data_1R16 # _model_server_result.job_id 0NfOBrK5rYjamM4k_fZp5A _model_server_result.datetime_utc '2024-11-27 15:51:57' _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 1r16 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":1179}' # _entry.id 1R16 # _exptl.entry_id 1R16 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 214.11 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ANY 5'-MONOPHOSPHATE NUCLEOTIDE" _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 100.7 _cell.angle_gamma 90 _cell.entry_id 1R16 _cell.length_a 70.293 _cell.length_b 58.349 _cell.length_c 72.368 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1R16 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _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,H _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 disulf ? disulf1 A SG CYS 15 A CYS 15 1_555 A SG CYS 34 A CYS 34 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.09 ? disulf ? disulf2 A SG CYS 51 A CYS 51 1_555 A SG CYS 131 A CYS 131 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? disulf ? disulf3 A SG CYS 112 A CYS 112 1_555 A SG CYS 125 A CYS 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? disulf ? disulf4 A SG CYS 206 A CYS 206 1_555 A SG CYS 227 A CYS 227 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? disulf ? disulf5 A SG CYS 239 A CYS 239 1_555 A SG CYS 248 A CYS 248 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf6 B SG CYS 15 B CYS 15 1_555 B SG CYS 34 B CYS 34 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? disulf ? disulf7 B SG CYS 51 B CYS 51 1_555 B SG CYS 131 B CYS 131 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf8 B SG CYS 112 B CYS 112 1_555 B SG CYS 125 B CYS 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? disulf ? disulf9 B SG CYS 206 B CYS 206 1_555 B SG CYS 227 B CYS 227 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? disulf ? disulf10 B SG CYS 239 B CYS 239 1_555 B SG CYS 248 B CYS 248 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? covale ? covale1 A OE2 GLU 179 A GLU 179 1_555 C C3' N . A N 1179 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.534 ? covale ? covale2 B OE2 GLU 179 B GLU 179 1_555 E C3' N . B N 1179 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.556 ? # _chem_comp.formula 'C5 H11 O7 P' _chem_comp.formula_weight 214.11 _chem_comp.id N _chem_comp.mon_nstd_flag . _chem_comp.name "ANY 5'-MONOPHOSPHATE NUCLEOTIDE" _chem_comp.type 'rna linking' _chem_comp.pdbx_synonyms "1-DEOXY-RIBOFURANOSE-5'-PHOSPHATE" # _atom_sites.entry_id 1R16 _atom_sites.fract_transf_matrix[1][1] 0.014226 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002688 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.017138 _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] 0.014063 _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 N A 1 1179 179 N GLR . D 3 PYF A 1 400 400 PYF PYC . E 2 N B 1 1179 179 N GLR . F 3 PYF B 1 300 300 PYF PYC . G 4 HOH A 1 1180 1 HOH WAT . G 4 HOH A 2 1181 2 HOH WAT . G 4 HOH A 3 1182 4 HOH WAT . G 4 HOH A 4 1183 5 HOH WAT . G 4 HOH A 5 1184 7 HOH WAT . G 4 HOH A 6 1185 10 HOH WAT . G 4 HOH A 7 1186 12 HOH WAT . G 4 HOH A 8 1187 18 HOH WAT . G 4 HOH A 9 1188 19 HOH WAT . G 4 HOH A 10 1189 20 HOH WAT . G 4 HOH A 11 1190 24 HOH WAT . G 4 HOH A 12 1191 25 HOH WAT . G 4 HOH A 13 1192 28 HOH WAT . G 4 HOH A 14 1193 29 HOH WAT . G 4 HOH A 15 1194 30 HOH WAT . G 4 HOH A 16 1195 32 HOH WAT . G 