data_3K9W # _model_server_result.job_id QEim7HoYZTpvFQeApl98_g _model_server_result.datetime_utc '2024-11-28 22:52:05' _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 3k9w # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":167}' # _entry.id 3K9W # _exptl.entry_id 3K9W _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 438.328 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "4'-diphospho pantetheine" _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 3K9W _cell.length_a 134.431 _cell.length_b 134.431 _cell.length_c 134.431 _cell.Z_PDB 48 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3K9W _symmetry.cell_setting ? _symmetry.Int_Tables_number 211 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 4 3 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4,5,6 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 6_555 z,-x,-y 0 0 1 -1 0 0 0 -1 0 0 0 0 3 'crystal symmetry operation' 12_555 -y,-z,x 0 -1 0 0 0 -1 1 0 0 0 0 0 4 'crystal symmetry operation' 37_454 y-1/2,x+1/2,-z-1/2 0 1 0 1 0 0 0 0 -1 -67.2155 67.2155 -67.2155 5 'crystal symmetry operation' 42_454 -x-1/2,z+1/2,y-1/2 -1 0 0 0 0 1 0 1 0 -67.2155 67.2155 -67.2155 6 'crystal symmetry operation' 48_454 -z-1/2,-y+1/2,-x-1/2 0 0 -1 0 -1 0 -1 0 0 -67.2155 67.2155 -67.2155 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C11 H24 N2 O10 P2 S' _chem_comp.formula_weight 438.328 _chem_comp.id 4PS _chem_comp.mon_nstd_flag . _chem_comp.name "4'-diphospho pantetheine" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms N~3~-[(2R)-2-hydroxy-4-{[(S)-hydroxy(phosphonooxy)phosphoryl]oxy}-3,3-dimethylbutanoyl]-N-(2-sulfanylethyl)-beta-alaninamide # 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 O19 P20 4PS sing 1 n n O19 HO19 4PS sing 2 n n O21 P20 4PS doub 3 n n P20 O22 4PS sing 4 n n P20 O23 4PS sing 5 n n O22 HO22 4PS sing 6 n n O23 P24 4PS sing 7 n n O25 P24 4PS doub 8 n n P24 O26 4PS sing 9 n n P24 O27 4PS sing 10 n n O26 HO26 4PS sing 11 n n O27 C28 4PS sing 12 n n C28 C29 4PS sing 13 n n C28 H28 4PS sing 14 n n C28 H28A 4PS sing 15 n n C29 C31 4PS sing 16 n n C29 C32 4PS sing 17 n n C29 C30 4PS sing 18 n n C30 H30 4PS sing 19 n n C30 H30A 4PS sing 20 n n C30 H30B 4PS sing 21 n n C31 H31 4PS sing 22 n n C31 H31A 4PS sing 23 n n C31 H31B 4PS sing 24 n n O33 C32 4PS sing 25 n n C32 C34 4PS sing 26 n n C32 H32 4PS sing 27 n n O33 HO33 4PS sing 28 n n C34 O35 4PS doub 29 n n C34 N36 4PS sing 30 n n N36 C37 