data_1ASM # _model_server_result.job_id R2YXKWWYn49iHEKOcitIsg _model_server_result.datetime_utc '2024-11-24 02:00:15' _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 1asm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":410}' # _entry.id 1ASM # _exptl.entry_id 1ASM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 247.142 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "PYRIDOXAL-5'-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 118.6 _cell.angle_gamma 90 _cell.entry_id 1ASM _cell.length_a 85.4 _cell.length_b 78.8 _cell.length_c 89.6 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1ASM _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _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,D,E,F,G,H _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 # 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 E 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 covale ? covale1 A NZ LYS 246 A LYS 258 1_555 C C4A PLP . A PLP 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.354 ? covale ? covale2 B NZ LYS 246 B LYS 258 1_555 E C4A PLP . B PLP 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? # _chem_comp.formula 'C8 H10 N O6 P' _chem_comp.formula_weight 247.142 _chem_comp.id PLP _chem_comp.mon_nstd_flag . _chem_comp.name "PYRIDOXAL-5'-PHOSPHATE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'VITAMIN B6 Phosphate' # 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 PLP doub 271 n y N1 C6 PLP sing 272 n y C2 C2A PLP sing 273 n n C2 C3 PLP sing 274 n y C2A H2A1 PLP sing 275 n n C2A H2A2 PLP sing 276 n n C2A H2A3 PLP sing 277 n n C3 O3 PLP sing 278 n n C3 C4 PLP doub 279 n y O3 HO3 PLP sing 280 n n C4 C4A PLP sing 281 n n C4 C5 PLP sing 282 n y C4A O4A PLP doub 283 n n C4A H4A PLP sing 284 n n C5 C6 PLP doub 285 n y C5 C5A PLP sing 286 n n C6 H6 PLP sing 287 n n C5A O4P PLP sing 288 n n C5A H5A1 PLP sing 289 n n C5A H5A2 PLP sing 290 n n O4P P PLP sing 291 n n P O1P PLP doub 292 n n P O2P PLP sing 293 n n P O3P PLP sing 294 n n O2P HOP2 PLP sing 295 n n O3P HOP3 PLP sing 296 n n # _atom_sites.entry_id 1ASM _atom_sites.fract_transf_matrix[1][1] 0.01171 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.006384 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01269 _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] 0.012712 _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 PLP A 1 410 258 PLP PLP . D 3 MAE A 1 411 411 MAE MAE . E 2 PLP B 1 410 258 PLP PLP . F 3 MAE B 1 411 411 MAE MAE . G 4 HOH A 1 412 2 HOH HOH . G 4 HOH A 2 413 3 HOH HOH . G 4 HOH A 3 414 5 HOH HOH . G 4 HOH A 4 415 6 HOH HOH . G 4 HOH A 5 416 10 HOH HOH . G 4 