data_8X0P # _model_server_result.job_id 2PQeLW3ISo-TkuYKvEpB5w _model_server_result.datetime_utc '2025-03-12 11:03:52' _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 8x0p # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"O","auth_seq_id":601}' # _entry.id 8X0P # _exptl.entry_id 8X0P _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 247.142 _entity.id 2 _entity.src_method nat _entity.type non-polymer _entity.pdbx_description "PYRIDOXAL-5'-PHOSPHATE" _entity.pdbx_number_of_molecules 6 _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 90 _cell.entry_id 8X0P _cell.length_a 219.54 _cell.length_b 118.98 _cell.length_c 182.53 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8X0P _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall 'P 2 2ab' _symmetry.space_group_name_H-M 'P 21 21 2' # 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 PISA dimeric 2 author_and_software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,G,H,I,J,S,T 1 1 C,D,K,L,M,N,U,V 2 1 E,F,O,P,Q,R 3 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 G N N ? 2 I N N ? 2 K N N ? 2 M N N ? 2 O N N ? 2 Q 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 G C4A PLP . A PLP 601 1_555 H N 142 . A 142 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.248 ? covale ? covale2 I C4A PLP . B PLP 601 1_555 J N 142 . B 142 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.249 ? covale ? covale3 K C4A PLP . C PLP 601 1_555 L N 142 . C 142 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.248 ? covale ? covale4 M C4A PLP . D PLP 601 1_555 N N 142 . D 142 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.248 ? covale ? covale5 O C4A PLP . E PLP 601 1_555 P N 142 . F 142 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.248 ? covale ? covale6 Q C4A PLP . F PLP 602 1_555 R N 142 . F 142 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.249 ? # _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 290 n y N1 C6 PLP sing 291 n y C2 C2A PLP sing 292 n n C2 C3 PLP sing 293 n y C2A H2A1 PLP sing 294 n n C2A H2A2 PLP sing 295 n n C2A H2A3 PLP sing 296 n n C3 O3 PLP sing 297 n n C3 C4 PLP doub 298 n y O3 HO3 PLP sing 299 n n C4 C4A PLP sing 300 n n C4 C5 PLP sing 301 n y C4A O4A PLP doub 302 n n C4A H4A PLP sing 303 n n C5 C6 PLP doub 304 n y C5 C5A PLP sing 305 n n C6 H6 PLP sing 306 n n C5A O4P PLP sing 307 n n C5A H5A1 PLP sing 308 n n C5A H5A2 PLP sing 309 n n O4P P PLP sing 310 n n P O1P PLP doub 311 n n P O2P PLP sing 312 n n P O3P PLP sing 313 n n O2P HOP2 PLP sing 314 n n O3P HOP3 PLP sing 315 n n # _atom_sites.entry_id 8X0P _atom_sites.fract_transf_matrix[1][1] 0.004555 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008405 _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] 0.005479 _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 G 2 PLP A 1 601 601 PLP PLP . H 3 142 A 1 602 602 142 142 . I 2 PLP B 1 601 601 PLP PLP . J 3 142 B 1 602 602 142 142 . K 2 PLP C 1 601 601 PLP PLP . L 3 142 C 1 602 602 142 142 . M 2 PLP D 1 601 601 PLP PLP . N 3 142 D 1 602 602 142 142 . O 2 PLP E 1 601 601 PLP PLP . P 3 142 F 1 601 602 142 142 . Q 2 PLP F 1 602 601 PLP PLP . R 3 142 F 1 603 602 142 142 . S 4 HOH A 1 701 10 HOH HOH . S 4 HOH A 2 702 7 HOH HOH . S 4 HOH A 3 703 12 HOH HOH . S 4 HOH A 4 704 2 HOH HOH . T 4 HOH B 1 701 13 HOH HOH . T 4 HOH B 2 702 3 HOH HOH . T 4 HOH B 3 703 1 HOH HOH . T 4 HOH B 4 704 11 HOH HOH . T 4 HOH B 5 705 6 HOH HOH . U 4 HOH C 1 701 15 HOH HOH . U 4 HOH C 2 702 4 HOH HOH . U 4 HOH C 3 703 8 HOH HOH . V 4 HOH D 1 701 16 HOH HOH . V 4 HOH D 2 702 14 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 . . . O 2 -29.394 41.589 -5.757 1 89.29 ? N1 PLP 601 E 1 HETATM 2 C C2 PLP . . . O 2 -29.931 40.896 -6.735 1 88.92 ? C2 PLP 601 E 1 HETATM 3 C C2A PLP . . . O 2 -29.725 39.402 -6.848 1 77.32 ? C2A PLP 601 E 1 HETATM 4 C C3 PLP . . . O 2 -30.697 41.458 -7.713 1 89.54 ? C3 PLP 601 E 1 HETATM 5 O O3 PLP . . . O 2 -31.236 40.674 -8.723 1 74.94 ? O3 PLP 601 E 1 HETATM 6 C C4 PLP . . . O 2 -30.918 42.809 -7.661 1 100.05 ? C4 PLP 601 E 1 HETATM 7 C C4A PLP . . . O 2 -31.774 43.515 -8.705 1 88.74 ? C4A PLP 601 E 1 HETATM 8 C C5 PLP . . . O 2 -30.36 43.54 -6.627 1 104.61 ? C5 PLP 601 E 1 HETATM 9 C C6 PLP . . . O 2 -29.588 42.884 -5.69 1 85.62 ? C6 PLP 601 E 1 HETATM 10 C C5A PLP . . . O 2 -30.593 45.046 -6.57 1 109.42 ? C5A PLP 601 E 1 HETATM 11 O O4P PLP . . . O 2 -31.361 45.401 -5.466 1 103.15 ? O4P PLP 601 E 1 HETATM 12 P P PLP . . . O 2 -32.252 46.737 -5.634 1 124.35 ? P PLP 601 E 1 HETATM 13 O O1P PLP . . . O 2 -32.163 47.222 -7.168 1 102.72 ? O1P PLP 601 E 1 HETATM 14 O O2P PLP . . . O 2 -33.608 46.457 -5.298 1 103.42 ? O2P PLP 601 E 1 HETATM 15 O O3P PLP . . . O 2 -31.939 47.766 -4.691 1 103.86 ? O3P PLP 601 E 1 # _model_server_stats.io_time_ms 23 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 260 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 15 #