data_1V9H # _model_server_result.job_id V1ggtlGERT8eyU2bFRmsbQ _model_server_result.datetime_utc '2024-10-21 09:27:47' _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 1v9h # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":1001}' # _entry.id 1V9H # _exptl.entry_id 1V9H _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 324.181 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "URIDINE-5'-MONOPHOSPHATE" _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 1V9H _cell.length_a 52.675 _cell.length_b 61.996 _cell.length_c 76.393 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1V9H _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 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 22 A CYS 15 1_555 A SG CYS 30 A CYS 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 A SG CYS 55 A CYS 48 1_555 A SG CYS 98 A CYS 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf3 A SG CYS 158 A CYS 151 1_555 A SG CYS 191 A CYS 184 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf4 A SG CYS 175 A CYS 168 1_555 A SG CYS 186 A CYS 179 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? # _chem_comp.formula 'C9 H13 N2 O9 P' _chem_comp.formula_weight 324.181 _chem_comp.id U5P _chem_comp.mon_nstd_flag . _chem_comp.name "URIDINE-5'-MONOPHOSPHATE" _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 N1 C2 U5P sing 362 n n N1 C6 U5P sing 363 n n N1 C1' U5P sing 364 n n C2 N3 U5P sing 365 n n C2 O2 U5P doub 366 n n N3 C4 U5P sing 367 n n N3 HN3 U5P sing 368 n n C4 C5 U5P sing 369 n n C4 O4 U5P doub 370 n n C5 C6 U5P doub 371 n n C5 H5 U5P sing 372 n n C6 H6 U5P sing 373 n n C1' C2' U5P sing 374 n n C1' O4' U5P sing 375 n n C1' H1' U5P sing 376 n n C2' O2' U5P sing 377 n n C2' C3' U5P sing 378 n n C2' H2' U5P sing 379 n n O2' HO2' U5P sing 380 n n C3' C4' U5P sing 381 n n C3' O3' U5P sing 382 n n C3' H3' U5P sing 383 n n C4' O4' U5P sing 384 n n C4' C5' U5P sing 385 n n C4' H4' U5P sing 386 n n O3' HO3' U5P sing 387 n n C5' O5' U5P sing 388 n n C5' "H5'1" U5P sing 389 n n C5' "H5'2" U5P sing 390 n n O5' P U5P sing 391 n n P O1P U5P doub 392 n n P O2P U5P sing 393 n n P O3P U5P sing 394 n n O2P HOP2 U5P sing 395 n n O3P HOP3 U5P sing 396 n n # _atom_sites.entry_id 1V9H _atom_sites.fract_transf_matrix[1][1] 0.018984 _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] 0.01613 _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] 0.01309 _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 B 2 SO4 A 1 301 301 SO4 SO4 . C 2 SO4 A 1 302 302 SO4 SO4 . D 2 SO4 A 1 303 303 SO4 SO4 . E 3 U5P A 1 1001 1 U5P U5P . F 4 HOH A 1 1002 1 HOH TIP . F 4 HOH