4PS sing 31 n n N36 HN36 4PS sing 32 n n C37 C38 4PS sing 33 n n C37 H37 4PS sing 34 n n C37 H37A 4PS sing 35 n n C39 C38 4PS sing 36 n n C38 H38 4PS sing 37 n n C38 H38A 4PS sing 38 n n N41 C39 4PS sing 39 n n C39 O40 4PS doub 40 n n C42 N41 4PS sing 41 n n N41 HN41 4PS sing 42 n n C43 C42 4PS sing 43 n n C42 H42 4PS sing 44 n n C42 H42A 4PS sing 45 n n S44 C43 4PS sing 46 n n C43 H43 4PS sing 47 n n C43 H43A 4PS sing 48 n n S44 HS44 4PS sing 49 n n # _atom_sites.entry_id 3K9W _atom_sites.fract_transf_matrix[1][1] 0.007439 _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] 0.007439 _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] 0.007439 _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 4PS A 1 167 167 4PS 4PS . C 3 ADE A 1 168 168 ADE ADE . D 4 PG4 A 1 169 169 PG4 PG4 . E 5 ACT A 1 170 170 ACT ACT . F 6 SO4 A 1 171 171 SO4 SO4 . G 7 HOH A 1 172 172 HOH HOH . G 7 HOH A 2 173 173 HOH HOH . G 7 HOH A 3 174 174 HOH HOH . G 7 HOH A 4 175 175 HOH HOH . G 7 HOH A 5 176 176 HOH HOH . G 7 HOH A 6 177 177 HOH HOH . G 7 HOH A 7 178 178 HOH HOH . G 7 HOH A 8 179 179 HOH HOH . G 7 HOH A 9 180 180 HOH HOH . G 7 HOH A 10 181 181 HOH HOH . G 7 HOH A 11 182 182 HOH HOH . G 7 HOH A 12 183 183 HOH HOH . G 7 HOH A 13 184 184 HOH HOH . G 7 HOH A 14 185 185 HOH HOH . G 7 HOH A 15 186 186 HOH HOH . G 7 HOH A 16 187 187 HOH HOH . G 7 HOH A 17 188 188 HOH HOH . G 7 HOH A 18 189 189 HOH HOH . G 7 HOH A 19 190 190 HOH HOH . G 7 HOH A 20 191 191 HOH HOH . G 7 HOH A 21 192 192 HOH HOH . G 7 HOH A 22 193 193 HOH HOH . G 7 HOH A 23 194 194 HOH HOH . G 7 HOH A 24 195 195 HOH HOH . G 7 HOH A 25 196 196 HOH HOH . G 7 HOH A 26 197 197 HOH HOH . G 7 HOH A 27 198 198 HOH HOH . G 7 HOH A 28 199 199 HOH HOH . G 7 HOH A 29 200 200 HOH HOH . G 7 HOH A 30 201 201 HOH HOH . G 7 HOH A 31 202 202 HOH HOH . G 7 HOH A 32 203 203 HOH HOH . G 7 HOH A 33 204 204 HOH HOH . G 7 HOH A 34 205 205 HOH HOH . G 7 HOH A 35 206 206 HOH HOH . G 7 HOH A 36 207 207 HOH HOH . G 7 HOH A 37 208 208 HOH HOH . G 7 HOH A 38 209 209 HOH HOH . G 7 HOH A 39 210 210 HOH HOH . G 7 HOH A 40 211 211 HOH HOH . G 7 HOH A 41 212 212 HOH HOH . G 7 HOH A 42 213 213 HOH HOH . G 7 HOH A 43 214 214 HOH HOH . G 7 HOH A 44 215 215 HOH HOH . G 7 HOH A 45 216 216 HOH HOH . G 7 HOH A 46 217 217 HOH HOH . G 7 HOH A 47 218 218 HOH HOH . G 7 HOH A 48 219 219 HOH HOH . G 7 HOH A 49 220 220 HOH HOH . G 7 HOH A 50 221 221 HOH HOH . G 7 HOH A 51 222 222 HOH HOH . G 7 