data_5URQ # _model_server_result.job_id oo9ky_jyU_m_kiyQ94ZaMg _model_server_result.datetime_utc '2024-11-08 07:10:13' _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 5urq # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":500}' # _entry.id 5URQ # _exptl.entry_id 5URQ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 348.206 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'INOSINIC ACID' _entity.pdbx_number_of_molecules 8 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 94.47 _cell.angle_gamma 90 _cell.entry_id 5URQ _cell.length_a 98.487 _cell.length_b 141.793 _cell.length_c 121.64 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5URQ _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA tetrameric 4 author_and_software_defined_assembly 1 PISA tetrameric 4 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,I,J,K,L,M,N,O,P,Q,R,S,T,GA,HA,IA 1 1 E,F,G,H,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,JA,KA,LA 2 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 I N N ? 2 M N N ? 2 P N N ? 2 R N N ? 2 U N N ? 2 Y N N ? 2 BA N N ? 2 EA 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 metalc ? metalc1 A O GLY 217 A GLY 296 1_555 K K K . A K 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.725 ? metalc ? metalc2 A O GLY 219 A GLY 298 1_555 K K K . A K 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.785 ? metalc ? metalc3 A O CYS 222 A CYS 301 1_555 K K K . A K 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.856 ? metalc ? metalc4 A O GLU 386 A GLU 465 1_555 L K K . A K 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.763 ? metalc ? metalc5 A O SER 387 A SER 466 1_555 L K K . A K 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.036 ? metalc ? metalc6 A O HIS 388 A HIS 467 1_555 L K K . A K 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.881 ? metalc ? metalc7 K K K . A K 503 1_555 D O GLU 386 D GLU 465 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.915 ? metalc ? metalc8 K K K . A K 503 1_555 D O SER 387 D SER 466 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.251 ? metalc ? metalc9 K K K . A K 503 1_555 D O HIS 388 D HIS 467 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.621 ? metalc ? metalc10 L K K . A K 504 1_555 B O GLY 217 B GLY 296 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.847 ? metalc ? metalc11 L K K . A K 504 1_555 B O GLY 219 B GLY 298 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.627 ? metalc ? metalc12 L K K . A K 504 1_555 B O CYS 222 B CYS 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.823 ? metalc ? metalc13 B O GLU 386 B GLU 465 1_555 O K K . B K 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.694 ? metalc ? metalc14 B O SER 387 B SER 466 1_555 O K K . B K 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.881 ? metalc ? metalc15 B O HIS 388 B HIS 467 1_555 O K K . B K 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.879 ? metalc ? metalc16 O K K . B K 502 1_555 C O GLY 217 C GLY 296 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.081 ? metalc ? metalc17 O K K . B K 502 1_555 C O GLY 219 C GLY 298 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.796 ? metalc ? metalc18 O K K . B K 502 1_555 C O CYS 222 C CYS 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.817 ? metalc ? metalc19 C O GLU 386 C GLU 465 1_555 T K K . D K 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.825 ? metalc ? metalc20 C O HIS 388 C HIS 467 1_555 T K K . D K 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.992 ? metalc ? metalc21 D O GLY 217 D GLY 296 1_555 T K K . D K 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.121 ? metalc ? metalc22 D O GLY 219 D GLY 298 1_555 T K K . D K 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.817 ? metalc ? metalc23 D O CYS 222 D CYS 301 1_555 T K K . D K 