOH . F 4 HOH A 14 215 37 HOH HOH . F 4 HOH A 15 216 40 HOH HOH . F 4 HOH A 16 217 41 HOH HOH . F 4 HOH A 17 218 56 HOH HOH . F 4 HOH A 18 219 58 HOH HOH . F 4 HOH A 19 220 62 HOH HOH . F 4 HOH A 20 221 77 HOH HOH . G 4 HOH B 1 203 1 HOH HOH . G 4 HOH B 2 204 2 HOH HOH . G 4 HOH B 3 205 80 HOH HOH . G 4 HOH B 4 206 4 HOH HOH . G 4 HOH B 5 207 82 HOH HOH . G 4 HOH B 6 208 9 HOH HOH . G 4 HOH B 7 209 83 HOH HOH . G 4 HOH B 8 210 12 HOH HOH . G 4 HOH B 9 211 84 HOH HOH . G 4 HOH B 10 212 18 HOH HOH . G 4 HOH B 11 213 85 HOH HOH . G 4 HOH B 12 214 19 HOH HOH . G 4 HOH B 13 215 23 HOH HOH . G 4 HOH B 14 216 86 HOH HOH . G 4 HOH B 15 217 88 HOH HOH . G 4 HOH B 16 218 27 HOH HOH . G 4 HOH B 17 219 89 HOH HOH . G 4 HOH B 18 220 36 HOH HOH . G 4 HOH B 19 221 39 HOH HOH . G 4 HOH B 20 222 50 HOH HOH . G 4 HOH B 21 223 60 HOH HOH . G 4 HOH B 22 224 61 HOH HOH . G 4 HOH B 23 225 68 HOH HOH . G 4 HOH B 24 226 69 HOH HOH . G 4 HOH B 25 227 70 HOH HOH . G 4 HOH B 26 228 71 HOH HOH . G 4 HOH B 27 229 74 HOH HOH . G 4 HOH B 28 230 75 HOH HOH . G 4 HOH B 29 231 76 HOH HOH . G 4 HOH B 30 232 28 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' GNG . . . E 3 9.398 3.529 0.172 0.75 59.44 ? O5' GNG 201 B 1 HETATM 2 C C5' GNG . . . E 3 9.761 2.156 0.279 0.75 62.44 ? C5' GNG 201 B 1 HETATM 3 C C4' GNG . . . E 3 10.909 2.155 1.264 0.75 64.6 ? C4' GNG 201 B 1 HETATM 4 O O4' GNG . . . E 3 10.399 1.872 2.563 0.75 65.35 ? O4' GNG 201 B 1 HETATM 5 C C1' GNG . . . E 3 11.444 1.212 3.268 0.75 66.27 ? C1' GNG 201 B 1 HETATM 6 N N9 GNG . . . E 3 11.005 0.607 4.551 0.75 67.29 ? N9 GNG 201 B 1 HETATM 7 C C8 GNG . . . E 3 9.889 0.935 5.225 0.75 65.5 ? C8 GNG 201 B 1 HETATM 8 N N7 GNG . . . E 3 9.84 0.169 6.325 0.75 65.93 ? N7 GNG 201 B 1 HETATM 9 C C5 GNG . . . E 3 10.941 -0.609 6.343 0.75 65.67 ? C5 GNG 201 B 1 HETATM 10 C C4 GNG . . . E 3 11.688 -0.336 5.223 0.75 66.87 ? C4 GNG 201 B 1 HETATM 11 N N3 GNG . . . E 3 12.863 -1.01 5.009 0.75 67.55 ? N3 GNG 201 B 1 HETATM 12 C C2 GNG . . . E 3 13.293 -1.941 5.912 0.75 67.09 ? C2 GNG 201 B 1 HETATM 13 N N1 GNG . . . E 3 12.557 -2.215 6.999 0.75 66.21 ? N1 GNG 201 B 1 HETATM 14 C C6 GNG . . . E 3 11.409 -1.569 7.207 0.75 65.97 ? C6 GNG 201 B 1 HETATM 15 O O6 GNG . . . E 3 10.772 -1.849 8.217 0.75 67.5 ? O6 GNG 201 B 1 HETATM 16 N N2 GNG . . . E 3 14.439 -2.64 5.771 0.75 66.25 ? N2 GNG 201 B 1 HETATM 17 C C2' GNG . . . E 3 11.982 0.223 2.255 0.75 66.64 ? C2' GNG 201 B 1 HETATM 18 C C3' GNG . . . E 3 11.953 1.083 1.006 0.75 66.52 ? C3' GNG 201 B 1 HETATM 19 O O3' GNG . . . E 3 13.221 1.722 0.951 0.75 68.19 ? O3' GNG 201 B 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 320 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 19 #