data_8XE0 # _model_server_result.job_id oLgUvHETCyLC1Jr207FImQ _model_server_result.datetime_utc '2024-12-12 00:12:41' _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 8xe0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":501}' # _entry.id 8XE0 # _exptl.entry_id 8XE0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 138.121 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'Protocatechuic aldehyde' _entity.pdbx_number_of_molecules 1 _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 8XE0 _cell.length_a 50.421 _cell.length_b 80.862 _cell.length_c 116.597 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8XE0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall 'P 2 2ab (z,x,y)' _symmetry.space_group_name_H-M 'P 2 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 _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 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 metalc ? metalc1 A OD1 ASP 158 A ASP 155 1_555 D MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.152 ? metalc ? metalc2 A OD2 ASP 184 A ASP 181 1_555 D MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.95 ? metalc ? metalc3 A OD1 ASN 185 A ASN 182 1_555 D MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.15 ? metalc ? metalc4 C O3 H6N . A H6N 501 1_555 D MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.738 ? metalc ? metalc5 C O4 H6N . A H6N 501 1_555 D MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.372 ? metalc ? metalc6 D MG MG . A MG 502 1_555 H O HOH . A HOH 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.143 ? metalc ? metalc7 B OD1 ASP 158 B ASP 155 1_555 F MG MG . B MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.374 ? metalc ? metalc8 B OD2 ASP 184 B ASP 181 1_555 F MG MG . B MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.177 ? metalc ? metalc9 B OD1 ASN 185 B ASN 182 1_555 F MG MG . B MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.432 ? metalc ? metalc10 F MG MG . B MG 301 1_555 I O HOH . B HOH 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? metalc ? metalc11 F MG MG . B MG 301 1_555 I O HOH . B HOH 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.365 ? metalc ? metalc12 F MG MG . B MG 301 1_555 I O HOH . B HOH 440 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.392 ? # _chem_comp.formula 'C7 H6 O3' _chem_comp.formula_weight 138.121 _chem_comp.id H6N _chem_comp.mon_nstd_flag . _chem_comp.name 'Protocatechuic aldehyde' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 O4 C4 H6N sing 129 n n C4 C5 H6N doub 130 n y C4 C3 H6N sing 131 n y C5 C6 H6N sing 132 n y O3 C3 H6N sing 133 n n C3 C2 H6N doub 134 n y C6 C1 H6N doub 135 n y C2 C1 H6N sing 136 n y C1 C H6N sing 137 n n C O2 H6N doub 138 n n C H1 H6N sing 139 n n C2 H2 H6N sing 140 n n O3 H3 H6N sing 141 n n O4 H4 H6N sing 142 n n C5 H5 H6N sing 143 n n C6 H6 H6N sing 144 n n # _atom_sites.entry_id 8XE0 _atom_sites.fract_transf_matrix[1][1] 0.019833 _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] 0.012367 _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] 0.008577 _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 H6N A 1 501 501 H6N LIG . D 3 MG A 1 502 301 MG MG . E 4 SAH A 1 503 401 SAH SAH . F 3 MG B 1 301 301 MG MG . G 4 SAH B 1 302 401 SAH SAH . H 5 