data_7CX0 # _model_server_result.job_id JRwucB9A4weXL5utM8f4UA _model_server_result.datetime_utc '2025-01-25 11:11:23' _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 7cx0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":701}' # _entry.id 7CX0 # _exptl.entry_id 7CX0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 247.142 _entity.id 2 _entity.src_method man _entity.type non-polymer _entity.pdbx_description "PYRIDOXAL-5'-PHOSPHATE" _entity.pdbx_number_of_molecules 3 _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 7CX0 _cell.length_a 131.696 _cell.length_b 131.696 _cell.length_c 390.014 _cell.Z_PDB 36 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7CX0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61 2 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 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,D,E,J 1 1,2 B,C,F,G,H,I,K,L 2 1 # 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' 8_555 x-y,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 D N N ? 2 F N N ? 2 H 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 D C4A PLP . A PLP 701 1_555 E N 142 . A 142 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.235 ? covale ? covale2 F C4A PLP . B PLP 701 1_555 G N 142 . B 142 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.235 ? covale ? covale3 H C4A PLP . C PLP 701 1_555 I N 142 . C 142 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.241 ? # _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 277 n y N1 C6 PLP sing 278 n y C2 C2A PLP sing 279 n n C2 C3 PLP sing 280 n y C2A H2A1 PLP sing 281 n n C2A H2A2 PLP sing 282 n n C2A H2A3 PLP sing 283 n n C3 O3 PLP sing 284 n n C3 C4 PLP doub 285 n y O3 HO3 PLP sing 286 n n C4 C4A PLP sing 287 n n C4 C5 PLP sing 288 n y C4A O4A PLP doub 289 n n C4A H4A PLP sing 290 n n C5 C6 PLP doub 291 n y C5 C5A PLP sing 292 n n C6 H6 PLP sing 293 n n C5A O4P PLP sing 294 n n C5A H5A1 PLP sing 295 n n C5A H5A2 PLP sing 296 n n O4P P PLP sing 297 n n P O1P PLP doub 298 n n P O2P PLP sing 299 n n P O3P PLP sing 300 n n O2P HOP2 PLP sing 301 n n O3P HOP3 PLP sing 302 n n # _atom_sites.entry_id 7CX0 _atom_sites.fract_transf_matrix[1][1] 0.007593 _atom_sites.fract_transf_matrix[1][2] 0.004384 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008768 _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] 0.002564 _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 D 2 PLP A 1 701 701 PLP PCB . E 3 142 A 1 702 701 142 PCB . F 2 PLP B 1 701 701 PLP PCB . G 3 142 B 1 702 701 142 PCB . H 2 PLP C 1 701 701 PLP PCB . I 3 142 C 1 702 701 142 PCB . J 4 HOH A 1 801 19 HOH HOH . J 4 HOH A 2 802 22 HOH HOH . J 4 HOH A 3 803 21 HOH HOH . J 4 HOH A 4 804 40 HOH HOH . J 4 HOH A 5 805 42 HOH HOH . J 4 HOH