data_1KL2 # _model_server_result.job_id UzIm6fQAMw2JjvRTv5mRAA _model_server_result.datetime_utc '2024-11-28 11:55:43' _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 1kl2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":501}' # _entry.id 1KL2 # _exptl.entry_id 1KL2 _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 91.43 _cell.angle_gamma 90 _cell.entry_id 1KL2 _cell.length_a 57.419 _cell.length_b 104.609 _cell.length_c 62.489 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1KL2 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 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,G,H,I,J _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 ? 2 C N N ? 2 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 C4A PLP . A PLP 501 1_555 D N GLY . A GLY 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.345 ? covale ? covale2 F C4A PLP . B PLP 502 1_555 G N GLY . B GLY 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.362 ? # _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 319 n y N1 C6 PLP sing 320 n y C2 C2A PLP sing 321 n n C2 C3 PLP sing 322 n y C2A H2A1 PLP sing 323 n n C2A H2A2 PLP sing 324 n n C2A H2A3 PLP sing 325 n n C3 O3 PLP sing 326 n n C3 C4 PLP doub 327 n y O3 HO3 PLP sing 328 n n C4 C4A PLP sing 329 n n C4 C5 PLP sing 330 n y C4A O4A PLP doub 331 n n C4A H4A PLP sing 332 n n C5 C6 PLP doub 333 n y C5 C5A PLP sing 334 n n C6 H6 PLP sing 335 n n C5A O4P PLP sing 336 n n C5A H5A1 PLP sing 337 n n C5A H5A2 PLP sing 338 n n O4P P PLP sing 339 n n P O1P PLP doub 340 n n P O2P PLP sing 341 n n P O3P PLP sing 342 n n O2P HOP2 PLP sing 343 n n O3P HOP3 PLP sing 344 n n # _atom_sites.entry_id 1KL2 _atom_sites.fract_transf_matrix[1][1] 0.01742 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.00043 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00956 _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] 0.01601 _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 1 501 501 PLP PLP . D 3 GLY A 1 601 501 GLY PLP . E 4 FON A 1 505 505 FON THF . F 2 PLP B 1 502 502 PLP PLP . G 3 GLY B 1 602 502 GLY PLP . H 4 FON B 1 506 506 FON THF . I 5 HOH A 1 602 3 HOH HOH . I 5 HOH A 2 603 4 HOH HOH . I 5 HOH A 3 604 5 HOH HOH . I 5 HOH A 4 605 6 HOH HOH . I 5 HOH A 5 606 7 HOH HOH . I 5 HOH A 6 607 8 HOH HOH . I 5 HOH A 7 608 9 HOH HOH . I 5 HOH A 8 609 10 HOH HOH . I 5 HOH A 9 610 11 HOH HOH . I 5 HOH A 10 611 17 HOH HOH . I 5 HOH A 11 612 21 HOH HOH . I 5 HOH A 12 613 24 HOH HOH . I 5 HOH A 13 614 25 HOH HOH . I 5 HOH A 14 615 26 HOH HOH . I 5 HOH A 15 616 27 HOH HOH . I 5 HOH A 16 617 28 HOH HOH . I 5 HOH A 17 618 29 HOH HOH . I 5 HOH A 18 619 30 HOH HOH . I 5 HOH A 19 620 31 HOH HOH . I 5 HOH A 20 621 32 HOH HOH . I 5 HOH A 21 622 33 HOH HOH . I 5 HOH A 22 623 34 HOH HOH . I 5 HOH A 23 624 35 HOH HOH . I 5 HOH A 24 625 57 HOH HOH . J 5 HOH B 1 603 1 HOH HOH . J 5 HOH B 2 604 2 HOH HOH . J 5 HOH B 3 605 12 HOH HOH . J 5 HOH B 4 606 13 HOH HOH . J 5 HOH B 5 607 14 HOH HOH . J 5 HOH B 6 608 15 HOH HOH . J 5 HOH B 7 609 16 HOH HOH . J 5 HOH B 8 610 18 HOH HOH . J 5 HOH B 9 611 19 HOH HOH . J 5 HOH B 10 612 20 HOH HOH . J 5 HOH B 11 613 22 HOH HOH . J 5 HOH B 12 614 23 HOH HOH . J 5 HOH B 13 615 36 HOH HOH . J 5 HOH B 14 616 37 HOH HOH . J 5 HOH B 15 617 38 HOH HOH . J 5 HOH B 16 618 39 HOH HOH . J 5 HOH B 17 619 40 HOH HOH . J 5 HOH B 18 620 41 HOH HOH . J 5 HOH B 19 621 42 HOH HOH . J 5 HOH B 20 622 43 HOH HOH . J 5 HOH B 21 623 44 HOH HOH . J 5 HOH B 22 624 45 HOH HOH . J 5 HOH B 23 625 46 HOH HOH . J 5 HOH B 24 626 47 HOH HOH . J 5 HOH B 25 627 48 HOH HOH . J 5 HOH B 26 628 49 HOH HOH . J 5 HOH B 27 629 50 HOH HOH . J 5 HOH B 28 630 51 HOH HOH . J 5 HOH B 29 631 52 HOH HOH . J 5 HOH B 30 632 53 HOH HOH . J 5 HOH B 31 633 54 HOH HOH . J 5 HOH B 32 634 55 HOH HOH . J 5 HOH B 33 635 56 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 . . . C 2 21.284 1.774 24.931 1 39.39 ? N1 PLP 501 A 1 HETATM 2 C C2 PLP . . . C 2 20.769 0.594 25.329 1 39.31 ? C2 PLP 501 A 1 HETATM 3 C C2A PLP . . . C 2 21.254 0.009 26.605 1 38.65 ? C2A PLP 501 A 1 HETATM 4 C C3 PLP . . . C 2 19.778 0.01 24.461 1 39.2 ? C3 PLP 501 A 1 HETATM 5 O O3 PLP . . . C 2 19.245 -1.144 24.835 1 39.63 ? O3 PLP 501 A 1 HETATM 6 C C4 PLP . . . C 2 19.416 0.712 23.252 1 38.88 ? C4 PLP 501 A 1 HETATM 7 C C4A PLP . . . C 2 18.433 0.07 22.396 1 38.51 ? C4A PLP 501 A 1 HETATM 8 C C5 PLP . . . C 2 19.989 1.947 22.896 1 39.13 ? C5 PLP 501 A 1 HETATM 9 C C6 PLP . . . C 2 20.969 2.474 23.791 1 38.66 ? C6 PLP 501 A 1 HETATM 10 C C5A PLP . . . C 2 19.823 2.812 21.703 1 39.03 ? C5A PLP 501 A 1 HETATM 11 O O4P PLP . . . C 2 18.592 3.207 21.196 1 38.61 ? O4P PLP 501 A 1 HETATM 12 P P PLP . . . C 2 18.124 3.679 19.808 1 37.27 ? P PLP 501 A 1 HETATM 13 O O1P PLP . . . C 2 19.339 4.302 19.215 1 36.75 ? O1P PLP 501 A 1 HETATM 14 O O2P PLP . . . C 2 17.682 2.356 19.091 1 38.44 ? O2P PLP 501 A 1 HETATM 15 O O3P PLP . . . C 2 16.923 4.555 19.893 1 36.97 ? O3P PLP 501 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 304 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 15 #