data_2Z1Y # _model_server_result.job_id UTFs4wpKvOYJ37qOn5V41A _model_server_result.datetime_utc '2024-11-29 12:46:14' _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 2z1y # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1400}' # _entry.id 2Z1Y # _exptl.entry_id 2Z1Y _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 247.142 _entity.id 3 _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 116.34 _cell.angle_gamma 90 _cell.entry_id 2Z1Y _cell.length_a 137.107 _cell.length_b 62.229 _cell.length_c 107.439 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2Z1Y _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 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 _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 ? 3 D N N ? 3 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 C N LEU . A LEU 400 1_555 D C4A PLP . A PLP 1400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.472 ? covale ? covale2 E N LEU . B LEU 401 1_555 F C4A PLP . B PLP 1401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.472 ? # _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 245 n y N1 C6 PLP sing 246 n y C2 C2A PLP sing 247 n n C2 C3 PLP sing 248 n y C2A H2A1 PLP sing 249 n n C2A H2A2 PLP sing 250 n n C2A H2A3 PLP sing 251 n n C3 O3 PLP sing 252 n n C3 C4 PLP doub 253 n y O3 HO3 PLP sing 254 n n C4 C4A PLP sing 255 n n C4 C5 PLP sing 256 n y C4A O4A PLP doub 257 n n C4A H4A PLP sing 258 n n C5 C6 PLP doub 259 n y C5 C5A PLP sing 260 n n C6 H6 PLP sing 261 n n C5A O4P PLP sing 262 n n C5A H5A1 PLP sing 263 n n C5A H5A2 PLP sing 264 n n O4P P PLP sing 265 n n P O1P PLP doub 266 n n P O2P PLP sing 267 n n P O3P PLP sing 268 n n O2P HOP2 PLP sing 269 n n O3P HOP3 PLP sing 270 n n # _atom_sites.entry_id 2Z1Y _atom_sites.fract_transf_matrix[1][1] 0.007294 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003611 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01607 _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] 0.010386 _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 LEU A 1 400 400 LEU PPL . D 3 PLP A 1 1400 400 PLP PPL . E 2 LEU B 1 401 401 LEU PPL . F 3 PLP B 1 1401 401 PLP PPL . # 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 . . . D 3 24.4 1.426 24.831 1 10.46 ? N1 PLP 1400 A 1 HETATM 2 C C2 PLP . . . D 3 23.79 0.249 24.641 1 10.43 ? C2 PLP 1400 A 1 HETATM 3 C C2A PLP . . . D 3 22.513 -0.043 25.431 1 10.8 ? C2A PLP 1400 A 1 HETATM 4 C C3 PLP . . . D 3 24.326 -0.701 23.775 1 13.51 ? C3 PLP 1400 A 1 HETATM 5 O O3 PLP . . . D 3 23.664 -1.879 23.61 1 13.86 ? O3 PLP 1400 A 1 HETATM 6 C C4 PLP . . . D 3 25.514 -0.453 23.091 1 14.53 ? C4 PLP 1400 A 1 HETATM 7 C C4A PLP . . . D 3 26.151 -1.45 22.113 1 16.5 ? C4A PLP 1400 A 1 HETATM 8 C C5 PLP . . . D 3 26.112 0.782 23.332 1 15.59 ? C5 PLP 1400 A 1 HETATM 9 C C6 PLP . . . D 3 25.528 1.696 24.202 1 10.28 ? C6 PLP 1400 A 1 HETATM 10 C C5A PLP . . . D 3 27.409 1.24 22.666 1 14.87 ? C5A PLP 1400 A 1 HETATM 11 O O4P PLP . . . D 3 27.121 1.499 21.293 1 13.28 ? O4P PLP 1400 A 1 HETATM 12 P P PLP . . . D 3 27.987 2.524 20.405 1 10.51 ? P PLP 1400 A 1 HETATM 13 O O1P PLP . . . D 3 27.078 3.839 20.276 1 9.52 ? O1P PLP 1400 A 1 HETATM 14 O O2P PLP . . . D 3 29.312 2.918 21.223 1 10.91 ? O2P PLP 1400 A 1 HETATM 15 O O3P PLP . . . D 3 28.252 1.906 19.086 1 12 ? O3P PLP 1400 A 1 # _model_server_stats.io_time_ms 59 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 44 _model_server_stats.query_time_ms 324 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 15 #