data_1G78 # _model_server_result.job_id s-fR7kjdGgEAE995192sUw _model_server_result.datetime_utc '2024-12-22 23:38:02' _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 1g78 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":270}' # _entry.id 1G78 # _exptl.entry_id 1G78 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 247.142 _entity.id 4 _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 90 _cell.angle_gamma 120 _cell.entry_id 1G78 _cell.length_a 63.4 _cell.length_b 63.4 _cell.length_c 124.44 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1G78 _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 31 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,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' 6_765 -x+2,-x+y+1,-z+1/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 95.1 54.906011 41.48 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 E N N ? 4 F 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 C ALA 52 A ALA 52 1_555 A N MSE 53 A MSE 53 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? covale ? covale2 A C MSE 53 A MSE 53 1_555 A N VAL 54 A VAL 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale3 A C GLY 78 A GLY 78 1_555 A N MSE 79 A MSE 79 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale4 A C MSE 79 A MSE 79 1_555 A N VAL 80 A VAL 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale5 A C VAL 112 A VAL 112 1_555 A N MSE 113 A MSE 113 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale6 A C MSE 113 A MSE 113 1_555 A N VAL 114 A VAL 114 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale7 A C VAL 126 A VAL 126 1_555 A N MSE 127 A MSE 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale8 A C MSE 127 A MSE 127 1_555 A N LYS 128 A LYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? # _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 333 n y N1 C6 PLP sing 334 n y C2 C2A PLP sing 335 n n C2 C3 PLP sing 336 n y C2A H2A1 PLP sing 337 n n C2A H2A2 PLP sing 338 n n C2A H2A3 PLP sing 339 n n C3 O3 PLP sing 340 n n C3 C4 PLP doub 341 n y O3 HO3 PLP sing 342 n n C4 C4A PLP sing 343 n n C4 C5 PLP sing 344 n y C4A O4A PLP doub 345 n n C4A H4A PLP sing 346 n n C5 C6 PLP doub 347 n y C5 C5A PLP sing 348 n n C6 H6 PLP sing 349 n n C5A O4P PLP sing 350 n n C5A H5A1 PLP sing 351 n n C5A H5A2 PLP sing 352 n n O4P P PLP sing 353 n n P O1P PLP doub 354 n n P O2P PLP sing 355 n n P O3P PLP sing 356 n n O2P HOP2 PLP sing 357 n n O3P HOP3 PLP sing 358 n n # _atom_sites.entry_id 1G78 _atom_sites.fract_transf_matrix[1][1] 0.015773 _atom_sites.fract_transf_matrix[1][2] 0.009106 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018213 _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] 0.008036 _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 PO4 A 1 280 280 PO4 PO4 . C 2 PO4 A 1 290 290 PO4 PO4 . D 3 FMN A 1 250 250 FMN FMN . E 4 PLP A 1 260 260 PLP PLP . F 4 PLP A 1 270 270 PLP PLP . G 5 HOH A 1 301 301 HOH HOH . G 5 HOH A 2 302 302 HOH HOH . G 5 HOH A 3 303 303 HOH HOH . G 5 HOH A 4 304 304 HOH HOH . G 5 HOH A 5 305 305 HOH HOH . G 5 HOH A 6 306 306 HOH HOH . G 5 HOH A 7 307 307 HOH HOH . G 5 HOH A 8 308 308 HOH HOH . G 5 HOH A 9 310 310 HOH HOH . G 5 HOH A 10 311 311 HOH HOH . G 5 HOH A 11 313 313 HOH HOH . G 5 HOH A 12 315 315 HOH HOH . G 5 HOH A 13 316 316 HOH HOH . G 5 HOH A 14 318 318 HOH HOH . G 5 HOH A 15 319 319 HOH HOH . G 5 HOH A 16 320 320 HOH HOH . G 5 HOH A 17 321 321 HOH HOH . G 5 HOH A 18 322 322 HOH HOH . G 5 