data_2ECP # _model_server_result.job_id dkyHMjywvT9bA4BEiigcEA _model_server_result.datetime_utc '2025-06-25 20:41:04' _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 2ecp # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":999}' # _entry.id 2ECP # _exptl.entry_id 2ECP _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 247.142 _entity.id 4 _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 90 _cell.angle_gamma 90 _cell.entry_id 2ECP _cell.length_a 76.49 _cell.length_b 105.84 _cell.length_c 217.72 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2ECP _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _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 ? 4 F N N ? 4 H N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 2 2 1 GLC GLC C1 O1 . O4 HO4 . sing 2 ? 2 3 2 AC1 GLC C1 O1 . O4 HO4 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n C GLC 1 C 1 GLC A 992 ACR 2 n C GLC 2 C 2 GLC A 992 ACR 2 n C AC1 3 C 3 AC1 A 992 ACR 2 n D GLC 1 D 1 GLC B 992 ACR 2 n D GLC 2 D 2 GLC B 992 ACR 2 n D AC1 3 D 3 AC1 B 992 ACR # 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 645 A LYS 680 1_555 F C4A PLP . A PLP 999 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.474 ? covale ? covale2 B NZ LYS 645 B LYS 680 1_555 H C4A PLP . B PLP 999 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.498 ? covale ? covale3 C O4 GLC . C GLC 1 1_555 C C1 GLC . C GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.406 sing covale ? covale4 C O4 GLC . C GLC 2 1_555 C C1 AC1 . C AC1 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.392 sing covale ? covale5 D O4 GLC . D GLC 1 1_555 D C1 GLC . D GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 sing covale ? covale6 D O4 GLC . D GLC 2 1_555 D C1 AC1 . D AC1 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.381 sing # _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 343 n y N1 C6 PLP sing 344 n y C2 C2A PLP sing 345 n n C2 C3 PLP sing 346 n y C2A H2A1 PLP sing 347 n n C2A H2A2 PLP sing 348 n n C2A H2A3 PLP sing 349 n n C3 O3 PLP sing 350 n n C3 C4 PLP doub 351 n y O3 HO3 PLP sing 352 n n C4 C4A PLP sing 353 n n C4 C5 PLP sing 354 n y C4A O4A PLP doub 355 n n C4A H4A PLP sing 356 n n C5 C6 PLP doub 357 n y C5 C5A PLP sing 358 n n C6 H6 PLP sing 359 n n C5A O4P PLP sing 360 n n C5A H5A1 PLP sing 361 n n C5A H5A2 PLP sing 362 n n O4P P PLP sing 363 n n P O1P PLP doub 364 n n P O2P PLP sing 365 n n P O3P PLP sing 366 n n O2P HOP2 PLP sing 367 n n O3P HOP3 PLP sing 368 n n # _atom_sites.entry_id 2ECP _atom_sites.fract_transf_matrix[1][1] 0.013074 _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] 0.009448 _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] 0.004593 _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 E 3 GOL A 1 998 998 GOL GOL . F 4 PLP A 1 999 999 PLP PLP . G 3 GOL B 1 998 998 GOL GOL . H 4 PLP B 1 999 999 PLP PLP . I 5 HOH A 1 1768 1 HOH HOH . I 5 HOH A 2 1769 2 HOH HOH . I 5 HOH A 3 1770 3 HOH HOH . I 5 HOH A 4 1771 4 HOH HOH . I 5 HOH A 5 1772 5 HOH HOH . I 5 HOH A 6 1773 6 HOH HOH . I 5 HOH A 7 1774 7 HOH HOH . I 5 HOH A 8 1775 8 HOH HOH . I 5 HOH A 9 1776 9 HOH HOH . I 5 HOH A 10 1777 10 HOH HOH . I 5 HOH A 11 1778 11 HOH HOH . I 5 HOH A 12 1779 12 HOH HOH . I 5 HOH A 13 1780 13 HOH HOH . I 5 HOH A 14 1781 14 HOH HOH . I 5 HOH A 15 1782 15 HOH HOH . I 5 HOH A 16 1783 16 HOH HOH . I 5 HOH A 17 1784 17 HOH HOH . I 5 HOH A 18 1785 18 HOH HOH . I 5 HOH A 19 1786 19 HOH HOH . I 5 HOH A 20 1787 20 HOH HOH . I 5 HOH A 21 1788 