data_5K7X # _model_server_result.job_id 0eU8eWGYInKCzPtTLO0XAw _model_server_result.datetime_utc '2024-11-15 14:50:36' _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 5k7x # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":401}' # _entry.id 5K7X # _exptl.entry_id 5K7X _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 348.206 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'INOSINIC ACID' _entity.pdbx_number_of_molecules 6 _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 5K7X _cell.length_a 105.348 _cell.length_b 130.549 _cell.length_c 168.673 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5K7X _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # 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 dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 PISA dimeric 2 author_and_software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,G,H,I,J,K,L,M,N,EA,FA 1 1 C,D,O,P,Q,R,S,T,U,V,GA,HA 2 1 E,F,W,X,Y,Z,AA,BA,CA,DA,IA,JA 3 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 ? 3 H N N ? 3 L N N ? 3 P N N ? 3 T N N ? 3 X N N ? 3 BA 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 OD1 ASP 14 A ASP 13 1_555 J MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? metalc ? metalc2 A O GLY 43 A GLY 42 1_555 J MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? metalc ? metalc3 G O1G GTP . A GTP 400 1_555 J MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.229 ? metalc ? metalc4 G O3B GTP . A GTP 400 1_555 J MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.321 ? metalc ? metalc5 G O2A GTP . A GTP 400 1_555 J MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.853 ? metalc ? metalc6 I O HDA . A HDA 402 1_555 J MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.435 ? metalc ? metalc7 B OD1 ASP 14 B ASP 13 1_555 N MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.118 ? metalc ? metalc8 B O GLY 43 B GLY 42 1_555 N MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.18 ? metalc ? metalc9 K O1G GTP . B GTP 400 1_555 N MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.34 ? metalc ? metalc10 K O3B GTP . B GTP 400 1_555 N MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? metalc ? metalc11 K O2A GTP . B GTP 400 1_555 N MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.696 ? metalc ? metalc12 M O HDA . B HDA 402 1_555 N MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.41 ? metalc ? metalc13 C OD1 ASP 14 C ASP 13 1_555 R MG MG . C MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.276 ? metalc ? metalc14 C O GLY 43 C GLY 42 1_555 R MG MG . C MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.148 ? metalc ? metalc15 O O1G GTP . C GTP 400 1_555 R MG MG . C MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.303 ? metalc ? metalc16 O O3B GTP . C GTP 400 1_555 R MG MG . C MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.22 ? metalc ? metalc17 O O2A GTP . C GTP 400 1_555 R MG MG . C MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.689 ? metalc ? metalc18 Q O HDA . C HDA 402 1_555 R MG MG . C MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.203 ? metalc ? metalc19 D OD1 ASP 14 D ASP 13 1_555 V MG MG . D MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.217 ? metalc ? metalc20 D O GLY 43 D GLY 42 1_555 V MG MG . D MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.138 ? metalc ? metalc21 S O1G GTP . D GTP 400 1_555 V MG MG . D MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.384 ? metalc ? metalc22 S O3B GTP . D GTP 400 1_555 V MG MG . D MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? metalc ? metalc23 S O2A GTP . D GTP 400 1_555 