data_2TSY # _model_server_result.job_id DY_HYv7nXfDewHpGzn4BTQ _model_server_result.datetime_utc '2024-11-23 12:03:06' _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 2tsy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":398}' # _entry.id 2TSY # _exptl.entry_id 2TSY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 336.235 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHYL]-SERINE' _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 94.4 _cell.angle_gamma 90 _cell.entry_id 2TSY _cell.length_a 185.7 _cell.length_b 62.6 _cell.length_c 67.9 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2TSY _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_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 # 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' 2_655 -x+1,y,-z -1 0 0 0 1 0 0 0 -1 185.7 0 0 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id E _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 metalc ? metalc1 B O GLY 232 B GLY 232 1_555 D NA NA . B NA 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.28 ? metalc ? metalc2 B O PHE 306 B PHE 306 1_555 D NA NA . B NA 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.344 ? metalc ? metalc3 B O SER 308 B SER 308 1_555 D NA NA . B NA 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.529 ? metalc ? metalc4 D NA NA . B NA 400 1_555 G O HOH . B HOH 425 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.417 ? metalc ? metalc5 D NA NA . B NA 400 1_555 G O HOH . B HOH 442 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.211 ? # _chem_comp.formula 'C11 H17 N2 O8 P' _chem_comp.formula_weight 336.235 _chem_comp.id PLS _chem_comp.mon_nstd_flag . _chem_comp.name '[3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHYL]-SERINE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms PYRIDOXYL-SERINE-5-MONOPHOSPHATE # 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 N CA PLS sing 278 n n N C4A PLS sing 279 n n N HN PLS sing 280 n n CA CB PLS sing 281 n n CA C PLS sing 282 n n CA HA PLS sing 283 n n CB OG PLS sing 284 n n CB HB1 PLS sing 285 n n CB HB2 PLS sing 286 n n OG HOG PLS sing 287 n n C O PLS doub 288 n n C OXT PLS sing 289 n n OXT HXT PLS sing 290 n n N1 C2 PLS doub 291 n y N1 C6 PLS sing 292 n y C2 C2A PLS sing 293 n n C2 C3 PLS sing 294 n y C2A H2A1 PLS sing 295 n n C2A H2A2 PLS sing 296 n n C2A H2A3 PLS sing 297 n n C3 O3 PLS sing 298 n n C3 C4 PLS doub 299 n y O3 HO3 PLS sing 300 n n C4 C4A PLS sing 301 n n C4 C5 PLS sing 302 n y C4A H4A1 PLS sing 303 n n C4A H4A2 PLS sing 304 n n C5 C6 PLS doub 305 n y C5 C5A PLS sing 306 n n C6 H6 PLS sing 307 n n C5A O4P PLS sing 308 n n C5A H5A1 PLS sing 309 n n C5A H5A2 PLS sing 310 n n O4P P PLS sing 311 n n P O1P PLS doub 312 n n P O2P PLS sing 313 n n P O3P PLS sing 314 n n O2P HOP2 PLS sing 315 n n O3P HOP3 PLS sing 316 n n # _atom_sites.entry_id 2TSY _atom_sites.fract_transf_matrix[1][1] 0.005385 