data_6AX0 # _model_server_result.job_id ZcbvxE4r6N0LYPFeoz_L_g _model_server_result.datetime_utc '2024-12-19 12:01:44' _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 6ax0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":202}' # _entry.id 6AX0 # _exptl.entry_id 6AX0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 290.268 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (2R,3R)-2-(3,4-dihydroxyphenyl)-3,4-dihydro-2H-chromene-3,5,7-triol _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 91.79 _cell.angle_gamma 90 _cell.entry_id 6AX0 _cell.length_a 39.435 _cell.length_b 92.068 _cell.length_c 39.489 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6AX0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # 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 monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 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,C,D,G 1 1 B,E,F,H 2 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 ? 3 D N N ? 3 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 metalc ? metalc1 A O PRO 31 A PRO 31 1_555 C NA NA . A NA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.593 ? metalc ? metalc2 A O ILE 34 A ILE 34 1_555 C NA NA . A NA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.846 ? metalc ? metalc3 A O VAL 37 A VAL 37 1_555 C NA NA . A NA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.526 ? metalc ? metalc4 C NA NA . A NA 201 1_555 G O HOH . A HOH 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.197 ? metalc ? metalc5 B O PRO 31 B PRO 31 1_555 E NA NA . B NA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.661 ? metalc ? metalc6 B O ILE 34 B ILE 34 1_555 E NA NA . B NA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.783 ? metalc ? metalc7 B O ASP 35 B ASP 35 1_555 E NA NA . B NA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.039 ? metalc ? metalc8 B O VAL 37 B VAL 37 1_555 E NA NA . B NA 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.53 ? metalc ? metalc9 E NA NA . B NA 201 1_555 H O HOH . B HOH 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.244 ? # _chem_comp.formula 'C15 H14 O6' _chem_comp.formula_weight 290.268 _chem_comp.id 28E _chem_comp.mon_nstd_flag . _chem_comp.name (2R,3R)-2-(3,4-dihydroxyphenyl)-3,4-dihydro-2H-chromene-3,5,7-triol _chem_comp.type non-polymer _chem_comp.pdbx_synonyms Epicatechin # 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 OAG CAY 28E sing 1 n n CAY CAK 28E doub 2 n y CAY CBD 28E sing 3 n y CAK CAT 28E sing 4 n y CAP CBD 28E sing 5 n n CAP CBE 28E sing 6 n n CBD CBC 28E doub 7 n y CAT OAB 28E sing 8 n n CAT CAN 28E doub 9 n y OAQ CBE 28E sing 10 n n CBE CBF 28E sing 11 n n CBC CAN 28E sing 12 n y CBC OAR 28E sing 13 n n CBF OAR 28E sing 14 n n CBF CBA 28E sing 15 n n CBA CAJ 28E doub 16 n y CBA CAO 28E sing 17 n y CAJ CAI 28E sing 18 n y CAO CAV 28E doub 19 n y CAI CAU 28E doub 20 n y CAV CAU 28E sing 21 n y CAV OAD 28E sing 22 n n CAU OAC 28E sing 23 n n OAB H1 28E sing 24 n n CAK H2 28E sing 25 n n OAG H3 28E sing 26 n n CAP H4 28E sing 27 n n CAP H5 28E sing 28 n n CAN H6 28E sing 29 n n CBF H7 