HOH A 6 417 11 HOH HOH . G 4 HOH A 7 418 15 HOH HOH . G 4 HOH A 8 419 16 HOH HOH . G 4 HOH A 9 420 17 HOH HOH . G 4 HOH A 10 421 18 HOH HOH . G 4 HOH A 11 422 19 HOH HOH . G 4 HOH A 12 423 20 HOH HOH . G 4 HOH A 13 424 22 HOH HOH . G 4 HOH A 14 425 23 HOH HOH . G 4 HOH A 15 426 27 HOH HOH . G 4 HOH A 16 427 29 HOH HOH . G 4 HOH A 17 428 31 HOH HOH . G 4 HOH A 18 429 34 HOH HOH . G 4 HOH A 19 430 36 HOH HOH . G 4 HOH A 20 431 37 HOH HOH . G 4 HOH A 21 432 41 HOH HOH . G 4 HOH A 22 433 42 HOH HOH . G 4 HOH A 23 434 44 HOH HOH . G 4 HOH A 24 435 45 HOH HOH . G 4 HOH A 25 436 46 HOH HOH . G 4 HOH A 26 437 47 HOH HOH . G 4 HOH A 27 438 48 HOH HOH . G 4 HOH A 28 439 49 HOH HOH . G 4 HOH A 29 440 50 HOH HOH . G 4 HOH A 30 441 52 HOH HOH . G 4 HOH A 31 442 53 HOH HOH . G 4 HOH A 32 443 55 HOH HOH . G 4 HOH A 33 444 58 HOH HOH . G 4 HOH A 34 445 60 HOH HOH . G 4 HOH A 35 446 61 HOH HOH . G 4 HOH A 36 447 62 HOH HOH . G 4 HOH A 37 448 64 HOH HOH . G 4 HOH A 38 449 66 HOH HOH . G 4 HOH A 39 450 67 HOH HOH . G 4 HOH A 40 451 71 HOH HOH . G 4 HOH A 41 452 72 HOH HOH . G 4 HOH A 42 453 74 HOH HOH . G 4 HOH A 43 454 81 HOH HOH . G 4 HOH A 44 455 84 HOH HOH . G 4 HOH A 45 456 85 HOH HOH . G 4 HOH A 46 457 86 HOH HOH . G 4 HOH A 47 458 87 HOH HOH . G 4 HOH A 48 459 89 HOH HOH . G 4 HOH A 49 460 90 HOH HOH . G 4 HOH A 50 461 95 HOH HOH . G 4 HOH A 51 462 96 HOH HOH . G 4 HOH A 52 463 97 HOH HOH . G 4 HOH A 53 464 99 HOH HOH . G 4 HOH A 54 465 101 HOH HOH . G 4 HOH A 55 466 102 HOH HOH . G 4 HOH A 56 467 105 HOH HOH . G 4 HOH A 57 468 106 HOH HOH . G 4 HOH A 58 469 107 HOH HOH . G 4 HOH A 59 470 109 HOH HOH . G 4 HOH A 60 471 110 HOH HOH . G 4 HOH A 61 472 111 HOH HOH . G 4 HOH A 62 473 114 HOH HOH . G 4 HOH A 63 474 116 HOH HOH . G 4 HOH A 64 475 117 HOH HOH . G 4 HOH A 65 476 119 HOH HOH . G 4 HOH A 66 477 120 HOH HOH . G 4 HOH A 67 478 121 HOH HOH . G 4 HOH A 68 479 122 HOH HOH . G 4 HOH A 69 480 123 HOH HOH . G 4 HOH A 70 481 124 HOH HOH . G 4 HOH A 71 482 125 HOH HOH . G 4 HOH A 72 483 138 HOH HOH . G 4 HOH A 73 484 139 HOH HOH . G 4 HOH A 74 485 142 HOH HOH . G 4 HOH A 75 486 144 HOH HOH . G 4 HOH A 76 487 145 HOH HOH . G 4 HOH A 77 488 150 HOH HOH . G 4 HOH A 78 489 151 HOH HOH . G 4 HOH A 79 490 153 HOH HOH . G 4 HOH A 80 491 155 HOH HOH . G 4 HOH A 81 492 156 HOH HOH . G 4 HOH A 82 493 158 HOH HOH . G 4 HOH A 83 494 159 HOH HOH . G 4 HOH A 84 495 162 HOH HOH . G 4 HOH A 85 496 163 HOH HOH . G 4 HOH A 86 497 165 HOH HOH . G 4 HOH A 87 498 167 HOH HOH . G 4 HOH A 88 499 170 HOH HOH . G 4 HOH A 89 500 174 HOH HOH . G 4 HOH A 90 501 175 HOH HOH . G 4 HOH A 91 502 177 HOH HOH . G 4 HOH A 92 503 179 HOH HOH . G 