data_1CIV # _model_server_result.job_id CJsBDYtrVJAABY5OBdLVfw _model_server_result.datetime_utc '2024-12-03 17:54:15' _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 1civ # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":386}' # _entry.id 1CIV # _exptl.entry_id 1CIV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 743.405 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _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 1CIV _cell.length_a 147.8 _cell.length_b 147.8 _cell.length_c 64.9 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1CIV _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 PISA,PQS _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 5_676 x-y+1,-y+2,-z+4/3 1 0 0 0 -1 0 0 0 -1 0 255.997109 86.533333 # _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 # 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 20 A CYS 20 1_555 A SG CYS 25 A CYS 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 A SG CYS 361 A CYS 361 1_555 A SG CYS 373 A CYS 373 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? # _chem_comp.formula 'C21 H28 N7 O17 P3' _chem_comp.formula_weight 743.405 _chem_comp.id NAP _chem_comp.mon_nstd_flag . _chem_comp.name 'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE" # 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 NAP doub 237 n n PA O2A NAP sing 238 n n PA O5B NAP sing 239 n n PA O3 NAP sing 240 n n O2A HOA2 NAP sing 241 n n O5B C5B NAP sing 242 n n C5B C4B NAP sing 243 n n C5B H51A NAP sing 244 n n C5B H52A NAP sing 245 n n C4B O4B NAP sing 246 n n C4B C3B NAP sing 247 n n C4B H4B NAP sing 248 n n O4B C1B NAP sing 249 n n C3B O3B NAP sing 250 n n C3B C2B NAP sing 251 n n C3B H3B NAP sing 252 n n O3B HO3A NAP sing 253 n n C2B O2B NAP sing 254 n n C2B C1B NAP sing 255 n n C2B H2B NAP sing 256 n n O2B P2B NAP sing 257 n n C1B N9A NAP sing 258 n n C1B H1B NAP sing 259 n n N9A C8A NAP sing 260 n y N9A C4A NAP sing 261 n y C8A N7A NAP doub 262 n y C8A H8A NAP sing 263 n n N7A C5A NAP sing 264 n y C5A C6A NAP sing 265 n y C5A C4A NAP doub 266 n y C6A N6A NAP sing 267 n n C6A N1A NAP doub 268 n y N6A H61A NAP sing 269 n n N6A H62A NAP sing 270 n n N1A C2A NAP sing 271 n y C2A N3A NAP doub 272 n y C2A H2A NAP sing 273 n n N3A C4A NAP sing 274 n y O3 PN NAP sing 275 n n PN O1N NAP doub 276 n n PN O2N NAP sing 277 n n PN O5D NAP sing 278 n n O5D C5D NAP sing 279 n n C5D C4D NAP sing 280 n n C5D H51N NAP sing 281 n n C5D H52N NAP sing 282 n n C4D O4D NAP sing 283 n n C4D C3D NAP sing 284 n n C4D H4D NAP sing 285 n n O4D C1D NAP sing 286 n n C3D O3D NAP sing 287 n n C3D C2D NAP sing 288 n n C3D H3D NAP sing 289 n n O3D HO3N NAP sing 290 n n C2D O2D NAP sing 