28E sing 30 n n CBE H8 28E sing 31 n n OAQ H9 28E sing 32 n n CAO H10 28E sing 33 n n OAD H11 28E sing 34 n n OAC H12 28E sing 35 n n CAI H13 28E sing 36 n n CAJ H14 28E sing 37 n n # _atom_sites.entry_id 6AX0 _atom_sites.fract_transf_matrix[1][1] 0.025358 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000792 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010862 _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] 0.025336 _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 NA A 1 201 1 NA NA . D 3 28E A 1 202 601 28E Z01 . E 2 NA B 1 201 2 NA NA . F 3 28E B 1 202 602 28E Z01 . G 4 HOH A 1 301 20 HOH HOH . G 4 HOH A 2 302 19 HOH HOH . G 4 HOH A 3 303 1 HOH HOH . G 4 HOH A 4 304 17 HOH HOH . G 4 HOH A 5 305 5 HOH HOH . G 4 HOH A 6 306 15 HOH HOH . G 4 HOH A 7 307 21 HOH HOH . G 4 HOH A 8 308 6 HOH HOH . G 4 HOH A 9 309 3 HOH HOH . G 4 HOH A 10 310 2 HOH HOH . G 4 HOH A 11 311 4 HOH HOH . G 4 HOH A 12 312 16 HOH HOH . G 4 HOH A 13 313 22 HOH HOH . H 4 HOH B 1 301 7 HOH HOH . H 4 HOH B 2 302 24 HOH HOH . H 4 HOH B 3 303 8 HOH HOH . H 4 HOH B 4 304 11 HOH HOH . H 4 HOH B 5 305 12 HOH HOH . H 4 HOH B 6 306 13 HOH HOH . H 4 HOH B 7 307 9 HOH HOH . H 4 HOH B 8 308 10 HOH HOH . H 4 HOH B 9 309 14 HOH HOH . H 4 HOH B 10 310 23 HOH HOH . H 4 HOH B 11 311 25 HOH HOH . H 4 HOH B 12 312 18 HOH HOH . H 4 HOH B 13 313 26 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 OAB 28E . . . D 3 9.594 3.283 9.183 0.75 72.3 ? OAB 28E 202 A 1 HETATM 2 C CAT 28E . . . D 3 8.545 2.501 8.784 0.75 68.82 ? CAT 28E 202 A 1 HETATM 3 C CAK 28E . . . D 3 8.594 1.813 7.564 0.75 65.8 ? CAK 28E 202 A 1 HETATM 4 C CAY 28E . . . D 3 7.517 1.023 7.158 0.75 60.67 ? CAY 28E 202 A 1 HETATM 5 O OAG 28E . . . D 3 7.594 0.361 5.971 0.75 58.13 ? OAG 28E 202 A 1 HETATM 6 C CBD 28E . . . D 3 6.389 0.917 7.97 0.75 62.15 ? CBD 28E 202 A 1 HETATM 7 C CAP 28E . . . D 3 5.198 0.068 7.549 0.75 62.81 ? CAP 28E 202 A 1 HETATM 8 C CAN 28E . . . D 3 7.41 2.395 9.586 0.75 67.69 ? CAN 28E 202 A 1 HETATM 9 C CBC 28E . . . D 3 6.341 1.608 9.182 0.75 64.1 ? CBC 28E 202 A 1 HETATM 10 O OAR 28E . . . D 3 5.237 1.53 9.997 0.75 63.04 ? OAR 28E 202 A 1 HETATM 11 C CBF 28E . . . D 3 3.991 1.287 9.366 0.75 59.35 ? CBF 28E 202 A 1 HETATM 12 C CBE 28E . . . D 3 4.165 -0.056 8.659 0.75 61.42 ? CBE 28E 202 A 1 HETATM 13 O OAQ 28E . . . D 3 4.607 -1.076 9.552 0.75 62.81 ? OAQ 28E 202 A 1 HETATM 14 C CBA 28E . . . D 3 2.814 1.347 10.283 0.75 56.93 ? CBA 28E 202 A 1 HETATM 15 C CAO 28E . . . D 3 1.651 1.952 9.798 0.75 55.23 ? CAO 28E 202 A 1 HETATM 16 C CAV 28E . . . D 3 0.51 2.049 10.589 0.75 55.33 ? CAV 28E 202 A 1 HETATM 17 O OAD 28E . . . D 3 -0.609 2.637 10.105 0.75 56.64 ? OAD 28E 202 A 1 HETATM 18 C CAU 28E . . . D 3 0.499 1.552 11.878 0.75 54.26 ? CAU 28E 202 A 1 HETATM 19 O OAC 28E . . . D 3 -0.642 1.679 12.616 0.75 51.35 ? OAC 28E 202 A 1 HETATM 20 C CAI 28E . . . D 3 1.656 0.949 12.386 0.75 53.24 ? CAI 28E 202 A 1 HETATM 21 C CAJ 28E . . . D 3 2.811 0.847 11.594 0.75 54.85 ? CAJ 28E 202 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 309 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 21 #