data_4BV2 # _model_server_result.job_id ilKuNbsAlo7fS0Qu6Qf-oQ _model_server_result.datetime_utc '2024-12-02 23:00:43' _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 4bv2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":1248}' # _entry.id 4BV2 # _exptl.entry_id 4BV2 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 601.352 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "2'-O-ACETYL ADENOSINE-5-DIPHOSPHORIBOSE" _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 90 _cell.angle_gamma 90 _cell.entry_id 4BV2 _cell.length_a 45.95 _cell.length_b 45.95 _cell.length_c 241.87 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4BV2 _symmetry.cell_setting ? _symmetry.Int_Tables_number 78 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 43' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 ? monomeric 1 author_defined_assembly 3 ? monomeric 1 author_defined_assembly 4 PISA dimeric 2 software_defined_assembly 5 PISA dimeric 2 software_defined_assembly 6 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,E,F,G 1 1 B,H,I,J 2 1 D 3 1 C 4 1 B,D,H,I,J 5 1 A,C,E,F,G 6 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 ? 5 G N N ? 5 I 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 124 A CYS 124 1_555 A SG CYS 151 A CYS 151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? disulf ? disulf2 A SG CYS 148 A CYS 148 1_555 A SG CYS 151 A CYS 151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.004 ? disulf ? disulf3 B SG CYS 124 B CYS 124 1_555 B SG CYS 151 B CYS 151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? disulf ? disulf4 B SG CYS 148 B CYS 148 1_555 B SG CYS 151 B CYS 151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? metalc ? metalc1 A SG CYS 124 A CYS 124 1_555 E ZN ZN . A ZN 1246 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? metalc ? metalc2 A SG CYS 127 A CYS 127 1_555 E ZN ZN . A ZN 1246 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.334 ? metalc ? metalc3 A SG CYS 148 A CYS 148 1_555 E ZN ZN . A ZN 1246 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.347 ? metalc ? metalc4 A SG CYS 151 A CYS 151 1_555 E ZN ZN . A ZN 1246 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.333 ? metalc ? metalc5 B SG CYS 124 B CYS 124 1_555 J ZN ZN . B ZN 1249 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.331 ? metalc ? metalc6 B SG CYS 127 B CYS 127 1_555 J ZN ZN . B ZN 1249 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.342 ? metalc ? metalc7 B SG CYS 148 B CYS 148 1_555 J ZN ZN . B ZN 1249 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.342 ? metalc ? metalc8 B SG CYS 151 B CYS 151 1_555 J ZN ZN . B ZN 1249 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? # _chem_comp.formula 'C17 H25 N5 O15 P2' _chem_comp.formula_weight 