data_6VV9 # _model_server_result.job_id iGwOY9O7DxWGQz4b97-nkg _model_server_result.datetime_utc '2024-11-23 13:58:19' _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 6vv9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":302}' # _entry.id 6VV9 # _exptl.entry_id 6VV9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 745.421 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _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 6VV9 _cell.length_a 61.18 _cell.length_b 70.873 _cell.length_c 72.081 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6VV9 _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 ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 PISA dimeric 2 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,C,D,E,F,N 1 1 B,G,H,I,J,K,L,M,O 2 1 A,B,C,D,E,F,G,H,I,J,K,L,M,N,O 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 ? 2 C N N ? 2 H 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 NE2 HIS 40 A HIS 38 1_555 G CO CO . B CO 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.975 ? metalc ? metalc2 N O HOH . A HOH 312 1_555 G CO CO . B CO 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? metalc ? metalc3 N O HOH . A HOH 334 1_555 I CO CO . B CO 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.384 ? metalc ? metalc4 B NE2 HIS 40 B HIS 38 1_555 I CO CO . B CO 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.21 ? metalc ? metalc5 B NE2 HIS 159 B HIS 157 1_555 G CO CO . B CO 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.727 ? metalc ? metalc6 G CO CO . B CO 301 1_555 O O HOH . B HOH 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.121 ? metalc ? metalc7 G CO CO . B CO 301 1_555 O O HOH . B HOH 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.28 ? metalc ? metalc8 I CO CO . B CO 303 1_555 O O HOH . B HOH 424 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.348 ? metalc ? metalc9 I CO CO . B CO 303 1_555 O O HOH . B HOH 428 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.293 ? # _chem_comp.formula 'C21 H30 N7 O17 P3' _chem_comp.formula_weight 745.421 _chem_comp.id NDP _chem_comp.mon_nstd_flag . _chem_comp.name 'NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _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 PA O1A NDP doub 237 n n PA O2A NDP sing 238 n n PA O5B NDP sing 239 n n PA O3 NDP sing 240 n n O2A HOA2 NDP sing 241 n n O5B C5B NDP sing 242 n n C5B C4B NDP sing 243 n n C5B H51A NDP sing 244 n n C5B H52A NDP sing 245 n n C4B O4B NDP sing 246 n n C4B C3B NDP sing 247 n n C4B H4B NDP sing 248 n n O4B C1B NDP sing 249 n n C3B O3B NDP sing 250 n n C3B C2B NDP sing 251 n n C3B H3B NDP sing 252 n n O3B HO3A NDP sing 253 n n C2B O2B NDP sing 254 n n C2B C1B NDP sing 255 n n C2B H2B NDP sing 256 n n O2B P2B NDP sing 257 n n C1B N9A NDP sing 258 n n C1B H1B NDP sing 259 n n