HOH A 19 323 323 HOH HOH . G 5 HOH A 20 324 324 HOH HOH . G 5 HOH A 21 327 327 HOH HOH . G 5 HOH A 22 330 330 HOH HOH . G 5 HOH A 23 333 333 HOH HOH . G 5 HOH A 24 334 334 HOH HOH . G 5 HOH A 25 335 335 HOH HOH . G 5 HOH A 26 337 337 HOH HOH . G 5 HOH A 27 340 340 HOH HOH . G 5 HOH A 28 341 341 HOH HOH . G 5 HOH A 29 342 342 HOH HOH . G 5 HOH A 30 343 343 HOH HOH . G 5 HOH A 31 345 345 HOH HOH . G 5 HOH A 32 346 346 HOH HOH . G 5 HOH A 33 347 347 HOH HOH . G 5 HOH A 34 349 349 HOH HOH . G 5 HOH A 35 350 350 HOH HOH . G 5 HOH A 36 351 351 HOH HOH . G 5 HOH A 37 353 353 HOH HOH . G 5 HOH A 38 356 356 HOH HOH . G 5 HOH A 39 358 358 HOH HOH . G 5 HOH A 40 359 359 HOH HOH . G 5 HOH A 41 366 366 HOH HOH . G 5 HOH A 42 368 368 HOH HOH . G 5 HOH A 43 371 371 HOH HOH . G 5 HOH A 44 386 386 HOH HOH . G 5 HOH A 45 388 388 HOH HOH . G 5 HOH A 46 389 389 HOH HOH . G 5 HOH A 47 407 407 HOH HOH . G 5 HOH A 48 413 413 HOH HOH . G 5 HOH A 49 415 415 HOH HOH . G 5 HOH A 50 426 426 HOH HOH . G 5 HOH A 51 431 431 HOH HOH . G 5 HOH A 52 443 443 HOH HOH . G 5 HOH A 53 449 449 HOH HOH . G 5 HOH A 54 454 454 HOH HOH . G 5 HOH A 55 464 464 HOH HOH . G 5 HOH A 56 468 468 HOH HOH . G 5 HOH A 57 469 469 HOH HOH . G 5 HOH A 58 471 471 HOH HOH . G 5 HOH A 59 472 472 HOH HOH . G 5 HOH A 60 473 473 HOH HOH . G 5 HOH A 61 474 474 HOH HOH . G 5 HOH A 62 476 476 HOH HOH . G 5 HOH A 63 478 478 HOH HOH . G 5 HOH A 64 479 479 HOH HOH . G 5 HOH A 65 480 480 HOH HOH . G 5 HOH A 66 481 481 HOH HOH . G 5 HOH A 67 483 483 HOH HOH . G 5 HOH A 68 484 484 HOH HOH . G 5 HOH A 69 485 485 HOH HOH . G 5 HOH A 70 486 486 HOH HOH . G 5 HOH A 71 487 487 HOH HOH . G 5 HOH A 72 488 488 HOH HOH . G 5 HOH A 73 489 489 HOH HOH . G 5 HOH A 74 490 490 HOH HOH . G 5 HOH A 75 491 491 HOH HOH . G 5 HOH A 76 492 492 HOH HOH . G 5 HOH A 77 493 493 HOH HOH . G 5 HOH A 78 494 494 HOH HOH . G 5 HOH A 79 495 495 HOH HOH . G 5 HOH A 80 496 496 HOH HOH . G 5 HOH A 81 497 497 HOH HOH . G 5 HOH A 82 498 498 HOH HOH . G 5 HOH A 83 499 499 HOH HOH . G 5 HOH A 84 500 500 HOH HOH . G 5 HOH A 85 501 501 HOH HOH . G 5 HOH A 86 502 502 HOH HOH . G 5 HOH A 87 503 503 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 . . . F 4 47.549 25.553 -2.997 1 52.48 ? N1 PLP 270 A 1 HETATM 2 C C2 PLP . . . F 4 47.647 24.987 -4.296 1 52.25 ? C2 PLP 270 A 1 HETATM 3 C C2A PLP . . . F 4 48.269 23.603 -4.477 1 52.09 ? C2A PLP 270 A 1 HETATM 4 C C3 PLP . . . F 4 47.168 25.701 -5.426 1 53.1 ? C3 PLP 270 A 1 HETATM 5 O O3 PLP . . . F 4 47.264 25.145 -6.699 1 52.61 ? O3 PLP 270 A 1 HETATM 6 C C4 PLP . . . F 4 46.583 26.989 -5.25 1 53.61 ? C4 PLP 270 A 1 HETATM 7 C C4A PLP . . . F 4 46.051 27.792 -6.474 1 54.36 ? C4A PLP 270 A 1 HETATM 8 O O4A PLP . . . F 4 46.125 27.323 -7.637 1 55.48 ? O4A PLP 270 A 1 HETATM 9 C C5 PLP . . . F 4 46.481 27.548 -3.94 1 53.74 ? C5 PLP 270 A 1 HETATM 10 C C6 PLP . . . F 4 46.966 26.83 -2.811 1 53.01 ? C6 PLP 270 A 1 HETATM 11 C C5A PLP . . . F 4 45.839 28.926 -3.771 1 54.98 ? C5A PLP 270 A 1 HETATM 12 O O4P PLP . . . F 4 45.504 29.19 -2.415 1 58.27 ? O4P PLP 270 A 1 HETATM 13 P P PLP . . . F 4 44.08 29.897 -2.114 1 60.41 ? P PLP 270 A 1 HETATM 14 O O1P PLP . . . F 4 42.946 29.274 -3.061 1 60.47 ? O1P PLP 270 A 1 HETATM 15 O O2P PLP . . . F 4 44.219 31.457 -2.443 1 56.37 ? O2P PLP 270 A 1 HETATM 16 O O3P PLP . . . F 4 43.654 29.693 -0.564 1 59.66 ? O3P PLP 270 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 323 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 16 #