291 n n C2D C1D NAP sing 292 n n C2D H2D NAP sing 293 n n O2D HO2N NAP sing 294 n n C1D N1N NAP sing 295 n n C1D H1D NAP sing 296 n n N1N C2N NAP sing 297 n y N1N C6N NAP doub 298 n y C2N C3N NAP doub 299 n y C2N H2N NAP sing 300 n n C3N C7N NAP sing 301 n n C3N C4N NAP sing 302 n y C7N O7N NAP doub 303 n n C7N N7N NAP sing 304 n n N7N H71N NAP sing 305 n n N7N H72N NAP sing 306 n n C4N C5N NAP doub 307 n y C4N H4N NAP sing 308 n n C5N C6N NAP sing 309 n y C5N H5N NAP sing 310 n n C6N H6N NAP sing 311 n n P2B O1X NAP doub 312 n n P2B O2X NAP sing 313 n n P2B O3X NAP sing 314 n n O2X HOP2 NAP sing 315 n n O3X HOP3 NAP sing 316 n n # _atom_sites.entry_id 1CIV _atom_sites.fract_transf_matrix[1][1] 0.006766 _atom_sites.fract_transf_matrix[1][2] 0.003906 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007812 _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] 0.015408 _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 NAP A 1 386 386 NAP NAP . C 3 HOH A 1 387 387 HOH HOH . C 3 HOH A 2 388 388 HOH HOH . C 3 HOH A 3 389 389 HOH HOH . C 3 HOH A 4 390 390 HOH HOH . C 3 HOH A 5 391 391 HOH HOH . C 3 HOH A 6 392 392 HOH HOH . C 3 HOH A 7 393 393 HOH HOH . C 3 HOH A 8 394 394 HOH HOH . C 3 HOH A 9 395 395 HOH HOH . C 3 HOH A 10 396 396 HOH HOH . C 3 HOH A 11 397 397 HOH HOH . C 3 HOH A 12 398 398 HOH HOH . C 3 HOH A 13 399 399 HOH HOH . C 3 HOH A 14 400 400 HOH HOH . C 3 HOH A 15 401 401 HOH HOH . C 3 HOH A 16 402 402 HOH HOH . C 3 HOH A 17 403 403 HOH HOH . C 3 HOH A 18 404 404 HOH HOH . C 3 HOH A 19 405 405 HOH HOH . C 3 HOH A 20 406 406 HOH HOH . C 3 HOH A 21 407 407 HOH HOH . C 3 HOH A 22 408 408 HOH HOH . C 3 HOH A 23 409 409 HOH HOH . C 3 HOH A 24 410 410 HOH HOH . C 3 HOH A 25 411 411 HOH HOH . C 3 HOH A 26 412 412 HOH HOH . C 3 HOH A 27 413 413 HOH HOH . C 3 HOH A 28 415 415 HOH HOH . C 3 HOH A 29 416 416 HOH HOH . C 3 HOH A 30 417 417 HOH HOH . C 3 HOH A 31 419 419 HOH HOH . C 3 HOH A 32 420 420 HOH HOH . C 3 HOH A 33 421 421 HOH HOH . C 3 HOH A 34 422 422 HOH HOH . C 3 HOH A 35 424 424 HOH HOH . C 3 HOH A 36 425 425 HOH HOH . C 3 HOH A 37 426 426 HOH HOH . C 3 HOH A 38 427 427 HOH HOH . C 3 HOH A 39 428 428 HOH HOH . C 3 HOH A 40 429 429 HOH HOH . C 3 HOH A 41 430 430 HOH HOH . C 3 HOH A 42 431 431 HOH HOH . C 3 HOH A 43 432 432 HOH HOH . C 3 HOH A 44 435 435 HOH HOH . C 3 HOH A 45 437 437 HOH HOH . C 3 HOH A 46 438 438 HOH HOH . C 3 HOH A 47 439 439 HOH HOH . C 3 HOH A 48 440 440 HOH HOH . C 3 HOH A 49 441 441 HOH HOH . C 3 HOH A 50 442 442 HOH HOH . C 3 HOH A 51 443 443 HOH HOH . C 3 HOH A 52 444 444 HOH HOH . C 3 HOH A 53 445 445 HOH HOH . C 3 HOH A 54 446 446 HOH HOH . C 3 HOH A 55 447 447 HOH HOH . C 3 HOH A 56 449 