N9A C8A NDP sing 260 n y N9A C4A NDP sing 261 n y C8A N7A NDP doub 262 n y C8A H8A NDP sing 263 n n N7A C5A NDP sing 264 n y C5A C6A NDP sing 265 n y C5A C4A NDP doub 266 n y C6A N6A NDP sing 267 n n C6A N1A NDP doub 268 n y N6A H61A NDP sing 269 n n N6A H62A NDP sing 270 n n N1A C2A NDP sing 271 n y C2A N3A NDP doub 272 n y C2A H2A NDP sing 273 n n N3A C4A NDP sing 274 n y O3 PN NDP sing 275 n n PN O1N NDP doub 276 n n PN O2N NDP sing 277 n n PN O5D NDP sing 278 n n O2N H21N NDP sing 279 n n O5D C5D NDP sing 280 n n C5D C4D NDP sing 281 n n C5D H51N NDP sing 282 n n C5D H52N NDP sing 283 n n C4D O4D NDP sing 284 n n C4D C3D NDP sing 285 n n C4D H4D NDP sing 286 n n O4D C1D NDP sing 287 n n C3D O3D NDP sing 288 n n C3D C2D NDP sing 289 n n C3D H3D NDP sing 290 n n O3D HO3N NDP sing 291 n n C2D O2D NDP sing 292 n n C2D C1D NDP sing 293 n n C2D H2D NDP sing 294 n n O2D HO2N NDP sing 295 n n C1D N1N NDP sing 296 n n C1D H1D NDP sing 297 n n N1N C2N NDP sing 298 n n N1N C6N NDP sing 299 n n C2N C3N NDP doub 300 n n C2N H2N NDP sing 301 n n C3N C7N NDP sing 302 n n C3N C4N NDP sing 303 n n C7N O7N NDP doub 304 n n C7N N7N NDP sing 305 n n N7N H71N NDP sing 306 n n N7N H72N NDP sing 307 n n C4N C5N NDP sing 308 n n C4N H41N NDP sing 309 n n C4N H42N NDP sing 310 n n C5N C6N NDP doub 311 n n C5N H5N NDP sing 312 n n C6N H6N NDP sing 313 n n P2B O1X NDP doub 314 n n P2B O2X NDP sing 315 n n P2B O3X NDP sing 316 n n O2X HOP2 NDP sing 317 n n O3X HOP3 NDP sing 318 n n # _atom_sites.entry_id 6VV9 _atom_sites.fract_transf_matrix[1][1] 0.016345 _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] 0.01411 _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] 0.013873 _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 C 2 NDP A 1 201 201 NDP NDP . D 3 RQ1 A 1 202 401 RQ1 LIG . E 4 PO4 A 1 203 2 PO4 PO4 . F 4 PO4 A 1 204 4 PO4 PO4 . G 5 CO B 1 301 301 CO CO . H 2 NDP B 1 302 201 NDP NDP . I 5 CO B 1 303 301 CO CO . J 3 RQ1 B 1 304 401 RQ1 LIG . K 4 PO4 B 1 305 1 PO4 PO4 . L 4 PO4 B 1 306 3 PO4 PO4 . M 4 PO4 B 1 307 5 PO4 PO4 . N 6 HOH A 1 301 57 HOH HOH . N 6 HOH A 2 302 44 HOH HOH . N 6 HOH A 3 303 79 HOH HOH . N 6 HOH A 4 304 64 HOH HOH . N 6 HOH A 5 305 54 HOH HOH . N 6 HOH A 6 306 76 HOH HOH . N 6 HOH A 7 307 87 HOH HOH . N 6 HOH A 8 308 78 HOH HOH . N 6 HOH A 9 309 69 HOH HOH . N 6 HOH A 10 310 77 HOH HOH . N 6 HOH A 11 311 55 HOH HOH . N 6 HOH A 12 312 74 HOH HOH . N 6 HOH A 13 313 53 HOH HOH . N 6 HOH A 14 314 10 HOH HOH . N 6 HOH A 15 315 61 HOH HOH . N 6 HOH A 16 316 12 HOH HOH . N 6 HOH A 17 317 28 HOH HOH . N 6 HOH A 18 318 35 HOH HOH . N 6 HOH A 19 319 4 HOH HOH . N 6 HOH A 20 320 8 HOH HOH . N 6 HOH A 21 321 86 HOH HOH . N 6 HOH A 22 322 41 HOH HOH . N 6 HOH A 23 323 14 HOH HOH . N 6 HOH A 24 324 58 HOH HOH . N 6 HOH A 25 325 85 HOH HOH . N 6 HOH A 26 326 45 