data_2E9R # _model_server_result.job_id nCu4grbVI46fPfm8DiWoCw _model_server_result.datetime_utc '2024-12-26 05:53:15' _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 2e9r # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":3832}' # _entry.id 2E9R # _exptl.entry_id 2E9R _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 484.144 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'RIBAVIRIN TRIPHOSPHATE' _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 120 _cell.entry_id 2E9R _cell.length_a 94.094 _cell.length_b 94.094 _cell.length_c 99.285 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2E9R _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _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 # _struct_asym.details ? _struct_asym.entity_id 5 _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 metalc ? metalc1 C OD1 ASP 238 X ASP 238 1_555 D MG MG . X MG 665 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.597 ? metalc ? metalc2 C OD1 ASP 339 X ASP 339 1_555 D MG MG . X MG 665 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.953 ? metalc ? metalc3 H O HOH . X HOH 504 1_555 D MG MG . X MG 665 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.678 ? metalc ? metalc4 H O HOH . X HOH 506 1_555 D MG MG . X MG 665 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.146 ? hydrog WATSON-CRICK hydrog1 A N1 G 4 A G 905 1_555 B N3 C 6 B C 920 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N2 G 4 A G 905 1_555 B O2 C 6 B C 920 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A O6 G 4 A G 905 1_555 B N4 C 6 B C 920 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N1 G 5 A G 906 1_555 B N3 C 5 B C 919 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A N2 G 5 A G 906 1_555 B O2 C 5 B C 919 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A O6 G 5 A G 906 1_555 B N4 C 5 B C 919 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'G-C PAIR' hydrog7 A N1 G 6 A G 907 1_555 B N3 C 4 B C 918 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A N3 C 7 A C 908 1_555 B N1 G 3 B G 917 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A N4 C 7 A C 908 1_555 B O6 G 3 B G 917 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A O2 C 7 A C 908 1_555 B N2 G 3 B G 917 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'C-G PAIR' hydrog11 A O2 C 8 A C 909 1_555 B N2 G 2 B G 916 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A N3 C 9 A C 910 1_555 B N1 G 1 B G 915 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A N4 C 9 A C 910 1_555 B O6 G 1 B G 915 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A O2 C 9 A C 910 1_555 B N2 G 1 B G 915 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'C8 H15 N4 O14 P3' _chem_comp.formula_weight 484.144 _chem_comp.id RTP _chem_comp.mon_nstd_flag . _chem_comp.name 'RIBAVIRIN TRIPHOSPHATE' _chem_comp.type 'rna linking' _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 PG O1G RTP doub 392 n n PG O2G RTP sing 393 n n PG O3G RTP sing 394 n n PG O3B RTP sing 395 n n O2G HOG2 RTP sing 396 n n O3G HOG3 RTP sing 397 n n O3B PB RTP sing 398 n n PB O1B RTP doub 399 n n PB O2B RTP sing 400 n n PB O3A RTP sing 401 n n O2B HOB2 RTP sing 402 n n O3A PA RTP sing 403 n n PA O1A RTP doub 404 n n PA O2A RTP sing 405 n n PA O5' RTP sing 406 n n O2A HOA2 RTP sing 407 n n O5' C5' RTP sing 408 n n C5' C4' RTP sing 409 n n C5' "H5'1" RTP sing 410 n n C5' "H5'2" RTP sing 411 n n C4' O4' RTP sing 412 n n C4' C3' RTP sing 413 n n C4' H4' RTP sing 414 n n O4' C1' RTP