HOH A 52 223 223 HOH HOH . G 7 HOH A 53 224 224 HOH HOH . G 7 HOH A 54 225 225 HOH HOH . G 7 HOH A 55 226 226 HOH HOH . G 7 HOH A 56 227 227 HOH HOH . G 7 HOH A 57 228 228 HOH HOH . G 7 HOH A 58 229 229 HOH HOH . G 7 HOH A 59 230 230 HOH HOH . G 7 HOH A 60 231 231 HOH HOH . G 7 HOH A 61 232 232 HOH HOH . G 7 HOH A 62 233 233 HOH HOH . G 7 HOH A 63 234 234 HOH HOH . G 7 HOH A 64 235 235 HOH HOH . G 7 HOH A 65 236 236 HOH HOH . G 7 HOH A 66 237 237 HOH HOH . G 7 HOH A 67 238 238 HOH HOH . G 7 HOH A 68 239 239 HOH HOH . G 7 HOH A 69 240 240 HOH HOH . G 7 HOH A 70 241 241 HOH HOH . G 7 HOH A 71 242 242 HOH HOH . G 7 HOH A 72 243 243 HOH HOH . G 7 HOH A 73 244 244 HOH HOH . G 7 HOH A 74 245 245 HOH HOH . G 7 HOH A 75 246 246 HOH HOH . G 7 HOH A 76 247 247 HOH HOH . G 7 HOH A 77 248 248 HOH HOH . G 7 HOH A 78 249 249 HOH HOH . G 7 HOH A 79 250 250 HOH HOH . G 7 HOH A 80 251 251 HOH HOH . G 7 HOH A 81 252 252 HOH HOH . G 7 HOH A 82 253 253 HOH HOH . G 7 HOH A 83 254 254 HOH HOH . G 7 HOH A 84 255 255 HOH HOH . G 7 HOH A 85 256 256 HOH HOH . G 7 HOH A 86 257 257 HOH HOH . G 7 HOH A 87 258 258 HOH HOH . G 7 HOH A 88 259 259 HOH HOH . G 7 HOH A 89 260 260 HOH HOH . G 7 HOH A 90 261 261 HOH HOH . G 7 HOH A 91 262 262 HOH HOH . G 7 HOH A 92 263 263 HOH HOH . G 7 HOH A 93 264 264 HOH HOH . G 7 HOH A 94 265 265 HOH HOH . G 7 HOH A 95 266 266 HOH HOH . G 7 HOH A 96 267 267 HOH HOH . G 7 HOH A 97 268 268 HOH HOH . G 7 HOH A 98 269 269 HOH HOH . G 7 HOH A 99 270 270 HOH HOH . G 7 HOH A 100 271 271 HOH HOH . G 7 HOH A 101 272 272 HOH HOH . G 7 HOH A 102 273 273 HOH HOH . G 7 HOH A 103 274 274 HOH HOH . G 7 HOH A 104 275 275 HOH HOH . G 7 HOH A 105 276 276 HOH HOH . G 7 HOH A 106 277 277 HOH HOH . G 7 HOH A 107 278 278 HOH HOH . G 7 HOH A 108 279 279 HOH HOH . G 7 HOH A 109 280 280 HOH HOH . G 7 HOH A 110 281 281 HOH HOH . G 7 HOH A 111 282 282 HOH HOH . G 7 HOH A 112 283 283 HOH HOH . G 7 HOH A 113 284 284 HOH HOH . G 7 HOH A 114 285 285 HOH HOH . G 7 HOH A 115 286 286 HOH HOH . G 7 HOH A 116 287 287 HOH HOH . G 7 HOH A 117 288 288 HOH HOH . G 7 HOH A 118 289 289 HOH HOH . G 7 HOH A 119 290 290 HOH HOH . G 7 HOH A 120 291 291 HOH HOH . G 7 HOH A 121 292 292 HOH HOH . G 7 HOH A 122 293 293 HOH HOH . G 7 HOH A 123 294 294 HOH HOH . G 7 HOH A 124 295 295 HOH HOH . G 7 HOH A 125 296 296 HOH HOH . G 7 HOH A 126 297 297 HOH HOH . G 7 HOH A 127 298 298 HOH HOH . G 7 HOH A 128 299 299 HOH HOH . G 7 HOH A 129 300 300 HOH