HOH HOH . N 6 HOH A 27 327 62 HOH HOH . N 6 HOH A 28 328 38 HOH HOH . N 6 HOH A 29 329 63 HOH HOH . N 6 HOH A 30 330 21 HOH HOH . N 6 HOH A 31 331 3 HOH HOH . N 6 HOH A 32 332 6 HOH HOH . N 6 HOH A 33 333 1 HOH HOH . N 6 HOH A 34 334 2 HOH HOH . N 6 HOH A 35 335 29 HOH HOH . N 6 HOH A 36 336 56 HOH HOH . N 6 HOH A 37 337 43 HOH HOH . N 6 HOH A 38 338 36 HOH HOH . N 6 HOH A 39 339 66 HOH HOH . N 6 HOH A 40 340 46 HOH HOH . N 6 HOH A 41 341 37 HOH HOH . N 6 HOH A 42 342 67 HOH HOH . N 6 HOH A 43 343 65 HOH HOH . N 6 HOH A 44 344 59 HOH HOH . N 6 HOH A 45 345 30 HOH HOH . N 6 HOH A 46 346 39 HOH HOH . N 6 HOH A 47 347 81 HOH HOH . N 6 HOH A 48 348 71 HOH HOH . N 6 HOH A 49 349 72 HOH HOH . N 6 HOH A 50 350 52 HOH HOH . N 6 HOH A 51 351 68 HOH HOH . O 6 HOH B 1 401 82 HOH HOH . O 6 HOH B 2 402 13 HOH HOH . O 6 HOH B 3 403 83 HOH HOH . O 6 HOH B 4 404 40 HOH HOH . O 6 HOH B 5 405 75 HOH HOH . O 6 HOH B 6 406 60 HOH HOH . O 6 HOH B 7 407 42 HOH HOH . O 6 HOH B 8 408 50 HOH HOH . O 6 HOH B 9 409 5 HOH HOH . O 6 HOH B 10 410 23 HOH HOH . O 6 HOH B 11 411 70 HOH HOH . O 6 HOH B 12 412 16 HOH HOH . O 6 HOH B 13 413 51 HOH HOH . O 6 HOH B 14 414 32 HOH HOH . O 6 HOH B 15 415 19 HOH HOH . O 6 HOH B 16 416 11 HOH HOH . O 6 HOH B 17 417 15 HOH HOH . O 6 HOH B 18 418 26 HOH HOH . O 6 HOH B 19 419 27 HOH HOH . O 6 HOH B 20 420 20 HOH HOH . O 6 HOH B 21 421 22 HOH HOH . O 6 HOH B 22 422 34 HOH HOH . O 6 HOH B 23 423 9 HOH HOH . O 6 HOH B 24 424 18 HOH HOH . O 6 HOH B 25 425 25 HOH HOH . O 6 HOH B 26 426 24 HOH HOH . O 6 HOH B 27 427 48 HOH HOH . O 6 HOH B 28 428 7 HOH HOH . O 6 HOH B 29 429 31 HOH HOH . O 6 HOH B 30 430 17 HOH HOH . O 6 HOH B 31 431 49 HOH HOH . O 6 HOH B 32 432 33 HOH HOH . O 6 HOH B 33 433 80 HOH HOH . O 6 HOH B 34 434 47 HOH HOH . O 6 HOH B 35 435 84 HOH HOH . O 6 HOH B 36 436 73 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 PA NDP . . . H 2 46.056 -0.421 10.792 1 28.69 ? PA NDP 302 B 1 HETATM 2 O O1A NDP . . . H 2 45.073 -1.367 10.154 1 28.53 ? O1A NDP 302 B 1 HETATM 3 O O2A NDP . . . H 2 45.495 0.41 11.923 1 29.77 -1 O2A NDP 302 B 1 HETATM 4 O O5B NDP . . . H 2 46.633 0.557 9.613 1 34.31 ? O5B NDP 302 B 1 HETATM 5 C C5B NDP . . . H 2 47.742 1.32 9.948 1 34.85 ? C5B NDP 302 B 1 HETATM 6 C C4B NDP . . . H 2 47.937 2.231 8.722 1 42.31 ? C4B NDP 302 B 1 HETATM 7 O O4B NDP . . . H 2 46.977 3.122 8.656 1 42.17 ? O4B NDP 302 B 1 HETATM 8 C C3B NDP . . . H 2 49.238 3.022 8.871 1 45.83 ? C3B NDP 302 B 1 HETATM 9 O O3B NDP . . . H 2 50.242 2.255 8.361 1 47.05 ? O3B NDP 302 B 1 HETATM 10 C C2B NDP . . . H 2 48.904 4.228 7.987 1 43.01 ? C2B NDP 302 B 1 HETATM 11 O O2B NDP . . . H 2 48.841 3.685 6.614 1 45.19 ? O2B NDP 302 B 1 HETATM 12 C C1B NDP . . . H 2 47.673 4.534 8.289 1 42.68 ? C1B NDP 302 B 1 HETATM 13 N N9A NDP . . . H 2 47.603 5.424 9.42 1 43.68 ? N9A NDP 302 