21 HOH HOH . I 5 HOH A 22 1789 22 HOH HOH . I 5 HOH A 23 1790 23 HOH HOH . I 5 HOH A 24 1791 24 HOH HOH . I 5 HOH A 25 1792 25 HOH HOH . I 5 HOH A 26 1793 26 HOH HOH . I 5 HOH A 27 1794 27 HOH HOH . I 5 HOH A 28 1795 28 HOH HOH . I 5 HOH A 29 1796 29 HOH HOH . I 5 HOH A 30 1797 30 HOH HOH . I 5 HOH A 31 1798 31 HOH HOH . I 5 HOH A 32 1799 32 HOH HOH . I 5 HOH A 33 1800 33 HOH HOH . I 5 HOH A 34 1801 34 HOH HOH . I 5 HOH A 35 1802 35 HOH HOH . I 5 HOH A 36 1803 36 HOH HOH . I 5 HOH A 37 1804 37 HOH HOH . I 5 HOH A 38 1805 38 HOH HOH . I 5 HOH A 39 1806 39 HOH HOH . I 5 HOH A 40 1807 40 HOH HOH . I 5 HOH A 41 1808 41 HOH HOH . I 5 HOH A 42 1809 42 HOH HOH . I 5 HOH A 43 1810 43 HOH HOH . I 5 HOH A 44 1811 44 HOH HOH . I 5 HOH A 45 1812 45 HOH HOH . I 5 HOH A 46 1813 47 HOH HOH . I 5 HOH A 47 1814 48 HOH HOH . I 5 HOH A 48 1815 49 HOH HOH . I 5 HOH A 49 1816 50 HOH HOH . I 5 HOH A 50 1817 51 HOH HOH . I 5 HOH A 51 1818 52 HOH HOH . I 5 HOH A 52 1819 53 HOH HOH . I 5 HOH A 53 1820 54 HOH HOH . I 5 HOH A 54 1821 25 HOH HOH . J 5 HOH B 1 1768 46 HOH HOH . J 5 HOH B 2 1769 1 HOH HOH . J 5 HOH B 3 1770 2 HOH HOH . J 5 HOH B 4 1771 3 HOH HOH . J 5 HOH B 5 1772 4 HOH HOH . J 5 HOH B 6 1773 5 HOH HOH . J 5 HOH B 7 1774 6 HOH HOH . J 5 HOH B 8 1775 7 HOH HOH . J 5 HOH B 9 1776 8 HOH HOH . J 5 HOH B 10 1777 9 HOH HOH . J 5 HOH B 11 1778 10 HOH HOH . J 5 HOH B 12 1779 11 HOH HOH . J 5 HOH B 13 1780 12 HOH HOH . J 5 HOH B 14 1781 13 HOH HOH . J 5 HOH B 15 1782 14 HOH HOH . J 5 HOH B 16 1783 15 HOH HOH . J 5 HOH B 17 1784 16 HOH HOH . J 5 HOH B 18 1785 17 HOH HOH . J 5 HOH B 19 1786 18 HOH HOH . J 5 HOH B 20 1787 19 HOH HOH . J 5 HOH B 21 1788 20 HOH HOH . J 5 HOH B 22 1789 21 HOH HOH . J 5 HOH B 23 1790 22 HOH HOH . J 5 HOH B 24 1791 23 HOH HOH . J 5 HOH B 25 1792 24 HOH HOH . J 5 HOH B 26 1793 26 HOH HOH . J 5 HOH B 27 1794 27 HOH HOH . J 5 HOH B 28 1795 28 HOH HOH . J 5 HOH B 29 1796 29 HOH HOH . J 5 HOH B 30 1797 30 HOH HOH . J 5 HOH B 31 1798 31 HOH HOH . J 5 HOH B 32 1799 32 HOH HOH . J 5 HOH B 33 1800 33 HOH HOH . J 5 HOH B 34 1801 34 HOH HOH . J 5 HOH B 35 1802 35 HOH HOH . J 5 HOH B 36 1803 36 HOH HOH . J 5 HOH B 37 1804 37 HOH HOH . J 5 HOH B 38 1805 38 HOH HOH . J 5 HOH B 39 1806 39 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 . . . F 4 2.043 7.038 89.248 1 37.81 ? N1 PLP 999 A 1 HETATM 2 C C2 PLP . . . F 4 2.321 8.341 89.012 1 40.85 ? C2 PLP 999 A 1 HETATM 3 C C2A PLP . . . F 4 1.996 9.023 87.726 1 40.17 ? C2A PLP 999 A 1 HETATM 4 C C3 PLP . . . F 4 2.97 9.119 89.919 1 42.26 ? C3 PLP 999 A 1 HETATM 5 O O3 PLP . . . F 4 3.31 10.384 89.556 1 43.16 ? O3 PLP 999 A 1 HETATM 6 C C4 PLP . . . F 4 3.313 8.604 91.119 1 42.07 ? C4 PLP 999 A 1 HETATM 7 C C4A PLP . . . F 4 4.056 9.411 92.114 1 41.15 ? C4A PLP 999 A 1 HETATM 8 C C5 PLP . . . F 4 3.009 7.285 91.404 1 41.97 ? C5 PLP 999 A 1 HETATM 9 C C6 PLP . . . F 4 2.4 6.541 90.466 1 39.37 ? C6 PLP 999 A 1 HETATM 10 C C5A PLP . . . F 4 3.397 6.688 92.778 1 42.73 ? C5A PLP 999 A 1 HETATM 11 O O4P PLP . . . F 4 2.143 6.457 93.439 1 46.63 ? O4P PLP 999 A 1 HETATM 12 P P PLP . . . F 4 1.886 5.572 94.7 1 46.68 ? P PLP 999 A 1 HETATM 13 O O1P PLP . . . F 4 3.212 5.467 95.285 1 51.89 ? O1P PLP 999 A 1 HETATM 14 O O2P PLP . . . F 4 1.192 6.437 95.814 1 47.73 ? O2P PLP 999 A 1 HETATM 15 O O3P PLP . . . F 4 1.243 4.336 94.411 1 46.78 ? O3P PLP 999 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 24 _model_server_stats.query_time_ms 291 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 15 #