HOH . G 7 HOH A 130 301 301 HOH HOH . G 7 HOH A 131 302 302 HOH HOH . G 7 HOH A 132 303 303 HOH HOH . G 7 HOH A 133 304 304 HOH HOH . G 7 HOH A 134 305 305 HOH HOH . G 7 HOH A 135 306 306 HOH HOH . G 7 HOH A 136 307 307 HOH HOH . G 7 HOH A 137 308 308 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 O O19 4PS . . . B 2 -22.119 37.6 -18.028 1 20.57 ? O19 4PS 167 A 1 HETATM 2 P P20 4PS . . . B 2 -21.729 36.15 -17.468 1 16.91 ? P20 4PS 167 A 1 HETATM 3 O O21 4PS . . . B 2 -21.669 35.142 -18.599 1 18.96 ? O21 4PS 167 A 1 HETATM 4 O O22 4PS . . . B 2 -20.495 36.299 -16.612 1 17.7 ? O22 4PS 167 A 1 HETATM 5 O O23 4PS . . . B 2 -22.967 35.791 -16.491 1 15.62 ? O23 4PS 167 A 1 HETATM 6 P P24 4PS . . . B 2 -23.738 34.396 -16.336 1 14.16 ? P24 4PS 167 A 1 HETATM 7 O O25 4PS . . . B 2 -24.621 34.239 -17.526 1 16.58 ? O25 4PS 167 A 1 HETATM 8 O O26 4PS . . . B 2 -22.733 33.338 -15.92 1 17.3 ? O26 4PS 167 A 1 HETATM 9 O O27 4PS . . . B 2 -24.657 34.804 -15.084 1 13.16 ? O27 4PS 167 A 1 HETATM 10 C C28 4PS . . . B 2 -25.646 33.9 -14.615 1 12.28 ? C28 4PS 167 A 1 HETATM 11 C C29 4PS . . . B 2 -25.887 34.146 -13.137 1 11.39 ? C29 4PS 167 A 1 HETATM 12 C C30 4PS . . . B 2 -24.562 33.93 -12.403 1 14.89 ? C30 4PS 167 A 1 HETATM 13 C C31 4PS . . . B 2 -26.402 35.573 -12.947 1 13.14 ? C31 4PS 167 A 1 HETATM 14 C C32 4PS . . . B 2 -26.925 33.123 -12.678 1 10.95 ? C32 4PS 167 A 1 HETATM 15 O O33 4PS . . . B 2 -26.429 31.782 -12.925 1 12.21 ? O33 4PS 167 A 1 HETATM 16 C C34 4PS . . . B 2 -27.284 33.268 -11.219 1 11.93 ? C34 4PS 167 A 1 HETATM 17 O O35 4PS . . . B 2 -28.111 34.108 -10.886 1 12.92 ? O35 4PS 167 A 1 HETATM 18 N N36 4PS . . . B 2 -26.664 32.443 -10.373 1 11.54 ? N36 4PS 167 A 1 HETATM 19 C C37 4PS . . . B 2 -26.897 32.465 -8.932 1 12.01 ? C37 4PS 167 A 1 HETATM 20 C C38 4PS . . . B 2 -27.825 31.351 -8.45 1 11.68 ? C38 4PS 167 A 1 HETATM 21 C C39 4PS . . . B 2 -29.264 31.603 -8.837 1 12.63 ? C39 4PS 167 A 1 HETATM 22 O O40 4PS . . . B 2 -29.947 32.399 -8.211 1 13.82 ? O40 4PS 167 A 1 HETATM 23 N N41 4PS . . . B 2 -29.753 30.91 -9.87 1 12.17 ? N41 4PS 167 A 1 HETATM 24 C C42 4PS . . . B 2 -31.108 31.141 -10.354 1 15.08 ? C42 4PS 167 A 1 HETATM 25 C C43 4PS . . . B 2 -31.095 32.068 -11.559 1 16.39 ? C43 4PS 167 A 1 HETATM 26 S S44 4PS . . . B 2 -32.788 32.283 -12.187 1 19.93 ? S44 4PS 167 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 312 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 26 #