V MG MG . D MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.713 ? metalc ? metalc24 U O HDA . D HDA 402 1_555 V MG MG . D MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.001 ? metalc ? metalc25 E OD1 ASP 14 E ASP 13 1_555 Z MG MG . E MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.176 ? metalc ? metalc26 E O GLY 43 E GLY 42 1_555 Z MG MG . E MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? metalc ? metalc27 W O1G GTP . E GTP 400 1_555 Z MG MG . E MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.257 ? metalc ? metalc28 W O3B GTP . E GTP 400 1_555 Z MG MG . E MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.264 ? metalc ? metalc29 W O2A GTP . E GTP 400 1_555 Z MG MG . E MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.755 ? metalc ? metalc30 Y O HDA . E HDA 402 1_555 Z MG MG . E MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.226 ? metalc ? metalc31 F OD1 ASP 14 F ASP 13 1_555 DA MG MG . F MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.257 ? metalc ? metalc32 F O GLY 43 F GLY 42 1_555 DA MG MG . F MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.152 ? metalc ? metalc33 AA O1G GTP . F GTP 400 1_555 DA MG MG . F MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.312 ? metalc ? metalc34 AA O3B GTP . F GTP 400 1_555 DA MG MG . F MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? metalc ? metalc35 AA O2A GTP . F GTP 400 1_555 DA MG MG . F MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.858 ? metalc ? metalc36 CA O HDA . F HDA 402 1_555 DA MG MG . F MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.375 ? # _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 235 n n P O2P IMP sing 236 n n P O3P IMP sing 237 n n P O5' IMP sing 238 n n O2P HOP2 IMP sing 239 n n O3P HOP3 IMP sing 240 n n O5' C5' IMP sing 241 n n C5' C4' IMP sing 242 n n C5' "H5'1" IMP sing 243 n n C5' "H5'2" IMP sing 244 n n C4' O4' IMP sing 245 n n C4' C3' IMP sing 246 n n C4' H4' IMP sing 247 n n O4' C1' IMP sing 248 n n C3' O3' IMP sing 249 n n C3' C2' IMP sing 250 n n C3' H3' IMP sing 251 n n O3' HO3' IMP sing 252 n n C2' O2' IMP sing 253 n n C2' C1' IMP sing 254 n n C2' H2' IMP sing 255 n n O2' HO2' IMP sing 256 n n C1' N9 IMP sing 257 n n C1' H1' IMP sing 258 n n N9 C8 IMP sing 259 n y N9 C4 IMP sing 260 n y C8 N7 IMP doub 261 n y C8 H8 IMP sing 262 n n N7 C5 IMP sing 263 n y C5 C6 IMP sing 264 n n C5 C4 IMP doub 265 n y C6 O6 IMP doub 266 n n C6 N1 IMP sing 267 n n N1 C2 IMP sing 268 n n N1 HN1 IMP sing 269 n n C2 N3 IMP doub 270 n n C2 H2 IMP sing 271 n n N3 C4 IMP sing 272 n n # _atom_sites.entry_id 5K7X _atom_sites.fract_transf_matrix[1][1] 0.009492 _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] 0.00766 _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] 0.005929 _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 G 2 GTP A 1 400 400 GTP GTP . H 3 IMP A 1 401 401 IMP IMP . I 4 HDA A 1 402 402 HDA HDA . J 5 MG A 1 403 403 MG MG . K 2 GTP B 1 400 400 GTP GTP . L 3 IMP B 1 401 401 IMP IMP . M 4 HDA B 1 402 402 HDA HDA . N 5 MG B 1 403 403 MG MG . O 2 GTP C 1 400 400 GTP GTP . P 3 IMP C 1 401 401 IMP IMP . Q 4 HDA C 1 402 402 HDA HDA . R 5 MG C 1 403 403 MG MG . S 2 GTP D 1 400 400 GTP GTP . T 3 IMP D 1 401 401 IMP IMP . U 4 HDA D 1 402 402 HDA HDA . V 5 MG D 1 403 403 MG MG . W 2 GTP E 1 400 400 GTP GTP . X 3 IMP E 1 401 401 IMP IMP . Y 4 HDA E 1 402 402 HDA HDA . Z 5 MG E 1 403 403 MG MG . AA 2 GTP F 1 400 400 GTP GTP . BA 3 IMP F 1 401 401 IMP IMP . CA 4 HDA F 1 402 402 HDA HDA . DA 5 MG F 1 403 403 MG MG . EA 6 HOH A 1 501 6 HOH HOH . EA 6 HOH A 2 502 55 HOH HOH . EA 6 HOH A 3 503 19 