data_3WPM # _model_server_result.job_id WoeebJCvR3BGlTLNTqJ-_g _model_server_result.datetime_utc '2024-11-27 22:43:45' _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 3wpm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":502}' # _entry.id 3WPM # _exptl.entry_id 3WPM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 170.12 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '3,4,5-trihydroxybenzoic acid' _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 97.19 _cell.angle_gamma 90 _cell.entry_id 3WPM _cell.length_a 58.105 _cell.length_b 64.185 _cell.length_c 117.896 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3WPM _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 _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 3 _struct_asym.id E _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 ASN 57 A ASN 57 1_555 C FE FE . A FE 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.728 ? metalc ? metalc2 A NE2 HIS 59 A HIS 59 1_555 C FE FE . A FE 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.275 ? metalc ? metalc3 A OE1 GLU 239 A GLU 239 1_555 C FE FE . A FE 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? metalc ? metalc4 A OE2 GLU 239 A GLU 239 1_555 C FE FE . A FE 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.688 ? metalc ? metalc5 B NE2 HIS 12 B HIS 12 1_555 D FE FE . B FE 501 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.272 ? metalc ? metalc6 B OD1 ASN 57 B ASN 57 1_555 D FE FE . B FE 501 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.234 ? metalc ? metalc7 B NE2 HIS 59 B HIS 59 1_555 D FE FE . B FE 501 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.087 ? metalc ? metalc8 B OE1 GLU 239 B GLU 239 1_555 D FE FE . B FE 501 1_555 ? ? ? ? A ? ? ? ? ? ? ? 1.951 ? metalc ? metalc9 B OE2 GLU 239 B GLU 239 1_555 D FE FE . B FE 501 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.586 ? metalc ? metalc10 D FE FE . B FE 501 1_555 E OAD GDE . B GDE 502 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.531 ? metalc ? metalc11 D FE FE . B FE 501 1_555 E OAE GDE . B GDE 502 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.654 ? metalc ? metalc12 D FE FE . B FE 501 1_555 F O HOH . B HOH 601 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.507 ? # _chem_comp.formula 'C7 H6 O5' _chem_comp.formula_weight 170.12 _chem_comp.id GDE _chem_comp.mon_nstd_flag . _chem_comp.name '3,4,5-trihydroxybenzoic acid' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms Gallate # 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 OAA CAH GDE sing 83 n n OAB CAH GDE doub 84 n n OAC CAI GDE sing 85 n n OAD CAJ GDE sing 86 n n OAE CAL GDE sing 87 n n CAF CAI GDE doub 88 n y CAF CAK GDE sing 89 n y CAG CAJ GDE sing 90 n y CAG CAK GDE doub 91 n y CAH CAK GDE sing 92 n n CAI CAL GDE sing 93 n y CAJ CAL GDE doub 94 n y OAA HOAA GDE sing 95 n n OAC HOAC GDE sing 96 n n OAD HOAD GDE sing 97 n n OAE HOAE GDE sing 98 n n CAF HAF GDE sing 99 n n CAG HAG GDE sing 100 n n # _atom_sites.entry_id 3WPM _atom_sites.fract_transf_matrix[1][1] 0.01721 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.00217 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01558 _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] 0.008549 _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 FE A 1 501 1 FE FE . D 2 FE B 1 501 2 FE FE . E 3 GDE B 1 502 2 GDE GDE . F 4 HOH B 1 601 2 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 OAA GDE . . . E 3 -3.322 4.225 7.009 1 27.25 ? OAA GDE 502 B 1 HETATM 2 O OAB GDE . . . E 3 -3.794 2.303 6.127 1 23 ? OAB GDE 502 B 1 HETATM 3 O OAC GDE . . . E 3 -6.593 4.605 10.793 1 21.3 ? OAC GDE 502 B 1 HETATM 4 O OAD GDE . . . E 3 -6.671 0.059 9.558 1 24.27 ? OAD GDE 502 B 1 HETATM 5 O OAE GDE . . . E 3 -7.481 2.025 11.153 1 21.67 ? OAE GDE 502 B 1 HETATM 6 C CAF GDE . . . E 3 -5.259 3.909 8.93 1 22.67 ? CAF GDE 502 B 1 HETATM 7 C CAG GDE . . . E 3 -5.299 1.59 8.304 1 21.98 ? CAG GDE 502 B 1 HETATM 8 C CAH GDE . . . E 3 -3.949 3.143 7.047 1 27.09 ? CAH GDE 502 B 1 HETATM 9 C CAI GDE . . . E 3 -6.146 3.632 9.955 1 23.1 ? CAI GDE 502 B 1 HETATM 10 C CAJ GDE . . . E 3 -6.19 1.311 9.318 1 23.95 ? CAJ GDE 502 B 1 HETATM 11 C CAK GDE . . . E 3 -4.834 2.883 8.1 1 25.05 ? CAK GDE 502 B 1 HETATM 12 C CAL GDE . . . E 3 -6.607 2.331 10.145 1 25.76 ? CAL GDE 502 B 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 31 _model_server_stats.query_time_ms 293 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 12 #