B 1 HETATM 14 C C8A NDP . . . H 2 47.779 5.357 10.746 1 46.24 ? C8A NDP 302 B 1 HETATM 15 N N7A NDP . . . H 2 47.549 6.572 11.258 1 47.93 ? N7A NDP 302 B 1 HETATM 16 C C5A NDP . . . H 2 47.228 7.392 10.242 1 46.61 ? C5A NDP 302 B 1 HETATM 17 C C6A NDP . . . H 2 46.911 8.728 10.219 1 42.84 ? C6A NDP 302 B 1 HETATM 18 N N6A NDP . . . H 2 46.793 9.753 11.237 1 47.45 ? N6A NDP 302 B 1 HETATM 19 N N1A NDP . . . H 2 46.622 9.333 9.077 1 42.89 ? N1A NDP 302 B 1 HETATM 20 C C2A NDP . . . H 2 46.643 8.644 7.912 1 41.06 ? C2A NDP 302 B 1 HETATM 21 N N3A NDP . . . H 2 46.954 7.323 7.935 1 45.43 ? N3A NDP 302 B 1 HETATM 22 C C4A NDP . . . H 2 47.255 6.692 9.101 1 44.91 ? C4A NDP 302 B 1 HETATM 23 O O3 NDP . . . H 2 47.366 -1.212 11.334 1 30.68 ? O3 NDP 302 B 1 HETATM 24 P PN NDP . . . H 2 47.434 -1.952 12.795 1 28.18 ? PN NDP 302 B 1 HETATM 25 O O1N NDP . . . H 2 48.786 -2.621 12.791 1 32.86 ? O1N NDP 302 B 1 HETATM 26 O O2N NDP . . . H 2 47.257 -0.944 13.915 1 31.22 -1 O2N NDP 302 B 1 HETATM 27 O O5D NDP . . . H 2 46.306 -3.133 12.874 1 29.83 ? O5D NDP 302 B 1 HETATM 28 C C5D NDP . . . H 2 46.355 -4.18 11.94 1 30.28 ? C5D NDP 302 B 1 HETATM 29 C C4D NDP . . . H 2 46.096 -5.513 12.7 1 35.44 ? C4D NDP 302 B 1 HETATM 30 O O4D NDP . . . H 2 44.952 -5.478 13.342 1 33.32 ? O4D NDP 302 B 1 HETATM 31 C C3D NDP . . . H 2 46.024 -6.747 11.774 1 33.69 ? C3D NDP 302 B 1 HETATM 32 O O3D NDP . . . H 2 46.657 -7.764 12.416 1 32.18 ? O3D NDP 302 B 1 HETATM 33 C C2D NDP . . . H 2 44.516 -7.041 11.671 1 33.09 ? C2D NDP 302 B 1 HETATM 34 O O2D NDP . . . H 2 44.257 -8.474 11.326 1 33.64 ? O2D NDP 302 B 1 HETATM 35 C C1D NDP . . . H 2 44.092 -6.768 12.875 1 32.89 ? C1D NDP 302 B 1 HETATM 36 N N1N NDP . . . H 2 42.689 -6.42 12.887 1 35.97 ? N1N NDP 302 B 1 HETATM 37 C C2N NDP . . . H 2 41.796 -7.148 13.692 1 33.88 ? C2N NDP 302 B 1 HETATM 38 C C3N NDP . . . H 2 40.391 -6.674 13.841 1 36.33 ? C3N NDP 302 B 1 HETATM 39 C C7N NDP . . . H 2 39.56 -7.26 14.939 1 32.95 ? C7N NDP 302 B 1 HETATM 40 O O7N NDP . . . H 2 38.432 -6.907 15.021 1 35.17 ? O7N NDP 302 B 1 HETATM 41 N N7N NDP . . . H 2 40.172 -8.209 15.848 1 29.98 ? N7N NDP 302 B 1 HETATM 42 C C4N NDP . . . H 2 39.68 -5.755 12.835 1 45.25 ? C4N NDP 302 B 1 HETATM 43 C C5N NDP . . . H 2 40.702 -5.158 11.824 1 38 ? C5N NDP 302 B 1 HETATM 44 C C6N NDP . . . H 2 42.205 -5.331 12.091 1 31.43 ? C6N NDP 302 B 1 HETATM 45 P P2B NDP . . . H 2 50.249 3.595 5.775 1 53.38 ? P2B NDP 302 B 1 HETATM 46 O O1X NDP . . . H 2 50.084 3.286 4.296 1 47.46 ? O1X NDP 302 B 1 HETATM 47 O O2X NDP . . . H 2 50.735 4.97 5.831 1 46.8 -1 O2X NDP 302 B 1 HETATM 48 O O3X NDP . . . H 2 51.273 2.746 6.511 1 49.53 -1 O3X NDP 302 B 1 # _model_server_stats.io_time_ms 57 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 23 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 48 #