449 HOH HOH . C 3 HOH A 57 455 455 HOH HOH . C 3 HOH A 58 456 456 HOH HOH . C 3 HOH A 59 457 457 HOH HOH . C 3 HOH A 60 458 458 HOH HOH . C 3 HOH A 61 460 460 HOH HOH . C 3 HOH A 62 462 462 HOH HOH . C 3 HOH A 63 464 464 HOH HOH . C 3 HOH A 64 466 466 HOH HOH . C 3 HOH A 65 469 469 HOH HOH . C 3 HOH A 66 471 471 HOH HOH . C 3 HOH A 67 472 472 HOH HOH . C 3 HOH A 68 473 473 HOH HOH . C 3 HOH A 69 474 474 HOH HOH . C 3 HOH A 70 476 476 HOH HOH . C 3 HOH A 71 477 477 HOH HOH . C 3 HOH A 72 478 478 HOH HOH . C 3 HOH A 73 480 480 HOH HOH . C 3 HOH A 74 481 481 HOH HOH . C 3 HOH A 75 482 482 HOH HOH . C 3 HOH A 76 483 483 HOH HOH . C 3 HOH A 77 485 485 HOH HOH . C 3 HOH A 78 486 486 HOH HOH . C 3 HOH A 79 487 487 HOH HOH . C 3 HOH A 80 489 489 HOH HOH . C 3 HOH A 81 491 491 HOH HOH . C 3 HOH A 82 493 493 HOH HOH . C 3 HOH A 83 494 494 HOH HOH . C 3 HOH A 84 495 495 HOH HOH . C 3 HOH A 85 496 496 HOH HOH . C 3 HOH A 86 497 497 HOH HOH . C 3 HOH A 87 498 498 HOH HOH . C 3 HOH A 88 500 500 HOH HOH . C 3 HOH A 89 502 502 HOH HOH . C 3 HOH A 90 505 505 HOH HOH . C 3 HOH A 91 507 507 HOH HOH . C 3 HOH A 92 508 508 HOH HOH . C 3 HOH A 93 509 509 HOH HOH . C 3 HOH A 94 510 510 HOH HOH . C 3 HOH A 95 511 511 HOH HOH . C 3 HOH A 96 512 512 HOH HOH . C 3 HOH A 97 513 513 HOH HOH . C 3 HOH A 98 514 514 HOH HOH . C 3 HOH A 99 515 515 HOH HOH . C 3 HOH A 100 517 517 HOH HOH . C 3 HOH A 101 518 518 HOH HOH . C 3 HOH A 102 520 520 HOH HOH . C 3 HOH A 103 528 528 HOH HOH . C 3 HOH A 104 531 531 HOH HOH . C 3 HOH A 105 532 532 HOH HOH . C 3 HOH A 106 533 533 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 NAP . . . B 2 6.706 118.29 44.794 1 78.41 ? PA NAP 386 A 1 HETATM 2 O O1A NAP . . . B 2 5.544 119.204 44.721 1 72.41 ? O1A NAP 386 A 1 HETATM 3 O O2A NAP . . . B 2 8.038 118.955 44.813 1 75.24 ? O2A NAP 386 A 1 HETATM 4 O O5B NAP . . . B 2 6.609 117.318 46.089 1 78.01 ? O5B NAP 386 A 1 HETATM 5 C C5B NAP . . . B 2 7.546 116.226 46.279 1 74.67 ? C5B NAP 386 A 1 HETATM 6 C C4B NAP . . . B 2 7.384 115.621 47.664 1 70.33 ? C4B NAP 386 A 1 HETATM 7 O O4B NAP . . . B 2 8.073 114.412 48.042 1 70.43 ? O4B NAP 386 A 1 HETATM 8 C C3B NAP . . . B 2 7.779 116.607 48.722 1 70.37 ? C3B NAP 386 A 1 HETATM 9 O O3B NAP . . . B 2 6.664 117.468 48.915 1 67.54 ? O3B NAP 386 A 1 HETATM 10 C C2B NAP . . . B 2 8.077 115.714 49.924 1 73.29 ? C2B NAP 386 A 1 HETATM 11 O O2B NAP . . . B 2 7.401 115.918 51.163 1 82.88 ? O2B NAP 386 A 1 HETATM 12 C C1B NAP . . . B 2 7.67 114.366 49.416 1 68.95 ? C1B NAP 386 A 1 HETATM 13 N N9A NAP . . . B 2 7.887 113.241 50.362 1 65.96 ? N9A NAP 386 A 1 HETATM 14 C C8A NAP . . . B 2 8.949 112.422 50.479 1 65.52 ? C8A NAP 386 A 1 HETATM 15 N N7A