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000414 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015974 _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] 0.014771 _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 3 G3P A 1 271 271 G3P G3P . D 4 NA B 1 400 400 NA NA . E 5 PLS B 1 398 398 PLS PLS . F 6 HOH A 1 402 402 HOH HOH . F 6 HOH A 2 403 403 HOH HOH . F 6 HOH A 3 404 404 HOH HOH . F 6 HOH A 4 437 437 HOH HOH . F 6 HOH A 5 438 438 HOH HOH . F 6 HOH A 6 439 439 HOH HOH . F 6 HOH A 7 440 440 HOH HOH . F 6 HOH A 8 441 441 HOH HOH . F 6 HOH A 9 444 444 HOH HOH . F 6 HOH A 10 445 445 HOH HOH . F 6 HOH A 11 446 446 HOH HOH . F 6 HOH A 12 447 447 HOH HOH . F 6 HOH A 13 448 448 HOH HOH . F 6 HOH A 14 472 472 HOH HOH . F 6 HOH A 15 473 473 HOH HOH . F 6 HOH A 16 474 474 HOH HOH . F 6 HOH A 17 475 475 HOH HOH . F 6 HOH A 18 476 476 HOH HOH . F 6 HOH A 19 477 477 HOH HOH . F 6 HOH A 20 478 478 HOH HOH . F 6 HOH A 21 479 479 HOH HOH . F 6 HOH A 22 480 480 HOH HOH . F 6 HOH A 23 499 499 HOH HOH . F 6 HOH A 24 500 500 HOH HOH . F 6 HOH A 25 505 505 HOH HOH . F 6 HOH A 26 508 508 HOH HOH . F 6 HOH A 27 510 510 HOH HOH . F 6 HOH A 28 511 511 HOH HOH . F 6 HOH A 29 512 512 HOH HOH . F 6 HOH A 30 513 513 HOH HOH . F 6 HOH A 31 514 514 HOH HOH . F 6 HOH A 32 515 515 HOH HOH . F 6 HOH A 33 516 516 HOH HOH . F 6 HOH A 34 517 517 HOH HOH . F 6 HOH A 35 518 518 HOH HOH . F 6 HOH A 36 519 519 HOH HOH . F 6 HOH A 37 522 522 HOH HOH . F 6 HOH A 38 527 527 HOH HOH . G 6 HOH B 1 401 401 HOH HOH . G 6 HOH B 2 405 405 HOH HOH . G 6 HOH B 3 406 406 HOH HOH . G 6 HOH B 4 407 407 HOH HOH . G 6 HOH B 5 408 408 HOH HOH . G 6 HOH B 6 409 409 HOH HOH . G 6 HOH B 7 410 410 HOH HOH . G 6 HOH B 8 411 411 HOH HOH . G 6 HOH B 9 412 412 HOH HOH . G 6 HOH B 10 414 414 HOH HOH . G 6 HOH B 11 415 415 HOH HOH . G 6 HOH B 12 416 416 HOH HOH . G 6 HOH B 13 417 417 HOH HOH . G 6 HOH B 14 418 418 HOH HOH . G 6 HOH B 15 419 419 HOH HOH . G 6 HOH B 16 420 420 HOH HOH . G 6 HOH B 17 421 421 HOH HOH . G 6 HOH B 18 422 422 HOH HOH . G 6 HOH B 19 423 423 HOH HOH . G 6 HOH B 20 424 424 HOH HOH . G 6 HOH B 21 425 425 HOH HOH . G 6 HOH B 22 426 426 HOH HOH . G 6 HOH B 23 427 427 HOH HOH . G 6 HOH B 24 428 428 HOH HOH . G 6 HOH B 25 429 429 HOH HOH . G 6 HOH B 26 430 430 HOH HOH . G 6 HOH B 27 431 431 HOH HOH . G 6 HOH B 28 432 432 HOH HOH . G 6 HOH B 29 433 433 HOH HOH . G 6 HOH B 30 435 435 HOH HOH . G 6 HOH B 31 436 436 HOH HOH . G 6 HOH B 32 442 442 HOH HOH . G 6 HOH B 33 443 443 HOH HOH . G 6 HOH B 34 449 449 HOH HOH . G 6 HOH B 35 450 450 HOH HOH . G 6 HOH B 36 451 451 HOH HOH . G 6 HOH B 37 452 452 HOH HOH . G 6 HOH B 38 453 453 HOH HOH . G 6 HOH B 39 454 454 HOH HOH . G 6 HOH B 40 455 455 HOH HOH . G 6 HOH B 41 456 456 HOH HOH . G 6 HOH B 42 457 457 HOH HOH . G 6 HOH B 43 458 458 HOH HOH . G 6 HOH B 44 459 459 HOH HOH . G 6 HOH B 45 460 460 HOH HOH . G 6 HOH B 46 461 461 HOH HOH . G 6 HOH B 47 462 462 HOH HOH . G 6 HOH B 48 463 463 