HOH HOH . EA 6 HOH A 4 504 2 HOH HOH . EA 6 HOH A 5 505 4 HOH HOH . EA 6 HOH A 6 506 53 HOH HOH . EA 6 HOH A 7 507 1 HOH HOH . EA 6 HOH A 8 508 58 HOH HOH . EA 6 HOH A 9 509 29 HOH HOH . EA 6 HOH A 10 510 52 HOH HOH . FA 6 HOH B 1 501 28 HOH HOH . FA 6 HOH B 2 502 47 HOH HOH . FA 6 HOH B 3 503 35 HOH HOH . FA 6 HOH B 4 504 57 HOH HOH . FA 6 HOH B 5 505 32 HOH HOH . FA 6 HOH B 6 506 10 HOH HOH . FA 6 HOH B 7 507 22 HOH HOH . FA 6 HOH B 8 508 39 HOH HOH . FA 6 HOH B 9 509 33 HOH HOH . FA 6 HOH B 10 510 54 HOH HOH . FA 6 HOH B 11 511 20 HOH HOH . FA 6 HOH B 12 512 51 HOH HOH . FA 6 HOH B 13 513 48 HOH HOH . GA 6 HOH C 1 501 25 HOH HOH . GA 6 HOH C 2 502 12 HOH HOH . GA 6 HOH C 3 503 7 HOH HOH . GA 6 HOH C 4 504 37 HOH HOH . GA 6 HOH C 5 505 41 HOH HOH . GA 6 HOH C 6 506 17 HOH HOH . GA 6 HOH C 7 507 46 HOH HOH . GA 6 HOH C 8 508 11 HOH HOH . GA 6 HOH C 9 509 56 HOH HOH . GA 6 HOH C 10 510 18 HOH HOH . GA 6 HOH C 11 511 13 HOH HOH . GA 6 HOH C 12 512 26 HOH HOH . HA 6 HOH D 1 501 31 HOH HOH . HA 6 HOH D 2 502 45 HOH HOH . HA 6 HOH D 3 503 9 HOH HOH . HA 6 HOH D 4 504 16 HOH HOH . HA 6 HOH D 5 505 43 HOH HOH . IA 6 HOH E 1 501 34 HOH HOH . IA 6 HOH E 2 502 44 HOH HOH . IA 6 HOH E 3 503 42 HOH HOH . IA 6 HOH E 4 504 49 HOH HOH . IA 6 HOH E 5 505 30 HOH HOH . IA 6 HOH E 6 506 38 HOH HOH . JA 6 HOH F 1 501 50 HOH HOH . JA 6 HOH F 2 502 15 HOH HOH . JA 6 HOH F 3 503 40 HOH HOH . JA 6 HOH F 4 504 36 HOH HOH . JA 6 HOH F 5 505 21 HOH HOH . JA 6 HOH F 6 506 24 HOH HOH . JA 6 HOH F 7 507 14 HOH HOH . JA 6 HOH F 8 508 27 HOH HOH . JA 6 HOH F 9 509 5 HOH HOH . JA 6 HOH F 10 510 3 HOH HOH . JA 6 HOH F 11 511 23 HOH HOH . JA 6 HOH F 12 512 8 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 . . . H 3 15.769 15.038 -62.513 1 88.14 ? P IMP 401 A 1 HETATM 2 O O1P IMP . . . H 3 14.552 15.834 -62.924 1 66.72 ? O1P IMP 401 A 1 HETATM 3 O O2P IMP . . . H 3 15.863 14.591 -61.079 1 100.07 1 O2P IMP 401 A 1 HETATM 4 O O3P IMP . . . H 3 15.855 13.806 -63.384 1 88.52 ? O3P IMP 401 A 1 HETATM 5 O O5' IMP . . . H 3 17.064 15.933 -62.766 1 105.42 ? O5' IMP 401 A 1 HETATM 6 C C5' IMP . . . H 3 16.966 17.214 -63.381 1 111.97 ? C5' IMP 401 A 1 HETATM 7 C C4' IMP . . . H 3 18.079 18.134 -62.939 1 112.43 ? C4' IMP 401 A 1 HETATM 8 O O4' IMP . . . H 3 18.481 17.789 -61.583 1 114.51 ? O4' IMP 401 A 1 HETATM 9 C C3' IMP . . . H 3 19.351 18.078 -63.782 1 113.41 ? C3' IMP 401 A 1 HETATM 10 O O3' IMP . . . H 3 19.97 19.365 -63.778 1 102.23 ? O3' IMP 401 A 1 HETATM 11 C C2' IMP . . . H 3 20.216 17.094 -63.002 1 121.43 ? C2' IMP 401 A 1 HETATM 12 O O2' IMP . . . H 3 21.603 17.209 -63.244 1 130.54 ? O2' IMP 401 A 1 HETATM 13 C C1' IMP . . . H 3 19.858 17.455 -61.563 1 118.04 ? C1' IMP 401 A 1 HETATM 14 N N9 IMP . . . H 3 20.059 16.365 -60.603 1 119.61 ? N9 IMP 401 A 1 HETATM 15 C C8 IMP . . . H 3 19.171 15.366 -60.296 1 115.64 ? C8 IMP 401 A 1 HETATM 16 N N7 IMP . . . H 3 19.731 14.565 -59.359 1 117.89 ? N7 IMP 401 A 1 HETATM 17 C C5 IMP . . . H 3 20.962 15.035 -59.06 1 120.75 ? C5 IMP 401 A 1 HETATM 18 C C6 IMP . . . H 3 21.939 14.595 -58.173 1 116.57 ? C6 IMP 401 A 1 HETATM 19 O O6 IMP . . . H 3 21.595 13.904 -57.214 1 115.59 ? O6 IMP 401 A 1 HETATM 20 N N1 IMP . . . H 3 23.124 15.297 -58.086 1 111.12 ? N1 IMP 401 A 1 HETATM 21 C C2 IMP . . . H 3 23.324 16.421 -58.861 1 110.58 ? C2 IMP 401 A 1 HETATM 22 N N3 IMP . . . H 3 22.347 16.849 -59.734 1 117.21 ? N3 IMP 401 A 1 HETATM 23 C C4 IMP . . . H 3 21.181 16.168 -59.833 1 121.78 ? C4 IMP 401 A 1 # _model_server_stats.io_time_ms 32 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 267 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 23 #