sing 415 n n C1' N1 RTP sing 416 n n C1' C2' RTP sing 417 n n C1' H1' RTP sing 418 n n N1 N2 RTP sing 419 n y N1 C5 RTP sing 420 n y N2 C3 RTP doub 421 n y N3 C6 RTP sing 422 n n N3 HN31 RTP sing 423 n n N3 HN32 RTP sing 424 n n C6 O3 RTP doub 425 n n C6 C3 RTP sing 426 n n C3 N4 RTP sing 427 n y N4 C5 RTP doub 428 n y C5 H5 RTP sing 429 n n C2' O2' RTP sing 430 n n C2' C3' RTP sing 431 n n C2' H2' RTP sing 432 n n O2' HO2' RTP sing 433 n n C3' O3' RTP sing 434 n n C3' H3' RTP sing 435 n n O3' HO3' RTP sing 436 n n # _atom_sites.entry_id 2E9R _atom_sites.fract_transf_matrix[1][1] 0.010628 _atom_sites.fract_transf_matrix[1][2] 0.006136 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012272 _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] 0.010072 _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 D 4 MG X 1 665 665 MG MG . E 5 RTP X 1 3832 3832 RTP RTP . F 6 HOH A 1 507 507 HOH HOH . G 6 HOH B 1 501 501 HOH HOH . G 6 HOH B 2 503 503 HOH HOH . G 6 HOH B 3 505 505 HOH HOH . H 6 HOH X 1 502 502 HOH HOH . H 6 HOH X 2 504 504 HOH HOH . H 6 HOH X 3 506 506 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 PG RTP . . . E 5 19.975 23.974 11.934 0.8 47.89 ? PG RTP 3832 X 1 HETATM 2 O O1G RTP . . . E 5 19.468 25.412 12.041 0.8 41.37 ? O1G RTP 3832 X 1 HETATM 3 O O2G RTP . . . E 5 21.485 23.974 11.544 0.8 44.65 ? O2G RTP 3832 X 1 HETATM 4 O O3G RTP . . . E 5 19.025 23.056 11.157 0.8 42.61 ? O3G RTP 3832 X 1 HETATM 5 O O3B RTP . . . E 5 20.099 23.249 13.445 0.8 43.44 ? O3B RTP 3832 X 1 HETATM 6 P PB RTP . . . E 5 19.127 23.245 14.794 0.8 48.25 ? PB RTP 3832 X 1 HETATM 7 O O1B RTP . . . E 5 18.066 22.113 14.949 0.8 40.35 ? O1B RTP 3832 X 1 HETATM 8 O O2B RTP . . . E 5 20.139 23.279 15.97 0.8 42.76 ? O2B RTP 3832 X 1 HETATM 9 O O3A RTP . . . E 5 18.314 24.69 14.627 0.8 42.19 ? O3A RTP 3832 X 1 HETATM 10 P PA RTP . . . E 5 18.258 25.795 15.871 0.8 43.5 ? PA RTP 3832 X 1 HETATM 11 O O1A RTP . . . E 5 16.909 26.577 15.616 0.8 38.8 ? O1A RTP 3832 X 1 HETATM 12 O O2A RTP . . . E 5 19.676 26.423 15.996 0.8 36.29 ? O2A RTP 3832 X 1 HETATM 13 O O5' RTP . . . E 5 18.141 24.924 17.23 0.8 37.47 ? O5' RTP 3832 X 1 HETATM 14 C C5' RTP . . . E 5 18.452 25.676 18.441 0.8 37.92 ? C5' RTP 3832 X 1 HETATM 15 C C4' RTP . . . E 5 18.59 24.637 19.566 0.8 36.91 ? C4' RTP 3832 X 1 HETATM 16 O O4' RTP . . . E 5 18.591 25.13 20.935 0.8 34.46 ? O4' RTP 3832 X 1 HETATM 17 C C1' RTP . . . E 5 17.624 24.382 21.669 0.8 36.97 ? C1' RTP 3832 X 1 HETATM 18 N N1 RTP . . . E 5 16.447 25.301 21.761 0.8 34.84 ? N1 RTP 3832 X 1 HETATM 19 N N2 RTP . . . E 5 15.17 24.839 22.193 0.8 35.56 ? N2 RTP 3832 X 1 HETATM 20 N N3 RTP . . . E 5 12.595 27.476 22.239 0.8 39.88 ? N3 RTP 3832 X 1 HETATM 21 C C6 RTP . . . E 5 12.988 26.182 22.455 0.8 39.52 ? C6 RTP 3832 X 1 HETATM 22 O O3 RTP . . . E 5 12.289 25.261 22.9 0.8 38.96 ? O3 RTP 3832 X 1 HETATM 23 C C3 RTP . . . E 5 14.405 25.975 22.12 0.8 36.5 ? C3 RTP 3832 X 1 HETATM 24 N N4 RTP . . . E 5 15.135 27.042 21.7 0.8 36.62 ? N4 RTP 3832 X 1 HETATM 25 C C5 RTP . . . E 5 16.399 26.613 21.463 0.8 36.05 ? C5 RTP 3832 X 1 HETATM 26 C C2' RTP . . . E 5 17.13 23.236 20.794 0.8 38.07 ? C2' RTP 3832 X 1 HETATM 27 O O2' RTP . . . E 5 17.939 22.081 21.189 0.8 37.21 ? O2' RTP 3832 X 1 HETATM 28 C C3' RTP . . . E 5 17.52 23.561 19.352 0.8 37.04 ? C3' RTP 3832 X 1 HETATM 29 O O3' RTP . . . E 5 17.959 22.559 18.382 0.8 34.8 ? O3' RTP 3832 X 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 310 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 29 #