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.833 ? metalc ? metalc24 E O GLY 217 E GLY 296 1_555 W K K . E K 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.785 ? metalc ? metalc25 E O GLY 219 E GLY 298 1_555 W K K . E K 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.616 ? metalc ? metalc26 E O CYS 222 E CYS 301 1_555 W K K . E K 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.73 ? metalc ? metalc27 E O GLU 386 E GLU 465 1_555 X K K . E K 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.617 ? metalc ? metalc28 E O SER 387 E SER 466 1_555 X K K . E K 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.224 ? metalc ? metalc29 E O HIS 388 E HIS 467 1_555 X K K . E K 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.891 ? metalc ? metalc30 W K K . E K 503 1_555 G O GLU 386 H GLU 465 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.744 ? metalc ? metalc31 W K K . E K 503 1_555 G O SER 387 H SER 466 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.879 ? metalc ? metalc32 W K K . E K 503 1_555 G O HIS 388 H HIS 467 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.075 ? metalc ? metalc33 X K K . E K 504 1_555 JA O HOH . E HOH 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.228 ? metalc ? metalc34 X K K . E K 504 1_555 F O GLY 217 F GLY 296 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.032 ? metalc ? metalc35 X K K . E K 504 1_555 F O GLY 219 F GLY 298 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.722 ? metalc ? metalc36 X K K . E K 504 1_555 F O CYS 222 F CYS 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.787 ? metalc ? metalc37 F O GLU 386 F GLU 465 1_555 AA K K . F K 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.619 ? metalc ? metalc38 F O SER 387 F SER 466 1_555 AA K K . F K 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.852 ? metalc ? metalc39 F O HIS 388 F HIS 467 1_555 AA K K . F K 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.256 ? metalc ? metalc40 AA K K . F K 502 1_555 H O GLY 217 G GLY 296 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.063 ? metalc ? metalc41 AA K K . F K 502 1_555 H O GLY 219 G GLY 298 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.605 ? metalc ? metalc42 AA K K . F K 502 1_555 H O CYS 222 G CYS 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.762 ? metalc ? metalc43 G O GLY 217 H GLY 296 1_555 DA K K . G K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.256 ? metalc ? metalc44 G O GLY 219 H GLY 298 1_555 DA K K . G K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.766 ? metalc ? metalc45 G O CYS 222 H CYS 301 1_555 DA K K . G K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.754 ? metalc ? metalc46 H O GLU 386 G GLU 465 1_555 DA K K . G K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.782 ? metalc ? metalc47 H O SER 387 G SER 466 1_555 DA K K . G K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.971 ? metalc ? metalc48 H O HIS 388 G HIS 467 1_555 DA K K . G K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.829 ? # _chem_comp.formula 'C10 H13 N4 O8 P' _chem_comp.formula_weight 348.206 _chem_comp.id IMP _chem_comp.mon_nstd_flag n _chem_comp.name 'INOSINIC ACID' _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 P O1P IMP doub 238 n n P O2P IMP sing 239 n n P O3P IMP sing 240 n n P O5' IMP sing 241 n n O2P HOP2 IMP sing 242 n n O3P HOP3 IMP sing 243 n n O5' C5' IMP sing 244 n n C5' C4' IMP sing 245 n n C5' "H5'1" IMP sing 246 n n C5' "H5'2" IMP sing 247 n n C4' O4' IMP sing 248 n n C4' C3' IMP sing 249 n n C4' H4' IMP sing 250 n n O4' C1' IMP sing 251 n n C3' O3' IMP sing 252 n n C3' C2' IMP sing 253 n n C3' H3' IMP sing 254 n n O3' HO3' IMP sing 255 n n C2' O2' IMP sing 256 n n C2' C1' IMP sing 257 n n C2' H2' IMP sing 258 n n O2' HO2' IMP sing 259 n n C1' N9 IMP sing 260 n n C1' H1' IMP