data_8IS0 # _model_server_result.job_id 1TZMZqgqmXvE0Y5Z1pz5wg _model_server_result.datetime_utc '2024-10-19 11:50:09' _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 8is0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":401}' # _entry.id 8IS0 # _exptl.entry_id 8IS0 _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 125.51 _cell.angle_gamma 90 _cell.entry_id 8IS0 _cell.length_a 107.518 _cell.length_b 173.275 _cell.length_c 82.858 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8IS0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,G 1 1,2 B,E,F,H 2 1,3 # 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_557 -x,y,-z+2 -1 0 0 0 1 0 0 0 -1 -96.255316 0 134.89517 3 'crystal symmetry operation' 2_558 -x,y,-z+3 -1 0 0 0 1 0 0 0 -1 -144.382974 0 202.342754 # 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 224 A LYS 203 1_555 C C4A PLP . A PLP 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.28 ? covale ? covale2 C C4A PLP . A PLP 401 1_555 D N DHA . A DHA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.3 ? covale ? covale3 B NZ LYS 224 B LYS 203 1_555 E C4A PLP . B PLP 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.279 ? covale ? covale4 E C4A PLP . B PLP 401 1_555 F N DHA . B DHA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.306 ? # _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 270 n y N1 C6 PLP sing 271 n y C2 C2A PLP sing 272 n n C2 C3 PLP sing 273 n y C2A H2A1 PLP sing 274 n n C2A H2A2 PLP sing 275 n n C2A H2A3 PLP sing 276 n n C3 O3 PLP sing 277 n n C3 C4 PLP doub 278 n y O3 HO3 PLP sing 279 n n C4 C4A PLP sing 280 n n C4 C5 PLP sing 281 n y C4A O4A PLP doub 282 n n C4A H4A PLP sing 283 n n C5 C6 PLP doub 284 n y C5 C5A PLP sing 285 n n C6 H6 PLP sing 286 n n C5A O4P PLP sing 287 n n C5A H5A1 PLP sing 288 n n C5A H5A2 PLP sing 289 n n O4P P PLP sing 290 n n P O1P PLP doub 291 n n P O2P PLP sing 292 n n P O3P PLP sing 293 n n O2P HOP2 PLP sing 294 n n O3P HOP3 PLP sing 295 n n # _atom_sites.entry_id 8IS0 _atom_sites.fract_transf_matrix[1][1] 0.009301 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.006637 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.005771 _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] 0.014826 _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 1 401 400 PLP PLP . D 3 DHA A 1 402 500 DHA AMA . E 2 PLP B 1 401 400 PLP PLP . F 3 DHA B 1 402 500 DHA AMA . G 4 HOH A 1 501 8 HOH HOH . G 4 HOH A 2 502 47 HOH HOH . G 4 HOH A 3 503 52 HOH HOH . G 4 HOH A 4 504 19 HOH HOH . G 4 HOH A 5 505 25 HOH HOH . G 4 HOH A 6 506 29 HOH HOH . G 4 HOH A 7 507 5 HOH HOH . G 4 HOH A 8 508 55 HOH HOH . G 4 HOH A 9 509 23 HOH HOH . G 4 HOH A 10 510 30 HOH HOH . G 4 HOH A 11 511 6 HOH HOH . G 4 HOH A 12 512 41 HOH HOH . G 4 HOH A 13 513 59 HOH HOH . G 4 HOH A 14 514 60 HOH HOH . G 4 HOH A 15 515 46 HOH HOH . G 4 HOH A 16 516 51 HOH HOH . G 4 HOH A 17 517 20 HOH HOH . G 4 HOH A 18 518 61 HOH HOH . G 4 HOH A 19 519 49 HOH HOH . G 4 HOH A 20 520 57 HOH HOH . G 4 HOH A 21 521 50 HOH HOH . G 4 HOH A 22 522 58 HOH HOH . G 4 HOH A 23 523 7 HOH HOH . G 4 HOH A 24 524 62 HOH HOH . H 4 HOH B 1 501 53 HOH HOH . H 4 HOH B 2 502 13 HOH HOH . H 4 HOH B 3 503 21 HOH HOH . H 4 HOH B 4 504 4 HOH HOH . H 4 HOH B 5 505 44 HOH HOH . H 4 HOH B 6 506 63 HOH HOH . H 4 HOH B 7 507 33 HOH HOH . H 4 HOH B 8 508 45 HOH HOH . H 4 HOH B 9 509 36 HOH HOH . H 4 HOH B 10 510 34 HOH HOH . H 4 HOH B 11 511 54 HOH HOH . H 4 HOH B 12 512 1 HOH HOH . H 4 HOH B 13 513 17 HOH HOH . H 4 HOH B 14 514 38 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 -57.011 5.288 103.754 1 56.3 ? N1 PLP 401 B 1 HETATM 2 C C2 PLP . . . E 2 -55.946 4.522 103.532 1 55.56 ? C2 PLP 401 B 1 HETATM 3 C C2A PLP . . . E 2 -54.592 5.034 103.908 1 52.3 ? C2A PLP 401 B 1 HETATM 4 C C3 PLP . . . E 2 -56.077 3.385 102.729 1 58.72 ? C3 PLP 401 B 1 HETATM 5 O O3 PLP . . . E 2 -55.028 2.519 102.595 1 69.09 ? O3 PLP 401 B 1 HETATM 6 C C4 PLP . . . E 2 -57.359 2.912 102.406 1 59.26 ? C4 PLP 401 B 1 HETATM 7 C C4A PLP . . . E 2 -57.465 1.619 101.723 1 77.88 ? C4A PLP 401 B 1 HETATM 8 C C5 PLP . . . E 2 -58.418 3.83 102.499 1 56.81 ? C5 PLP 401 B 1 HETATM 9 C C6 PLP . . . E 2 -58.153 5.038 103.082 1 55.34 ? C6 PLP 401 B 1 HETATM 10 C C5A PLP . . . E 2 -59.634 3.722 101.628 1 56.21 ? C5A PLP 401 B 1 HETATM 11 O O4P PLP . . . E 2 -60.772 3.295 102.431 1 52.69 ? O4P PLP 401 B 1 HETATM 12 P P PLP . . . E 2 -62.037 2.575 101.759 1 65.31 ? P PLP 401 B 1 HETATM 13 O O1P PLP . . . E 2 -61.448 2.01 100.466 1 51.83 ? O1P PLP 401 B 1 HETATM 14 O O2P PLP . . . E 2 -63.127 3.678 101.558 1 53.67 ? O2P PLP 401 B 1 HETATM 15 O O3P PLP . . . E 2 -62.457 1.478 102.773 1 60.75 ? O3P PLP 401 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 27 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 316 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 15 #