601.352 _chem_comp.id OAD _chem_comp.mon_nstd_flag . _chem_comp.name "2'-O-ACETYL ADENOSINE-5-DIPHOSPHORIBOSE" _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 PA O1A OAD doub 235 n n PA O2A OAD sing 236 n n PA O5' OAD sing 237 n n PA O3A OAD sing 238 n n O2A HOA2 OAD sing 239 n n O5' C5' OAD sing 240 n n C5' C4' OAD sing 241 n n C5' "H5'1" OAD sing 242 n n C5' "H5'2" OAD sing 243 n n C4' O4' OAD sing 244 n n C4' C3' OAD sing 245 n n C4' "H'4" OAD sing 246 n n O4' C1' OAD sing 247 n n C3' O3' OAD sing 248 n n C3' C2' OAD sing 249 n n C3' "H'3" OAD sing 250 n n O3' "HO'3" OAD sing 251 n n C2' O2' OAD sing 252 n n C2' C1' OAD sing 253 n n C2' "H'2" OAD sing 254 n n O2' "HO'2" OAD sing 255 n n C1' N9 OAD sing 256 n n C1' "H'1" OAD sing 257 n n N9 C8 OAD sing 258 n y N9 C4 OAD sing 259 n y C8 N7 OAD doub 260 n y C8 H8 OAD sing 261 n n N7 C5 OAD sing 262 n y C5 C6 OAD doub 263 n y C5 C4 OAD sing 264 n y C6 N6 OAD sing 265 n n C6 N1 OAD sing 266 n y N6 H61 OAD sing 267 n n N6 H62 OAD sing 268 n n N1 C2 OAD doub 269 n y C2 N3 OAD sing 270 n y C2 H2 OAD sing 271 n n N3 C4 OAD doub 272 n y O3A PB OAD sing 273 n n PB O1B OAD doub 274 n n PB O2B OAD sing 275 n n PB O5D OAD sing 276 n n O2B HOB2 OAD sing 277 n n O2D C2D OAD sing 278 n n O2D C6D OAD sing 279 n n O5D C5D OAD sing 280 n n C5D C4D OAD sing 281 n n C5D H5R1 OAD sing 282 n n C5D H5R2 OAD sing 283 n n C4D O4D OAD sing 284 n n C4D C3D OAD sing 285 n n C4D "HR'4" OAD sing 286 n n O4D C1D OAD sing 287 n n C3D O3D OAD sing 288 n n C3D C2D OAD sing 289 n n C3D "HR'3" OAD sing 290 n n O3D HOR3 OAD sing 291 n n C2D C1D OAD sing 292 n n C2D "HR'2" OAD sing 293 n n C1D O1D OAD sing 294 n n C1D "HR'1" OAD sing 295 n n O1D HOR1 OAD sing 296 n n C6D O6D OAD doub 297 n n C6D C7D OAD sing 298 n n C7D H7R1 OAD sing 299 n n C7D H7R2 OAD sing 300 n n C7D H7R3 OAD sing 301 n n # _atom_sites.entry_id 4BV2 _atom_sites.fract_transf_matrix[1][1] 0.021763 _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] 0.021763 _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] 0.004134 _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 E 3 ZN A 1 1246 1246 ZN ZN . F 4 OCZ A 1 1247 1247 OCZ OCZ . G 5 OAD A 1 1248 1248 OAD OAD . H 4 OCZ B 1 1247 1247 OCZ OCZ . I 5 OAD B 1 1248 1248 OAD OAD . J 3 ZN B 1 1249 1249 ZN ZN . # 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 PA OAD . . . I 5 78.966 76.783 -29.866 1 114.88 ? PA OAD 1248 B 1 HETATM 2 O O1A OAD . . . I 5 79.566 75.394 -30.469 1 114.21 ? O1A OAD 1248 B 1 HETATM 3 O O2A OAD . . . I 5 79.385 77.051 -28.464 1 117.44 ? O2A OAD 1248 B 1 HETATM 4 O O5' OAD . . . I 5 79.413 77.906 -30.892 1 113.46 ? O5' OAD 1248 B 1 HETATM 5 C C5' OAD . . . I 5 80.801 78.065 -31.166 1 117.14 ? C5' OAD 1248 B 1 HETATM 6 C C4' OAD . . . I 5 