A 2 1003 2 HOH TIP . F 4 HOH A 3 1004 3 HOH TIP . F 4 HOH A 4 1005 4 HOH TIP . F 4 HOH A 5 1006 5 HOH TIP . F 4 HOH A 6 1007 6 HOH TIP . F 4 HOH A 7 1008 7 HOH TIP . F 4 HOH A 8 1009 8 HOH TIP . F 4 HOH A 9 1010 9 HOH TIP . F 4 HOH A 10 1011 10 HOH TIP . F 4 HOH A 11 1012 11 HOH TIP . F 4 HOH A 12 1013 12 HOH TIP . F 4 HOH A 13 1014 13 HOH TIP . F 4 HOH A 14 1015 14 HOH TIP . F 4 HOH A 15 1016 15 HOH TIP . F 4 HOH A 16 1017 16 HOH TIP . F 4 HOH A 17 1018 17 HOH TIP . F 4 HOH A 18 1019 18 HOH TIP . F 4 HOH A 19 1020 19 HOH TIP . F 4 HOH A 20 1021 20 HOH TIP . F 4 HOH A 21 1022 21 HOH TIP . F 4 HOH A 22 1023 22 HOH TIP . F 4 HOH A 23 1024 23 HOH TIP . F 4 HOH A 24 1025 24 HOH TIP . F 4 HOH A 25 1026 25 HOH TIP . F 4 HOH A 26 1027 26 HOH TIP . F 4 HOH A 27 1028 27 HOH TIP . F 4 HOH A 28 1029 28 HOH TIP . F 4 HOH A 29 1030 29 HOH TIP . F 4 HOH A 30 1031 30 HOH TIP . F 4 HOH A 31 1032 31 HOH TIP . F 4 HOH A 32 1033 32 HOH TIP . F 4 HOH A 33 1034 33 HOH TIP . F 4 HOH A 34 1035 34 HOH TIP . F 4 HOH A 35 1036 35 HOH TIP . F 4 HOH A 36 1037 36 HOH TIP . F 4 HOH A 37 1038 37 HOH TIP . F 4 HOH A 38 1039 38 HOH TIP . F 4 HOH A 39 1040 39 HOH TIP . F 4 HOH A 40 1041 40 HOH TIP . F 4 HOH A 41 1042 41 HOH TIP . F 4 HOH A 42 1043 42 HOH TIP . F 4 HOH A 43 1044 43 HOH TIP . F 4 HOH A 44 1045 44 HOH TIP . F 4 HOH A 45 1046 45 HOH TIP . F 4 HOH A 46 1047 46 HOH TIP . F 4 HOH A 47 1048 47 HOH TIP . F 4 HOH A 48 1049 48 HOH TIP . F 4 HOH A 49 1050 49 HOH TIP . F 4 HOH A 50 1051 50 HOH TIP . F 4 HOH A 51 1052 51 HOH TIP . F 4 HOH A 52 1053 52 HOH TIP . F 4 HOH A 53 1054 53 HOH TIP . F 4 HOH A 54 1055 54 HOH TIP . F 4 HOH A 55 1056 55 HOH TIP . F 4 HOH A 56 1057 56 HOH TIP . F 4 HOH A 57 1058 57 HOH TIP . F 4 HOH A 58 1059 58 HOH TIP . F 4 HOH A 59 1060 59 HOH TIP . F 4 HOH A 60 1061 60 HOH TIP . F 4 HOH A 61 1062 61 HOH TIP . F 4 HOH A 62 1063 62 HOH TIP . F 4 HOH A 63 1064 63 HOH TIP . F 4 HOH A 64 1065 64 HOH TIP . F 4 HOH A 65 1066 65 HOH TIP . F 4 HOH A 66 1067 66 HOH TIP . F 4 HOH A 67 1068 67 HOH TIP . F 4 HOH A 68 1069 68 HOH TIP . F 4 HOH A 69 1070 69 HOH TIP . F 4 HOH A 70 1071 70 HOH TIP . F 4 HOH A 71 1072 71 HOH TIP . F 4 HOH A 72 1073 72 HOH TIP . F 4 HOH A 73 1074 73 HOH TIP . F 4 HOH A 74 1075 74 HOH TIP . F 4 HOH A 75 1076 75 HOH TIP . F 4 HOH A 76 1077 76 HOH TIP . F 4 HOH A 77 1078 77 HOH TIP . F 4 HOH A 78 1079 78 HOH TIP . F 4 HOH A 79 1080 79 HOH TIP . F 4 HOH A 80 1081 80 HOH TIP . F 4 HOH A 81 1082 81 HOH TIP . F 4 HOH A 82 1083 82 HOH TIP . F 4 HOH A 83 1084 83 HOH TIP . F 4 HOH A 84 1085 84 HOH TIP . F 4 HOH A 85 1086 85 HOH TIP . F 4 HOH A 86 1087 86 HOH TIP . F 4 HOH A 87 1088 87 HOH TIP . F 4 HOH A 88 1089 88 HOH TIP . F 4 HOH A 89 1090 89 HOH TIP . F 4 HOH A 90 1091 90 HOH TIP . F 4 HOH A 91 1092 91 HOH TIP . F 4 HOH A 92 1093 92 HOH TIP . F 4 HOH A 93 1094 93 HOH TIP . F 4 HOH A 94 1095 94 HOH TIP . F 4 HOH A 95 1096 95 HOH TIP . F 4 HOH A 96 1097 96 HOH TIP . F 4 HOH A 97 1098 97 HOH TIP . F 4 HOH A 98 1099 98 HOH TIP . F 4 HOH A 99 1100 99 HOH TIP . F 4 HOH A 100 1101 100 HOH TIP . F 4 HOH A 101 1102 101 HOH TIP . F 4 HOH A 102 1103 102 HOH TIP . F 4 HOH A 103 1104 103 HOH TIP . F 4 HOH A 104 1105 104 HOH TIP . F 4 HOH A 105 1106 105 HOH TIP . F 4 HOH A 106 1107 106 HOH TIP . F 4 HOH A 107 1108 107 HOH TIP . F 4 HOH A 108 1109 108 HOH TIP . F 4 HOH A 109 1110 109 HOH TIP . F 4 HOH A 110 1111 110 HOH TIP . F 4 HOH A 111 1112 111 HOH TIP . F 4 HOH A 112 1113 112 HOH TIP . # 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 N N1 U5P . . . E 3 11.465 -40.484 17.251 1 19.18 ? N1 U5P 1001 A 1 HETATM 2 C C2 U5P . . . E 3 11.679 -41.64 16.478 1 19.19 ? C2 U5P 1001 A 1 HETATM 3 N N3 U5P . . . E 3 12.617 -42.515 16.973 1 18.11 ? N3 U5P 1001 A 1 HETATM 4 C C4 U5P . . . E 3 13.366 -42.371 18.152 1 17.42 ? C4 U5P 1001 A 1 HETATM 5 C C5 U5P . . . E 3 13.087 -41.159 18.886 1 17.68 ? C5 U5P 1001 A 1 HETATM 6 C C6 U5P . . . E 3 12.187 -40.288 18.438 1 18.29 ? C6 U5P 1001 A 1 HETATM 7 O O2 U5P . . . E 3 11.051 -41.818 15.437 1 20.8 ? O2 U5P 1001 A 1 HETATM 8 O O4 U5P . . . E 3 14.154 -43.247 18.438 1 16.87 ? O4 U5P 1001 A 1 HETATM 9 C C1' U5P . . . E 3 10.453 -39.518 16.747 1 22.18 ? C1' U5P 1001 A 1 HETATM 10 C C2' U5P . . . E 3 9.251 -39.261 17.651 1 24.02 ? C2' U5P 1001 A 1 HETATM 11 O O2' U5P . . . E 3 8.19 -40.22 17.471 1 26.03 ? O2' U5P 1001 A 1 HETATM 12 C C3' U5P . . . E 3 8.835 -37.804 17.372 1 24.41 ? C3' U5P 1001 A 1 HETATM 13 C C4' U5P . . . E 3 10.157 -37.17 16.941 1 24.92 ? C4' U5P 1001 A 1 HETATM 14 O O3' U5P . . . E 3 7.749 -37.729 16.401 1 24.77 ? O3' U5P 1001 A 1 HETATM 15 O O4' U5P . . . E 3 10.983 -38.252 16.402 1 24.41 ? O4' U5P 1001 A 1 HETATM 16 C C5' U5P . . . E 3 11.025 -36.473 17.994 1 23 ? C5' U5P 1001 A 1 HETATM 17 O O5' U5P . . . E 3 12.171 -35.774 17.458 1 23.08 ? O5' U5P 1001 A 1 HETATM 18 P P U5P . . . E 3 12.133 -34.193 17.099 1 20.28 ? P U5P 1001 A 1 HETATM 19 O O1P U5P . . . E 3 11.806 -33.216 18.193 1 21.72 ? O1P U5P 1001 A 1 HETATM 20 O O2P U5P . . . E 3 11.114 -33.907 16.061 1 18.8 ? O2P U5P 1001 A 1 HETATM 21 O O3P U5P . . . E 3 13.598 -33.993 16.366 1 19.56 ? O3P U5P 1001 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 331 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 21 #