HOH A 1 601 14 HOH HOH . H 5 HOH A 2 602 34 HOH HOH . H 5 HOH A 3 603 38 HOH HOH . H 5 HOH A 4 604 32 HOH HOH . H 5 HOH A 5 605 71 HOH HOH . H 5 HOH A 6 606 28 HOH HOH . H 5 HOH A 7 607 15 HOH HOH . H 5 HOH A 8 608 5 HOH HOH . H 5 HOH A 9 609 51 HOH HOH . H 5 HOH A 10 610 3 HOH HOH . H 5 HOH A 11 611 60 HOH HOH . H 5 HOH A 12 612 2 HOH HOH . H 5 HOH A 13 613 52 HOH HOH . H 5 HOH A 14 614 16 HOH HOH . H 5 HOH A 15 615 73 HOH HOH . H 5 HOH A 16 616 58 HOH HOH . H 5 HOH A 17 617 49 HOH HOH . H 5 HOH A 18 618 8 HOH HOH . H 5 HOH A 19 619 45 HOH HOH . H 5 HOH A 20 620 11 HOH HOH . H 5 HOH A 21 621 44 HOH HOH . H 5 HOH A 22 622 39 HOH HOH . H 5 HOH A 23 623 41 HOH HOH . H 5 HOH A 24 624 35 HOH HOH . H 5 HOH A 25 625 13 HOH HOH . H 5 HOH A 26 626 55 HOH HOH . H 5 HOH A 27 627 30 HOH HOH . H 5 HOH A 28 628 59 HOH HOH . H 5 HOH A 29 629 27 HOH HOH . H 5 HOH A 30 630 21 HOH HOH . H 5 HOH A 31 631 63 HOH HOH . H 5 HOH A 32 632 78 HOH HOH . H 5 HOH A 33 633 80 HOH HOH . H 5 HOH A 34 634 31 HOH HOH . H 5 HOH A 35 635 79 HOH HOH . H 5 HOH A 36 636 48 HOH HOH . H 5 HOH A 37 637 82 HOH HOH . I 5 HOH B 1 401 64 HOH HOH . I 5 HOH B 2 402 1 HOH HOH . I 5 HOH B 3 403 37 HOH HOH . I 5 HOH B 4 404 17 HOH HOH . I 5 HOH B 5 405 67 HOH HOH . I 5 HOH B 6 406 42 HOH HOH . I 5 HOH B 7 407 10 HOH HOH . I 5 HOH B 8 408 70 HOH HOH . I 5 HOH B 9 409 24 HOH HOH . I 5 HOH B 10 410 19 HOH HOH . I 5 HOH B 11 411 61 HOH HOH . I 5 HOH B 12 412 26 HOH HOH . I 5 HOH B 13 413 33 HOH HOH . I 5 HOH B 14 414 18 HOH HOH . I 5 HOH B 15 415 76 HOH HOH . I 5 HOH B 16 416 12 HOH HOH . I 5 HOH B 17 417 53 HOH HOH . I 5 HOH B 18 418 40 HOH HOH . I 5 HOH B 19 419 57 HOH HOH . I 5 HOH B 20 420 50 HOH HOH . I 5 HOH B 21 421 6 HOH HOH . I 5 HOH B 22 422 43 HOH HOH . I 5 HOH B 23 423 4 HOH HOH . I 5 HOH B 24 424 65 HOH HOH . I 5 HOH B 25 425 47 HOH HOH . I 5 HOH B 26 426 9 HOH HOH . I 5 HOH B 27 427 77 HOH HOH . I 5 HOH B 28 428 68 HOH HOH . I 5 HOH B 29 429 7 HOH HOH . I 5 HOH B 30 430 22 HOH HOH . I 5 HOH B 31 431 25 HOH HOH . I 5 HOH B 32 432 56 HOH HOH . I 5 HOH B 33 433 69 HOH HOH . I 5 HOH B 34 434 85 HOH HOH . I 5 HOH B 35 435 23 HOH HOH . I 5 HOH B 36 436 46 HOH HOH . I 5 HOH B 37 437 36 HOH HOH . I 5 HOH B 38 438 66 HOH HOH . I 5 HOH B 39 439 74 HOH HOH . I 5 HOH B 40 440 20 HOH HOH . I 5 HOH B 41 441 83 HOH HOH . I 5 HOH B 42 442 75 HOH HOH . I 5 HOH B 43 443 72 HOH HOH . I 5 HOH B 44 444 84 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 O O2 H6N . . . C 2 -0.835 3.579 9.896 1 90.95 ? O2 H6N 501 A 1 HETATM 2 C C H6N . . . C 2 -0.859 3.076 10.969 1 84.63 ? C H6N 501 A 1 HETATM 3 C C1 H6N . . . C 2 -0.3 3.826 12.175 1 79.94 ? C1 H6N 501 A 1 HETATM 4 C C2 H6N . . . C 2 0.36 5.031 11.999 1 82.12 ? C2 H6N 501 A 1 HETATM 5 C C3 H6N . . . C 2 0.862 5.708 13.099 1 82.97 ? C3 H6N 501 A 1 HETATM 6 O O3 H6N . . . C 2 1.528 6.929 12.93 1 75.19 ? O3 H6N 501 A 1 HETATM 7 C C4 H6N . . . C 2 0.707 5.179 14.369 1 81.88 ? C4 H6N 501 A 1 HETATM 8 O O4 H6N . . . C 2 1.221 5.871 15.473 1 80.13 ? O4 H6N 501 A 1 HETATM 9 C C5 H6N . . . C 2 0.048 3.972 14.545 1 77.96 ? C5 H6N 501 A 1 HETATM 10 C C6 H6N . . . C 2 -0.456 3.297 13.446 1 75.8 ? C6 H6N 501 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 231 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 10 #