81.26 77.119 -32.291 1 116.01 ? C4' OAD 1248 B 1 HETATM 7 O O4' OAD . . . I 5 81.221 77.679 -33.642 1 118.19 ? O4' OAD 1248 B 1 HETATM 8 C C3' OAD . . . I 5 82.734 76.801 -32.045 1 116.32 ? C3' OAD 1248 B 1 HETATM 9 O O3' OAD . . . I 5 82.816 75.405 -31.924 1 119.96 ? O3' OAD 1248 B 1 HETATM 10 C C2' OAD . . . I 5 83.463 77.235 -33.301 1 116.13 ? C2' OAD 1248 B 1 HETATM 11 O O2' OAD . . . I 5 84.559 76.348 -33.56 1 114.45 ? O2' OAD 1248 B 1 HETATM 12 C C1' OAD . . . I 5 82.333 76.989 -34.257 1 115.68 ? C1' OAD 1248 B 1 HETATM 13 N N9 OAD . . . I 5 82.514 77.394 -35.667 1 113.9 ? N9 OAD 1248 B 1 HETATM 14 C C8 OAD . . . I 5 82.342 78.588 -36.199 1 111.04 ? C8 OAD 1248 B 1 HETATM 15 N N7 OAD . . . I 5 82.573 78.438 -37.498 1 114.83 ? N7 OAD 1248 B 1 HETATM 16 C C5 OAD . . . I 5 82.868 77.165 -37.769 1 114.52 ? C5 OAD 1248 B 1 HETATM 17 C C6 OAD . . . I 5 83.174 76.507 -38.899 1 115.46 ? C6 OAD 1248 B 1 HETATM 18 N N6 OAD . . . I 5 83.191 77.23 -40.014 1 118.26 ? N6 OAD 1248 B 1 HETATM 19 N N1 OAD . . . I 5 83.454 75.19 -38.927 1 112.69 ? N1 OAD 1248 B 1 HETATM 20 C C2 OAD . . . I 5 83.423 74.465 -37.752 1 110.82 ? C2 OAD 1248 B 1 HETATM 21 N N3 OAD . . . I 5 83.096 75.182 -36.59 1 113.71 ? N3 OAD 1248 B 1 HETATM 22 C C4 OAD . . . I 5 82.829 76.51 -36.621 1 114.06 ? C4 OAD 1248 B 1 HETATM 23 O O3A OAD . . . I 5 77.351 76.7 -29.958 1 110.62 ? O3A OAD 1248 B 1 HETATM 24 P PB OAD . . . I 5 76.542 75.327 -29.868 1 110.72 ? PB OAD 1248 B 1 HETATM 25 O O1B OAD . . . I 5 77.513 74.035 -30.1 1 110.91 ? O1B OAD 1248 B 1 HETATM 26 O O2B OAD . . . I 5 75.333 75.31 -30.742 1 109.7 ? O2B OAD 1248 B 1 HETATM 27 O O2D OAD . . . I 5 71.647 77.007 -26.386 1 136.11 ? O2D OAD 1248 B 1 HETATM 28 O O5D OAD . . . I 5 76.18 75.197 -28.339 1 118.69 ? O5D OAD 1248 B 1 HETATM 29 C C5D OAD . . . I 5 74.878 74.708 -28.037 1 126.34 ? C5D OAD 1248 B 1 HETATM 30 C C4D OAD . . . I 5 74.06 75.842 -27.446 1 127.82 ? C4D OAD 1248 B 1 HETATM 31 O O4D OAD . . . I 5 74.802 77.069 -27.464 1 130.68 ? O4D OAD 1248 B 1 HETATM 32 C C3D OAD . . . I 5 72.906 76.241 -28.309 1 124.55 ? C3D OAD 1248 B 1 HETATM 33 O O3D OAD . . . I 5 71.915 75.225 -28.266 1 116.45 ? O3D OAD 1248 B 1 HETATM 34 C C2D OAD . . . I 5 72.483 77.441 -27.486 1 129.18 ? C2D OAD 1248 B 1 HETATM 35 C C1D OAD . . . I 5 73.828 77.974 -26.931 1 131.17 ? C1D OAD 1248 B 1 HETATM 36 O O1D OAD . . . I 5 73.897 77.881 -25.475 1 133.28 ? O1D OAD 1248 B 1 HETATM 37 C C6D OAD . . . I 5 70.632 77.879 -26.067 1 144.37 ? C6D OAD 1248 B 1 HETATM 38 O O6D OAD . . . I 5 69.641 78.082 -26.766 1 142.65 ? O6D OAD 1248 B 1 HETATM 39 C C7D OAD . . . I 5 70.717 78.536 -24.687 1 148.54 ? C7D OAD 1248 B 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 343 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 39 #