data_5AES # _model_server_result.job_id znmBVkKJ50BLoO-OvabdFQ _model_server_result.datetime_utc '2024-10-18 16:24:57' _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 5aes # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":306}' # _entry.id 5AES # _exptl.entry_id 5AES _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 247.185 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '{2-[5-hydroxy-4-(hydroxymethyl)-6-methylpyridin-3-yl]ethyl}phosphonic acid' _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 5AES _cell.length_a 166.81 _cell.length_b 166.81 _cell.length_c 166.81 _cell.Z_PDB 48 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5AES _symmetry.cell_setting ? _symmetry.Int_Tables_number 197 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 2 3' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details 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 # 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 disulf ? disulf1 B SG CYS 92 B CYS 91 1_555 B SG CYS 218 B CYS 217 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.085 ? metalc ? metalc1 A OD2 ASP 26 A ASP 25 1_555 C MG MG . A MG 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? metalc ? metalc2 A O ASP 28 A ASP 27 1_555 C MG MG . A MG 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.104 ? metalc ? metalc3 A OD1 ASP 235 A ASP 234 1_555 C MG MG . A MG 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.1 ? metalc ? metalc4 C MG MG . A MG 305 1_555 D OAC 5B0 . A 5B0 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? metalc ? metalc5 C MG MG . A MG 305 1_555 H O HOH . A HOH 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? metalc ? metalc6 C MG MG . A MG 305 1_555 H O HOH . A HOH 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? metalc ? metalc7 B OD2 ASP 26 B ASP 25 1_555 E MG MG . B MG 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? metalc ? metalc8 B O ASP 28 B ASP 27 1_555 E MG MG . B MG 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? metalc ? metalc9 B OD1 ASP 235 B ASP 234 1_555 E MG MG . B MG 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? metalc ? metalc10 E MG MG . B MG 305 1_555 F OAC 5B0 . B 5B0 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.091 ? metalc ? metalc11 E MG MG . B MG 305 1_555 I O HOH . B HOH 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? metalc ? metalc12 E MG MG . B MG 305 1_555 I O HOH . B HOH 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.089 ? # _chem_comp.formula 'C9 H14 N O5 P' _chem_comp.formula_weight 247.185 _chem_comp.id 5B0 _chem_comp.mon_nstd_flag . _chem_comp.name '{2-[5-hydroxy-4-(hydroxymethyl)-6-methylpyridin-3-yl]ethyl}phosphonic acid' _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 OAE PAP 5B0 sing 1 n n PAP OAF 5B0 sing 2 n n PAP OAC 5B0 doub 3 n n PAP CAJ 5B0 sing 4 n n CAJ CAI 5B0 sing 5 n n CAI CAN 5B0 sing 6 n n CAN CAH 5B0 sing 7 n y CAN CAO 5B0 doub 8 n y CAH NAK 5B0 doub 9 n y NAK CAL 5B0 sing 10 n y CAL CAA 5B0 sing 11 n n CAL CAM 5B0 doub 12 n y CAM OAD 5B0 sing 13 n n CAM CAO 5B0 sing 14 n y CAO C1 5B0 sing 15 n n C1 O2 5B0 sing 16 n n OAE HAE 5B0 sing 17 n n OAF HAF 5B0 sing 18 n n CAJ HAJ1 5B0 sing 19 n n CAJ HAJ2 5B0 sing 20 n n CAI HAI1 5B0 sing 21 n n CAI HAI2 5B0 sing 22 n n CAH HAH 5B0 sing 23 n n CAA HAA1 5B0 sing 24 n n CAA HAA2 5B0 sing 25 n n CAA HAA3 5B0 sing 26 n n OAD HAD 5B0 sing 27 n n C1 H11C 5B0 sing 28 n n C1 H12C 5B0 sing 29 n n O2 H2 5B0 sing 30 n n # _atom_sites.entry_id 5AES _atom_sites.fract_transf_matrix[1][1] 0.005995 _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] 0.005995 _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] 0.005995 _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 MG A 1 305 305 MG MG . D 3 5B0 A 1 306 306 5B0 5B0 . E 2 MG B 1 305 305 MG MG . F 3 5B0 B 1 306 306 5B0 5B0 . G 4 GOL B 1 1292 1292 GOL