4 HOH A 17 1196 35 HOH WAT . G 4 HOH A 18 1197 37 HOH WAT . G 4 HOH A 19 1198 38 HOH WAT . G 4 HOH A 20 1199 39 HOH WAT . G 4 HOH A 21 1200 41 HOH WAT . G 4 HOH A 22 1201 43 HOH WAT . G 4 HOH A 23 1202 46 HOH WAT . G 4 HOH A 24 1203 49 HOH WAT . G 4 HOH A 25 1204 51 HOH WAT . G 4 HOH A 26 1205 52 HOH WAT . G 4 HOH A 27 1206 54 HOH WAT . G 4 HOH A 28 1207 56 HOH WAT . G 4 HOH A 29 1208 60 HOH WAT . G 4 HOH A 30 1209 61 HOH WAT . G 4 HOH A 31 1210 62 HOH WAT . G 4 HOH A 32 1211 63 HOH WAT . G 4 HOH A 33 1212 68 HOH WAT . G 4 HOH A 34 1213 70 HOH WAT . G 4 HOH A 35 1214 71 HOH WAT . G 4 HOH A 36 1215 72 HOH WAT . G 4 HOH A 37 1216 73 HOH WAT . G 4 HOH A 38 1217 77 HOH WAT . G 4 HOH A 39 1218 78 HOH WAT . G 4 HOH A 40 1219 79 HOH WAT . G 4 HOH A 41 1220 80 HOH WAT . G 4 HOH A 42 1221 82 HOH WAT . G 4 HOH A 43 1222 85 HOH WAT . G 4 HOH A 44 1223 87 HOH WAT . G 4 HOH A 45 1224 88 HOH WAT . G 4 HOH A 46 1225 90 HOH WAT . G 4 HOH A 47 1226 91 HOH WAT . G 4 HOH A 48 1227 92 HOH WAT . G 4 HOH A 49 1228 93 HOH WAT . G 4 HOH A 50 1229 94 HOH WAT . G 4 HOH A 51 1230 95 HOH WAT . G 4 HOH A 52 1231 96 HOH WAT . H 4 HOH B 1 1180 3 HOH WAT . H 4 HOH B 2 1181 6 HOH WAT . H 4 HOH B 3 1182 8 HOH WAT . H 4 HOH B 4 1183 9 HOH WAT . H 4 HOH B 5 1184 11 HOH WAT . H 4 HOH B 6 1185 13 HOH WAT . H 4 HOH B 7 1186 14 HOH WAT . H 4 HOH B 8 1187 15 HOH WAT . H 4 HOH B 9 1188 16 HOH WAT . H 4 HOH B 10 1189 17 HOH WAT . H 4 HOH B 11 1190 21 HOH WAT . H 4 HOH B 12 1191 22 HOH WAT . H 4 HOH B 13 1192 23 HOH WAT . H 4 HOH B 14 1193 26 HOH WAT . H 4 HOH B 15 1194 27 HOH WAT . H 4 HOH B 16 1195 31 HOH WAT . H 4 HOH B 17 1196 33 HOH WAT . H 4 HOH B 18 1197 34 HOH WAT . H 4 HOH B 19 1198 36 HOH WAT . H 4 HOH B 20 1199 40 HOH WAT . H 4 HOH B 21 1200 42 HOH WAT . H 4 HOH B 22 1201 44 HOH WAT . H 4 HOH B 23 1202 47 HOH WAT . H 4 HOH B 24 1203 48 HOH WAT . H 4 HOH B 25 1204 50 HOH WAT . H 4 HOH B 26 1205 53 HOH WAT . H 4 HOH B 27 1206 55 HOH WAT . H 4 HOH B 28 1207 57 HOH WAT . H 4 HOH B 29 1208 58 HOH WAT . H 4 HOH B 30 1209 64 HOH WAT . H 4 HOH B 31 1210 65 HOH WAT . H 4 HOH B 32 1211 66 HOH WAT . H 4 HOH B 33 1212 67 HOH WAT . H 4 HOH B 34 1213 69 HOH WAT . H 4 HOH B 35 1214 74 HOH WAT . H 4 HOH B 36 1215 75 HOH WAT . H 4 HOH B 37 1216 81 HOH WAT . H 4 HOH B 38 1217 83 HOH WAT . H 4 HOH B 39 1218 86 HOH WAT . H 4 HOH B 40 1219 89 HOH WAT . # 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 OP3 N . . . E 2 7.122 -8.291 9.92 1 47.04 ? OP3 N 1179 B 1 HETATM 2 P P N . . . E 2 5.756 -7.644 9.954 1 43.86 ? P N 1179 B 1 HETATM 3 O OP1 N . . . E 2 4.756 -8.319 10.921 1 43.65 ? OP1 N 1179 B 1 HETATM 4 O OP2 N . . . E 2 5.399 -7.378 8.473 1 41.61 ? OP2 N 1179 B 1 HETATM 5 O O5' N . . . E 2 6.15 -5.969 10.338 1 45.84 ? O5' N 1179 B 1 HETATM 6 C C5' N . . . E 2 7.026 -5.201 9.383 1 45.59 ? C5' N 1179 B 1 HETATM 7 C C4' N . . . E 2 6.892 -3.725 9.23 1 45.07 ? C4' N 1179 B 1 HETATM 8 O O4' N . . . E 2 7.464 -3.259 10.571 1 46.54 ? O4' N 1179 B 1 HETATM 9 C C3' N . . . E 2 7.743 -2.954 8.165 1 44.13 ? C3' N 1179 B 1 HETATM 10 O O3' N . . . E 2 8.205 -3.841 7.112 1 43.18 ? O3' N 1179 B 1 HETATM 11 C C2' N . . . E 2 9.025 -2.515 8.993 1 44.7 ? C2' N 1179 B 1 HETATM 12 O O2' N . . . E 2 9.636 -1.334 8.492 1 45.28 ? O2' N 1179 B 1 HETATM 13 C C1' N . . . E 2 8.565 -2.336 10.557 1 45.84 ? C1' N 1179 B 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 271 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 13 #