HOH HOH . G 6 HOH B 49 464 464 HOH HOH . G 6 HOH B 50 465 465 HOH HOH . G 6 HOH B 51 466 466 HOH HOH . G 6 HOH B 52 467 467 HOH HOH . G 6 HOH B 53 468 468 HOH HOH . G 6 HOH B 54 469 469 HOH HOH . G 6 HOH B 55 470 470 HOH HOH . G 6 HOH B 56 471 471 HOH HOH . G 6 HOH B 57 481 481 HOH HOH . G 6 HOH B 58 482 482 HOH HOH . G 6 HOH B 59 483 483 HOH HOH . G 6 HOH B 60 484 484 HOH HOH . G 6 HOH B 61 485 485 HOH HOH . G 6 HOH B 62 486 486 HOH HOH . G 6 HOH B 63 487 487 HOH HOH . G 6 HOH B 64 488 488 HOH HOH . G 6 HOH B 65 489 489 HOH HOH . G 6 HOH B 66 490 490 HOH HOH . G 6 HOH B 67 491 491 HOH HOH . G 6 HOH B 68 492 492 HOH HOH . G 6 HOH B 69 493 493 HOH HOH . G 6 HOH B 70 494 494 HOH HOH . G 6 HOH B 71 495 495 HOH HOH . G 6 HOH B 72 496 496 HOH HOH . G 6 HOH B 73 497 497 HOH HOH . G 6 HOH B 74 498 498 HOH HOH . G 6 HOH B 75 502 502 HOH HOH . G 6 HOH B 76 503 503 HOH HOH . G 6 HOH B 77 504 504 HOH HOH . G 6 HOH B 78 506 506 HOH HOH . G 6 HOH B 79 507 507 HOH HOH . G 6 HOH B 80 509 509 HOH HOH . G 6 HOH B 81 520 520 HOH HOH . G 6 HOH B 82 521 521 HOH HOH . G 6 HOH B 83 523 523 HOH HOH . G 6 HOH B 84 524 524 HOH HOH . G 6 HOH B 85 525 525 HOH HOH . G 6 HOH B 86 526 526 HOH HOH . G 6 HOH B 87 528 528 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 N PLS . . . E 5 81.477 14.843 10.303 1 46.72 ? N PLS 398 B 1 HETATM 2 C CA PLS . . . E 5 80.224 15.528 9.969 1 48.98 ? CA PLS 398 B 1 HETATM 3 C CB PLS . . . E 5 79.699 16.421 11.044 1 51.33 ? CB PLS 398 B 1 HETATM 4 O OG PLS . . . E 5 80.236 17.746 11.169 1 53.49 ? OG PLS 398 B 1 HETATM 5 C C PLS . . . E 5 80.186 16.318 8.596 1 51.58 ? C PLS 398 B 1 HETATM 6 O O PLS . . . E 5 81.256 16.657 7.97 1 53.74 ? O PLS 398 B 1 HETATM 7 O OXT PLS . . . E 5 79.139 16.765 8.183 1 52.45 ? OXT PLS 398 B 1 HETATM 8 N N1 PLS . . . E 5 85.681 12.365 11.821 1 32.94 ? N1 PLS 398 B 1 HETATM 9 C C2 PLS . . . E 5 85.696 13.212 10.818 1 34.66 ? C2 PLS 398 B 1 HETATM 10 C C2A PLS . . . E 5 86.805 13.174 9.828 1 34.69 ? C2A PLS 398 B 1 HETATM 11 C C3 PLS . . . E 5 84.621 14.154 10.669 1 34.81 ? C3 PLS 398 B 1 HETATM 12 O O3 PLS . . . E 5 84.525 15.071 9.68 1 32.65 ? O3 PLS 398 B 1 HETATM 13 C C4 PLS . . . E 5 83.596 14.147 11.665 1 35.38 ? C4 PLS 398 B 1 HETATM 14 C C4A PLS . . . E 5 82.274 14.845 11.415 1 38.17 ? C4A PLS 398 B 1 HETATM 15 C C5 PLS . . . E 5 83.653 13.25 12.69 1 35.41 ? C5 PLS 398 B 1 HETATM 16 C C6 PLS . . . E 5 84.741 12.343 12.766 1 34.94 ? C6 PLS 398 B 1 HETATM 17 C C5A PLS . . . E 5 82.702 13.352 13.925 1 30.4 ? C5A PLS 398 B 1 HETATM 18 O O4P PLS . . . E 5 81.53 12.591 13.868 1 29 ? O4P PLS 398 B 1 HETATM 19 P P PLS . . . E 5 81.233 11.284 14.338 1 30.42 ? P PLS 398 B 1 HETATM 20 O O1P PLS . . . E 5 80 11.071 13.909 1 39.39 ? O1P PLS 398 B 1 HETATM 21 O O2P PLS . . . E 5 81.043 11.571 15.841 1 37.13 ? O2P PLS 398 B 1 HETATM 22 O O3P PLS . . . E 5 81.876 9.979 14.236 1 33.02 ? O3P PLS 398 B 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 22 #