GOL . H 5 HOH A 1 2001 2001 HOH HOH . H 5 HOH A 2 2002 2002 HOH HOH . H 5 HOH A 3 2003 2003 HOH HOH . H 5 HOH A 4 2004 2004 HOH HOH . H 5 HOH A 5 2005 2005 HOH HOH . H 5 HOH A 6 2006 2006 HOH HOH . H 5 HOH A 7 2007 2007 HOH HOH . H 5 HOH A 8 2008 2008 HOH HOH . H 5 HOH A 9 2009 2009 HOH HOH . H 5 HOH A 10 2010 2010 HOH HOH . H 5 HOH A 11 2011 2011 HOH HOH . H 5 HOH A 12 2012 2012 HOH HOH . H 5 HOH A 13 2013 2013 HOH HOH . H 5 HOH A 14 2014 2014 HOH HOH . H 5 HOH A 15 2015 2015 HOH HOH . H 5 HOH A 16 2016 2016 HOH HOH . H 5 HOH A 17 2017 2017 HOH HOH . H 5 HOH A 18 2018 2018 HOH HOH . H 5 HOH A 19 2019 2019 HOH HOH . H 5 HOH A 20 2020 2020 HOH HOH . H 5 HOH A 21 2021 2021 HOH HOH . H 5 HOH A 22 2022 2022 HOH HOH . H 5 HOH A 23 2023 2023 HOH HOH . H 5 HOH A 24 2024 2024 HOH HOH . H 5 HOH A 25 2025 2025 HOH HOH . I 5 HOH B 1 2001 2001 HOH HOH . I 5 HOH B 2 2002 2002 HOH HOH . I 5 HOH B 3 2003 2003 HOH HOH . I 5 HOH B 4 2004 2004 HOH HOH . I 5 HOH B 5 2005 2005 HOH HOH . I 5 HOH B 6 2006 2006 HOH HOH . I 5 HOH B 7 2007 2007 HOH HOH . I 5 HOH B 8 2008 2008 HOH HOH . I 5 HOH B 9 2009 2009 HOH HOH . I 5 HOH B 10 2010 2010 HOH HOH . I 5 HOH B 11 2011 2011 HOH HOH . I 5 HOH B 12 2012 2012 HOH HOH . I 5 HOH B 13 2013 2013 HOH HOH . I 5 HOH B 14 2014 2014 HOH HOH . I 5 HOH B 15 2015 2015 HOH HOH . I 5 HOH B 16 2016 2016 HOH HOH . I 5 HOH B 17 2017 2017 HOH HOH . I 5 HOH B 18 2018 2018 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 OAE 5B0 . . . F 3 2.047 -35.783 26.172 1 42.75 ? OAE 5B0 306 B 1 HETATM 2 P PAP 5B0 . . . F 3 3.435 -36.099 26.815 1 34.91 ? PAP 5B0 306 B 1 HETATM 3 O OAF 5B0 . . . F 3 4.087 -37.281 26.049 1 34.65 ? OAF 5B0 306 B 1 HETATM 4 O OAC 5B0 . . . F 3 4.321 -34.886 26.756 1 35.08 ? OAC 5B0 306 B 1 HETATM 5 C CAJ 5B0 . . . F 3 3.101 -36.601 28.518 1 23.62 ? CAJ 5B0 306 B 1 HETATM 6 C CAI 5B0 . . . F 3 4.222 -36.85 29.444 1 26.84 ? CAI 5B0 306 B 1 HETATM 7 C CAN 5B0 . . . F 3 3.754 -37.236 30.796 1 28.25 ? CAN 5B0 306 B 1 HETATM 8 C CAH 5B0 . . . F 3 3.583 -38.576 31.095 1 27.38 ? CAH 5B0 306 B 1 HETATM 9 N NAK 5B0 . . . F 3 3.151 -38.934 32.304 1 28.35 ? NAK 5B0 306 B 1 HETATM 10 C CAL 5B0 . . . F 3 2.876 -38.011 33.227 1 33.84 ? CAL 5B0 306 B 1 HETATM 11 C CAA 5B0 . . . F 3 2.395 -38.475 34.558 1 38.48 ? CAA 5B0 306 B 1 HETATM 12 C CAM 5B0 . . . F 3 3.023 -36.65 32.992 1 33.28 ? CAM 5B0 306 B 1 HETATM 13 O OAD 5B0 . . . F 3 2.728 -35.722 33.976 1 34.41 ? OAD 5B0 306 B 1 HETATM 14 C CAO 5B0 . . . F 3 3.474 -36.25 31.731 1 32.77 ? CAO 5B0 306 B 1 HETATM 15 C C1 5B0 . . . F 3 3.656 -34.809 31.377 1 35.42 ? C1 5B0 306 B 1 HETATM 16 O O2 5B0 . . . F 3 3.283 -33.865 32.316 1 40.67 ? O2 5B0 306 B 1 HETATM 17 H HAE 5B0 . . . F 3 2.028 -36.095 25.344 1 51.3 ? HAE 5B0 306 B 1 HETATM 18 H HAF 5B0 . . . F 3 3.52 -37.589 25.445 1 41.57 ? HAF 5B0 306 B 1 HETATM 19 H HAJ1 5B0 . . . F 3 2.546 -35.911 28.918 1 28.34 ? HAJ1 5B0 306 B 1 HETATM 20 H HAJ2 5B0 . . . F 3 2.573 -37.416 28.48 1 28.34 ? HAJ2 5B0 306 B 1 HETATM 21 H HAI1 5B0 . . . F 3 4.755 -36.04 29.515 1 32.21 ? HAI1 5B0 306 B 1 HETATM 22 H HAI2 5B0 . . . F 3 4.776 -37.564 29.086 1 32.21 ? HAI2 5B0 306 B 1 HETATM 23 H HAH 5B0 . . . F 3 3.78 -39.252 30.428 1 32.86 ? HAH 5B0 306 B 1 HETATM 24 H HAA1 5B0 . . . F 3 3.1 -38.343 35.216 1 46.17 ? HAA1 5B0 306 B 1 HETATM 25 H HAA2 5B0 . . . F 3 1.613 -37.959 34.82 1 46.17 ? HAA2 5B0 306 B 1 HETATM 26 H HAA3 5B0 . . . F 3 2.172 -39.422 34.513 1 46.17 ? HAA3 5B0 306 B 1 HETATM 27 H HAD 5B0 . . . F 3 3.291 -35.821 34.654 1 41.29 ? HAD 5B0 306 B 1 HETATM 28 H H11C 5B0 . . . F 3 3.134 -34.639 30.574 1 42.5 ? H11C 5B0 306 B 1 HETATM 29 H H12C 5B0 . . . F 3 4.595 -34.669 31.16 1 42.5 ? H12C 5B0 306 B 1 HETATM 30 H H2 5B0 . . . F 3 3.853 -33.186 32.295 1 48.81 ? H2 5B0 306 B 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 329 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 30 #