4 HOH A 93 504 180 HOH HOH . G 4 HOH A 94 505 181 HOH HOH . G 4 HOH A 95 506 184 HOH HOH . G 4 HOH A 96 507 188 HOH HOH . G 4 HOH A 97 508 190 HOH HOH . G 4 HOH A 98 509 192 HOH HOH . G 4 HOH A 99 510 193 HOH HOH . G 4 HOH A 100 511 194 HOH HOH . G 4 HOH A 101 512 195 HOH HOH . G 4 HOH A 102 513 197 HOH HOH . G 4 HOH A 103 514 199 HOH HOH . G 4 HOH A 104 515 200 HOH HOH . G 4 HOH A 105 516 203 HOH HOH . G 4 HOH A 106 517 211 HOH HOH . G 4 HOH A 107 518 214 HOH HOH . G 4 HOH A 108 519 219 HOH HOH . G 4 HOH A 109 520 220 HOH HOH . G 4 HOH A 110 521 222 HOH HOH . G 4 HOH A 111 522 227 HOH HOH . G 4 HOH A 112 523 228 HOH HOH . G 4 HOH A 113 524 232 HOH HOH . G 4 HOH A 114 525 233 HOH HOH . G 4 HOH A 115 526 235 HOH HOH . G 4 HOH A 116 527 238 HOH HOH . G 4 HOH A 117 528 239 HOH HOH . H 4 HOH B 1 412 1 HOH HOH . H 4 HOH B 2 413 4 HOH HOH . H 4 HOH B 3 414 7 HOH HOH . H 4 HOH B 4 415 8 HOH HOH . H 4 HOH B 5 416 9 HOH HOH . H 4 HOH B 6 417 12 HOH HOH . H 4 HOH B 7 418 13 HOH HOH . H 4 HOH B 8 419 14 HOH HOH . H 4 HOH B 9 420 21 HOH HOH . H 4 HOH B 10 421 24 HOH HOH . H 4 HOH B 11 422 25 HOH HOH . H 4 HOH B 12 423 26 HOH HOH . H 4 HOH B 13 424 28 HOH HOH . H 4 HOH B 14 425 30 HOH HOH . H 4 HOH B 15 426 32 HOH HOH . H 4 HOH B 16 427 33 HOH HOH . H 4 HOH B 17 428 35 HOH HOH . H 4 HOH B 18 429 38 HOH HOH . H 4 HOH B 19 430 39 HOH HOH . H 4 HOH B 20 431 40 HOH HOH . H 4 HOH B 21 432 43 HOH HOH . H 4 HOH B 22 433 51 HOH HOH . H 4 HOH B 23 434 54 HOH HOH . H 4 HOH B 24 435 56 HOH HOH . H 4 HOH B 25 436 57 HOH HOH . H 4 HOH B 26 437 59 HOH HOH . H 4 HOH B 27 438 63 HOH HOH . H 4 HOH B 28 439 65 HOH HOH . H 4 HOH B 29 440 68 HOH HOH . H 4 HOH B 30 441 69 HOH HOH . H 4 HOH B 31 442 70 HOH HOH . H 4 HOH B 32 443 73 HOH HOH . H 4 HOH B 33 444 75 HOH HOH . H 4 HOH B 34 445 76 HOH HOH . H 4 HOH B 35 446 77 HOH HOH . H 4 HOH B 36 447 78 HOH HOH . H 4 HOH B 37 448 79 HOH HOH . H 4 HOH B 38 449 80 HOH HOH . H 4 HOH B 39 450 82 HOH HOH . H 4 HOH B 40 451 83 HOH HOH . H 4 HOH B 41 452 88 HOH HOH . H 4 HOH B 42 453 91 HOH HOH . H 4 HOH B 43 454 92 HOH HOH . H 4 HOH B 44 455 94 HOH HOH . H 4 HOH B 45 456 98 HOH HOH . H 4 HOH B 46 457 100 HOH HOH . H 4 HOH B 47 458 103 HOH HOH . H 4 HOH B 48 459 104 HOH HOH . H 4 HOH B 49 460 108 HOH HOH . H 4 HOH B 50 461 112 HOH HOH . H 4 HOH B 51 462 113 HOH HOH . H 4 HOH B 52 463 115 HOH HOH . H 4 HOH B 53 464 118 HOH HOH . H 4 HOH B 54 465 126 HOH HOH . H 4 HOH B 55 466 127 HOH HOH . H 4 HOH B 56 467 128 HOH HOH . H 4 HOH B 57 468 129 HOH HOH . H 4 HOH B 58 469 130 HOH HOH . H 4 HOH B 59 470 131 HOH HOH . H 4 HOH B 60 471 132 HOH HOH . H 4 HOH B 61 472 133 HOH HOH . H 4 HOH B 62 473 