NAP . . . B 2 8.641 111.351 51.227 1 64.1 ? N7A NAP 386 A 1 HETATM 16 C C5A NAP . . . B 2 7.366 111.546 51.569 1 61.26 ? C5A NAP 386 A 1 HETATM 17 C C6A NAP . . . B 2 6.621 110.751 52.441 1 58.59 ? C6A NAP 386 A 1 HETATM 18 N N6A NAP . . . B 2 7.243 109.947 53.291 1 62.74 ? N6A NAP 386 A 1 HETATM 19 N N1A NAP . . . B 2 5.36 111.168 52.704 1 53.65 ? N1A NAP 386 A 1 HETATM 20 C C2A NAP . . . B 2 4.881 112.313 52.228 1 49.81 ? C2A NAP 386 A 1 HETATM 21 N N3A NAP . . . B 2 5.621 113.086 51.439 1 57.71 ? N3A NAP 386 A 1 HETATM 22 C C4A NAP . . . B 2 6.874 112.728 51.07 1 62.19 ? C4A NAP 386 A 1 HETATM 23 O O3 NAP . . . B 2 6.642 117.234 43.58 1 79.03 ? O3 NAP 386 A 1 HETATM 24 P PN NAP . . . B 2 5.531 116.881 42.476 1 84.1 ? PN NAP 386 A 1 HETATM 25 O O1N NAP . . . B 2 6.087 117.093 41.108 1 83.47 ? O1N NAP 386 A 1 HETATM 26 O O2N NAP . . . B 2 4.381 117.697 42.921 1 83.15 ? O2N NAP 386 A 1 HETATM 27 O O5D NAP . . . B 2 5.151 115.31 42.661 1 79.33 ? O5D NAP 386 A 1 HETATM 28 C C5D NAP . . . B 2 6.137 114.301 42.972 1 76.57 ? C5D NAP 386 A 1 HETATM 29 C C4D NAP . . . B 2 5.836 112.924 42.375 1 72.33 ? C4D NAP 386 A 1 HETATM 30 O O4D NAP . . . B 2 4.569 112.928 41.675 1 70.21 ? O4D NAP 386 A 1 HETATM 31 C C3D NAP . . . B 2 6.9 112.562 41.354 1 71.15 ? C3D NAP 386 A 1 HETATM 32 O O3D NAP . . . B 2 7.312 111.19 41.374 1 69.63 ? O3D NAP 386 A 1 HETATM 33 C C2D NAP . . . B 2 6.269 113.036 40.048 1 69.67 ? C2D NAP 386 A 1 HETATM 34 O O2D NAP . . . B 2 6.83 112.385 38.903 1 69.4 ? O2D NAP 386 A 1 HETATM 35 C C1D NAP . . . B 2 4.793 112.744 40.264 1 65.49 ? C1D NAP 386 A 1 HETATM 36 N N1N NAP . . . B 2 3.903 113.584 39.434 1 58.72 ? N1N NAP 386 A 1 HETATM 37 C C2N NAP . . . B 2 2.863 112.961 38.74 1 59.97 ? C2N NAP 386 A 1 HETATM 38 C C3N NAP . . . B 2 2.037 113.697 37.898 1 63.24 ? C3N NAP 386 A 1 HETATM 39 C C7N NAP . . . B 2 0.878 113.007 37.163 1 69.01 ? C7N NAP 386 A 1 HETATM 40 O O7N NAP . . . B 2 0.474 113.432 36.075 1 75.77 ? O7N NAP 386 A 1 HETATM 41 N N7N NAP . . . B 2 0.493 111.833 37.656 1 66.64 ? N7N NAP 386 A 1 HETATM 42 C C4N NAP . . . B 2 2.269 115.064 37.741 1 58.08 ? C4N NAP 386 A 1 HETATM 43 C C5N NAP . . . B 2 3.303 115.696 38.431 1 57.58 ? C5N NAP 386 A 1 HETATM 44 C C6N NAP . . . B 2 4.119 114.962 39.288 1 56.53 ? C6N NAP 386 A 1 HETATM 45 P P2B NAP . . . B 2 6.953 117.341 51.748 1 92.34 ? P2B NAP 386 A 1 HETATM 46 O O1X NAP . . . B 2 7.893 118.299 51.101 1 92.48 ? O1X NAP 386 A 1 HETATM 47 O O2X NAP . . . B 2 7.13 117.147 53.206 1 89.14 ? O2X NAP 386 A 1 HETATM 48 O O3X NAP . . . B 2 5.54 117.535 51.347 1 88.65 ? O3X NAP 386 A 1 # _model_server_stats.io_time_ms 68 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 48 #