A 6 806 2 HOH HOH . J 4 HOH A 7 807 3 HOH HOH . J 4 HOH A 8 808 26 HOH HOH . J 4 HOH A 9 809 46 HOH HOH . J 4 HOH A 10 810 23 HOH HOH . J 4 HOH A 11 811 44 HOH HOH . J 4 HOH A 12 812 7 HOH HOH . J 4 HOH A 13 813 12 HOH HOH . J 4 HOH A 14 814 24 HOH HOH . K 4 HOH B 1 801 41 HOH HOH . K 4 HOH B 2 802 34 HOH HOH . K 4 HOH B 3 803 18 HOH HOH . K 4 HOH B 4 804 51 HOH HOH . K 4 HOH B 5 805 4 HOH HOH . K 4 HOH B 6 806 28 HOH HOH . K 4 HOH B 7 807 47 HOH HOH . K 4 HOH B 8 808 9 HOH HOH . K 4 HOH B 9 809 13 HOH HOH . K 4 HOH B 10 810 20 HOH HOH . L 4 HOH C 1 801 1 HOH HOH . L 4 HOH C 2 802 8 HOH HOH . L 4 HOH C 3 803 11 HOH HOH . L 4 HOH C 4 804 6 HOH HOH . L 4 HOH C 5 805 5 HOH HOH . L 4 HOH C 6 806 36 HOH HOH . L 4 HOH C 7 807 48 HOH HOH . L 4 HOH C 8 808 45 HOH HOH . L 4 HOH C 9 809 35 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 . . . D 2 -51.716 -7.4 12.613 1 53.98 ? N1 PLP 701 A 1 HETATM 2 C C2 PLP . . . D 2 -52.27 -8.509 13.005 1 54.91 ? C2 PLP 701 A 1 HETATM 3 C C2A PLP . . . D 2 -52.041 -8.942 14.447 1 58.67 ? C2A PLP 701 A 1 HETATM 4 C C3 PLP . . . D 2 -53.036 -9.251 12.138 1 57.16 ? C3 PLP 701 A 1 HETATM 5 O O3 PLP . . . D 2 -53.644 -10.442 12.52 1 55.56 ? O3 PLP 701 A 1 HETATM 6 C C4 PLP . . . D 2 -53.174 -8.777 10.856 1 56.1 ? C4 PLP 701 A 1 HETATM 7 C C4A PLP . . . D 2 -54.009 -9.538 9.861 1 58.55 ? C4A PLP 701 A 1 HETATM 8 C C5 PLP . . . D 2 -52.578 -7.593 10.458 1 52.64 ? C5 PLP 701 A 1 HETATM 9 C C6 PLP . . . D 2 -51.839 -6.927 11.402 1 53.38 ? C6 PLP 701 A 1 HETATM 10 C C5A PLP . . . D 2 -52.727 -7.019 9.048 1 57.22 ? C5A PLP 701 A 1 HETATM 11 O O4P PLP . . . D 2 -54.016 -6.477 8.985 1 58.1 ? O4P PLP 701 A 1 HETATM 12 P P PLP . . . D 2 -54.918 -6.491 7.618 1 55.16 ? P PLP 701 A 1 HETATM 13 O O1P PLP . . . D 2 -54.098 -6.197 6.406 1 46.96 -1 O1P PLP 701 A 1 HETATM 14 O O2P PLP . . . D 2 -55.935 -5.422 7.74 1 59.6 -1 O2P PLP 701 A 1 HETATM 15 O O3P PLP . . . D 2 -55.631 -7.794 7.46 1 50.86 ? O3P PLP 701 A 1 HETATM 16 H H2A1 PLP . . . D 2 -52.963 -9.324 14.875 1 70.4 ? H2A1 PLP 701 A 1 HETATM 17 H H2A2 PLP . . . D 2 -51.279 -9.715 14.48 1 70.4 ? H2A2 PLP 701 A 1 HETATM 18 H H2A3 PLP . . . D 2 -51.706 -8.087 15.026 1 70.4 ? H2A3 PLP 701 A 1 HETATM 19 H HO3 PLP . . . D 2 -53.162 -11.159 12.147 1 66.67 ? HO3 PLP 701 A 1 HETATM 20 H H4A PLP . . . D 2 -53.577 -9.865 8.928 1 70.25 ? H4A PLP 701 A 1 HETATM 21 H H6 PLP . . . D 2 -51.349 -5.994 11.157 1 64.05 ? H6 PLP 701 A 1 HETATM 22 H H5A1 PLP . . . D 2 -52.572 -7.766 8.278 1 68.65 ? H5A1 PLP 701 A 1 HETATM 23 H H5A2 PLP . . . D 2 -52.002 -6.23 8.895 1 68.65 ? H5A2 PLP 701 A 1 # _model_server_stats.io_time_ms 60 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 294 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 23 #