134 HOH HOH . H 4 HOH B 63 474 136 HOH HOH . H 4 HOH B 64 475 137 HOH HOH . H 4 HOH B 65 476 140 HOH HOH . H 4 HOH B 66 477 143 HOH HOH . H 4 HOH B 67 478 147 HOH HOH . H 4 HOH B 68 479 149 HOH HOH . H 4 HOH B 69 480 152 HOH HOH . H 4 HOH B 70 481 154 HOH HOH . H 4 HOH B 71 482 157 HOH HOH . H 4 HOH B 72 483 160 HOH HOH . H 4 HOH B 73 484 164 HOH HOH . H 4 HOH B 74 485 166 HOH HOH . H 4 HOH B 75 486 169 HOH HOH . H 4 HOH B 76 487 171 HOH HOH . H 4 HOH B 77 488 172 HOH HOH . H 4 HOH B 78 489 173 HOH HOH . H 4 HOH B 79 490 182 HOH HOH . H 4 HOH B 80 491 183 HOH HOH . H 4 HOH B 81 492 185 HOH HOH . H 4 HOH B 82 493 189 HOH HOH . H 4 HOH B 83 494 191 HOH HOH . H 4 HOH B 84 495 196 HOH HOH . H 4 HOH B 85 496 198 HOH HOH . H 4 HOH B 86 497 201 HOH HOH . H 4 HOH B 87 498 202 HOH HOH . H 4 HOH B 88 499 204 HOH HOH . H 4 HOH B 89 500 205 HOH HOH . H 4 HOH B 90 501 206 HOH HOH . H 4 HOH B 91 502 207 HOH HOH . H 4 HOH B 92 503 208 HOH HOH . H 4 HOH B 93 504 210 HOH HOH . H 4 HOH B 94 505 212 HOH HOH . H 4 HOH B 95 506 213 HOH HOH . H 4 HOH B 96 507 215 HOH HOH . H 4 HOH B 97 508 217 HOH HOH . H 4 HOH B 98 509 218 HOH HOH . H 4 HOH B 99 510 221 HOH HOH . H 4 HOH B 100 511 223 HOH HOH . H 4 HOH B 101 512 224 HOH HOH . H 4 HOH B 102 513 225 HOH HOH . H 4 HOH B 103 514 229 HOH HOH . H 4 HOH B 104 515 230 HOH HOH . H 4 HOH B 105 516 231 HOH HOH . H 4 HOH B 106 517 234 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 N N1 PLP . . . E 2 3.699 26.776 26.77 1 17.58 ? N1 PLP 410 B 1 HETATM 2 C C2 PLP . . . E 2 4.474 25.879 26.128 1 17.24 ? C2 PLP 410 B 1 HETATM 3 C C2A PLP . . . E 2 4.638 24.499 26.694 1 19.21 ? C2A PLP 410 B 1 HETATM 4 C C3 PLP . . . E 2 5.098 26.238 24.975 1 22.44 ? C3 PLP 410 B 1 HETATM 5 O O3 PLP . . . E 2 5.843 25.339 24.28 1 27.49 ? O3 PLP 410 B 1 HETATM 6 C C4 PLP . . . E 2 4.94 27.521 24.481 1 24.9 ? C4 PLP 410 B 1 HETATM 7 C C4A PLP . . . E 2 5.616 27.945 23.235 1 26.12 ? C4A PLP 410 B 1 HETATM 8 C C5 PLP . . . E 2 4.145 28.414 25.158 1 21.77 ? C5 PLP 410 B 1 HETATM 9 C C6 PLP . . . E 2 3.518 28.045 26.283 1 16.65 ? C6 PLP 410 B 1 HETATM 10 C C5A PLP . . . E 2 3.99 29.7 24.605 1 19.54 ? C5A PLP 410 B 1 HETATM 11 O O4P PLP . . . E 2 3.164 29.916 23.406 1 18.01 ? O4P PLP 410 B 1 HETATM 12 P P PLP . . . E 2 3.525 31.406 22.872 1 17.56 ? P PLP 410 B 1 HETATM 13 O O1P PLP . . . E 2 3.561 32.275 23.999 1 10.16 ? O1P PLP 410 B 1 HETATM 14 O O2P PLP . . . E 2 4.837 31.327 22.221 1 18.39 ? O2P PLP 410 B 1 HETATM 15 O O3P PLP . . . E 2 2.462 31.774 21.911 1 16.61 ? O3P PLP 410 B 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 290 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 15 #