sing 261 n n N9 C8 IMP sing 262 n y N9 C4 IMP sing 263 n y C8 N7 IMP doub 264 n y C8 H8 IMP sing 265 n n N7 C5 IMP sing 266 n y C5 C6 IMP sing 267 n n C5 C4 IMP doub 268 n y C6 O6 IMP doub 269 n n C6 N1 IMP sing 270 n n N1 C2 IMP sing 271 n n N1 HN1 IMP sing 272 n n C2 N3 IMP doub 273 n n C2 H2 IMP sing 274 n n N3 C4 IMP sing 275 n n # _atom_sites.entry_id 5URQ _atom_sites.fract_transf_matrix[1][1] 0.010154 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000794 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007053 _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] 0.008246 _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 I 2 IMP A 1 501 500 IMP IMP . J 3 8L7 A 1 502 501 8L7 176 . K 4 K A 1 503 502 K K . L 4 K A 1 504 502 K K . M 2 IMP B 1 500 500 IMP IMP . N 3 8L7 B 1 501 501 8L7 176 . O 4 K B 1 502 502 K K . P 2 IMP C 1 500 500 IMP IMP . Q 3 8L7 C 1 501 501 8L7 176 . R 2 IMP D 1 500 500 IMP IMP . S 3 8L7 D 1 501 501 8L7 176 . T 4 K D 1 502 502 K K . U 2 IMP E 1 501 500 IMP IMP . V 3 8L7 E 1 502 501 8L7 176 . W 4 K E 1 503 502 K K . X 4 K E 1 504 502 K K . Y 2 IMP F 1 500 500 IMP IMP . Z 3 8L7 F 1 501 501 8L7 176 . AA 4 K F 1 502 502 K K . BA 2 IMP H 1 500 500 IMP IMP . CA 3 8L7 H 1 501 501 8L7 176 . DA 4 K G 1 501 502 K K . EA 2 IMP G 1 502 500 IMP IMP . FA 3 8L7 G 1 503 501 8L7 176 . GA 5 HOH A 1 601 17 HOH HOH . GA 5 HOH A 2 602 8 HOH HOH . GA 5 HOH A 3 603 6 HOH HOH . HA 5 HOH B 1 601 7 HOH HOH . HA 5 HOH B 2 602 16 HOH HOH . IA 5 HOH D 1 601 10 HOH HOH . IA 5 HOH D 2 602 13 HOH HOH . IA 5 HOH D 3 603 14 HOH HOH . JA 5 HOH E 1 601 11 HOH HOH . JA 5 HOH E 2 602 3 HOH HOH . JA 5 HOH E 3 603 12 HOH HOH . KA 5 HOH F 1 601 5 HOH HOH . KA 5 HOH F 2 602 15 HOH HOH . KA 5 HOH F 3 603 9 HOH HOH . KA 5 HOH F 4 604 4 HOH HOH . LA 5 HOH G 1 601 1 HOH HOH . LA 5 HOH G 2 602 2 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 P P IMP . . . M 2 54.915 16.372 -21.308 1 46.78 ? P IMP 500 B 1 HETATM 2 O O1P IMP . . . M 2 54.452 15.408 -22.373 1 46.02 ? O1P IMP 500 B 1 HETATM 3 O O2P IMP . . . M 2 55.801 17.509 -21.768 1 47.95 ? O2P IMP 500 B 1 HETATM 4 O O3P IMP . . . M 2 53.679 16.964 -20.668 1 44.92 ? O3P IMP 500 B 1 HETATM 5 O O5' IMP . . . M 2 55.66 15.585 -20.136 1 44.65 ? O5' IMP 500 B 1 HETATM 6 C C5' IMP . . . M 2 56.648 14.588 -20.397 1 45.28 ? C5' IMP 500 B 1 HETATM 7 C C4' IMP . . . M 2 57.246 14.07 -19.106 1 46.65 ? C4' IMP 500 B 1 HETATM 8 O O4' IMP . . . M 2 56.338 13.151 -18.479 1 48.63 ? O4' IMP 500 B 1 HETATM 9 C C3' IMP . . . M 2 58.554 13.319 -19.218 1 46.51 ? C3' IMP 500 B 1 HETATM 10 O O3' IMP . . . M 2 59.635 14.24 -19.145 1 47.84 ? O3' IMP 500 B 1 HETATM 11 C C2' IMP . . . M 2 58.551 12.437 -17.966 1 46.14 ? C2' IMP 500 B 1 HETATM 12 O O2' IMP . . . M 2 59.19 13.011 -16.849 1 45.35 ? O2' IMP 500 B 1 HETATM 13 C C1' IMP . . . M 2 57.06 12.228 -17.678 1 48.01 ? C1' IMP 500 B 1 HETATM 14 N N9 IMP . . . M 2 56.587 10.872 -17.98 1 48.82 ? N9 IMP 500 B 1 HETATM 15 C C8 IMP . . . M 2 56.903 10.112 -19.071 1 48.68 ? C8 IMP 500 B 1 HETATM 16 N N7 IMP . . . M 2 56.252 8.93 -18.975 1 49.06 ? N7 IMP 500 B 1 HETATM 17 C C5 IMP . . . M 2 55.514 8.922 -17.846 1 49.97 ? C5 IMP 500 B 1 HETATM 18 C C6 IMP . . . M 2 54.649 7.973 -17.29 1 50.89 ? C6 IMP 500 B 1 HETATM 19 O O6 IMP . . . M 2 54.026 7.236 -18.053 1 49.78 ? O6 IMP 500 B 1 HETATM 20 N N1 IMP . . . M 2 54.029 8.264 -16.09 1 51.61 ? N1 IMP 500 B 1 HETATM 21 C C2 IMP . . . M 2 54.245 9.482 -15.49 1 51.34 ? C2 IMP 500 B 1 HETATM 22 N N3 IMP . . . M 2 55.09 10.416 -16.054 1 51.2 ? N3 IMP 500 B 1 HETATM 23 C C4 IMP . . . M 2 55.717 10.142 -17.217 1 49.83 ? C4 IMP 500 B 1 # _model_server_stats.io_time_ms 49 _model_server_stats.parse_time_ms 35 _model_server_stats.create_model_time_ms 33 _model_server_stats.query_time_ms 332 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 23 #