data_2VK0 # _model_server_result.job_id D1t17GXw7gmIn1B17yGhXw _model_server_result.datetime_utc '2024-11-08 01:37:13' _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 2vk0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":1022}' # _entry.id 2VK0 # _exptl.entry_id 2VK0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 152.147 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '4-HYDROXY-BENZOIC ACID METHYL ESTER' _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 120 _cell.entry_id 2VK0 _cell.length_a 81.03 _cell.length_b 81.03 _cell.length_c 33.9 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2VK0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 146 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'H 3' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dodecameric _pdbx_struct_assembly.oligomeric_count 12 _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,K,L,M _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_555 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id F _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 disulf ? disulf1 A SG CYS 6 A CYS 6 1_555 A SG CYS 11 A CYS 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 7 A CYS 7 1_555 B SG CYS 7 B CYS 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 A SG CYS 20 A CYS 20 1_555 B SG CYS 19 B CYS 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf4 C SG CYS 6 C CYS 6 1_555 C SG CYS 11 C CYS 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf5 C SG CYS 7 C CYS 7 1_555 D SG CYS 7 D CYS 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf6 C SG CYS 20 C CYS 20 1_555 D SG CYS 19 D CYS 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? metalc ? metalc1 B NE2 HIS 10 B HIS 10 2_555 E ZN ZN . B ZN 1031 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.987 ? metalc ? metalc2 B NE2 HIS 10 B HIS 10 1_555 E ZN ZN . B ZN 1031 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.987 ? metalc ? metalc3 B NE2 HIS 10 B HIS 10 3_555 E ZN ZN . B ZN 1031 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.987 ? metalc ? metalc4 E ZN ZN . B ZN 1031 1_555 K O HOH . B HOH 2025 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.899 ? metalc ? metalc5 E ZN ZN . B ZN 1031 1_555 K O HOH . B HOH 2025 2_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.899 ? metalc ? metalc6 E ZN ZN . B ZN 1031 1_555 K O HOH . B HOH 2025 3_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.899 ? metalc ? metalc7 D NE2 HIS 10 D HIS 10 1_555 G ZN ZN . D ZN 1030 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? metalc ? metalc8 D NE2 HIS 10 D HIS 10 2_555 G ZN ZN . D ZN 1030 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? metalc ? metalc9 D NE2 HIS 10 D HIS 10 3_555 G ZN ZN . D ZN 1030 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? metalc ? metalc10 D ND1 HIS 10 D HIS 10 1_555 H ZN ZN . D ZN 1031 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.498 ? metalc ? metalc11 D OE1 GLU 13 D GLU 13 1_555 H ZN ZN . D ZN 1031 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.941 ? metalc ? metalc12 D OE2 GLU 13 D GLU 13 1_555 I ZN ZN . D ZN 1032 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.248 ? metalc ? metalc13 H ZN ZN . D ZN 1031 1_555 M O HOH . D HOH 2016 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? metalc ? metalc14 H ZN ZN . D ZN 1031 1_555 M O HOH . D HOH 2017 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.138 ? metalc ? metalc15 I ZN ZN . D ZN 1032 1_555 M O HOH . D HOH 2017 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.989 ? # _chem_comp.formula 'C8 H8 O3' _chem_comp.formula_weight 152.147 _chem_comp.id MPB _chem_comp.mon_nstd_flag . _chem_comp.name '4-HYDROXY-BENZOIC ACID METHYL ESTER' _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 C O1 MPB doub 203 n n C O2 MPB sing 204 n n C C1 MPB sing 205 n n O2 CM MPB sing 206 n n CM HM1 MPB sing 207 n n CM HM2 MPB sing 208 n n CM HM3 MPB sing 209 n n C1 C2 MPB doub 210 n y C1 C6 MPB sing 211 n y C2 C3 MPB sing 212 n y C2 H2 MPB sing 213 n n C3 C4 MPB doub 214 n y C3 H3 MPB sing 215 n n C4 C5 MPB sing 216 n y C4 O4 MPB sing 217 n n C5 C6 MPB doub 218 n y C5 H5 MPB sing 219 n n C6 H6 MPB sing 220 n n O4 HO4 MPB sing 221 n n # _atom_sites.entry_id 2VK0 _atom_sites.fract_transf_matrix[1][1] 0.012341 _atom_sites.fract_transf_matrix[1][2] 0.007125 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01425 _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] 0.029499 _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 ZN B 1 1031 1031 ZN ZN . F 4 MPB C 1 1022 1022 MPB MPB . G 3 ZN D 1 1030 1030 ZN ZN . H 3 ZN D 1 1031 1031 ZN ZN . I 3 ZN D 1 1032 1032 ZN ZN . J 5 HOH A 1 2001 2001 HOH HOH . J 5 HOH A 2 2002 2002 HOH HOH . J 5 HOH A 3 2003 2003 HOH HOH . J 5 HOH A 4 2004 2004 HOH HOH . J 5 HOH A 5 2005 2005 HOH HOH . J 5 HOH A 6 2006 2006 HOH HOH . J 5 HOH A 7 2007 2007 HOH HOH . J 5 HOH A 8 2008 2008 HOH HOH . J 5 HOH A 9 2009 2009 HOH HOH . J 5 HOH A 10 2010 2010 HOH HOH . J 5 HOH A 11 2011 2011 HOH HOH . J 5 HOH A 12 2012 2012 HOH HOH . J 5 HOH A 13 2013 2013 HOH HOH . J 5 HOH A 14 2014 2014 HOH HOH . J 5 HOH A 15 2015 2015 HOH HOH . K 5 HOH B 1 2001 2001 HOH HOH . K 5 HOH B 2 2002 2002 HOH HOH . K 5 HOH B 3 2003 2003 HOH HOH . K 5 HOH B 4 2004 2004 HOH HOH . K 5 HOH B 5 2005 2005 HOH HOH . K 5 HOH B 6 2006 2006 HOH HOH . K 5 HOH B 7 2007 2007 HOH HOH . K 5 HOH B 8 2008 2008 HOH HOH . K 5 HOH B 9 2009 2009 HOH HOH . K 5 HOH B 10 2010 2010 HOH HOH . K 5 HOH B 11 2011 2011 HOH HOH . K 5 HOH B 12 2012 2012 HOH HOH . K 5 HOH B 13 2013 2013 HOH HOH . K 5 HOH B 14 2014 2014 HOH HOH . K 5 HOH B 15 2015 2015 HOH HOH . K 5 HOH B 16 2016 2016 HOH HOH . K 5 HOH B 17 2017 2017 HOH HOH . K 5 HOH B 18 2018 2018 HOH HOH . K 5 HOH B 19 2019 2019 HOH HOH . K 5 HOH B 20 2020 2020 HOH HOH . K 5 HOH B 21 2021 2021 HOH HOH . K 5 HOH B 22 2022 2022 HOH HOH . K 5 HOH B 23 2023 2023 HOH HOH . K 5 HOH B 24 2024 2024 HOH HOH . K 5 HOH B 25 2025 2025 HOH HOH . L 5 HOH C 1 2001 2001 HOH HOH . L 5 HOH C 2 2002 2002 HOH HOH . L 5 HOH C 3 2003 2003 HOH HOH . L 5 HOH C 4 2004 2004 HOH HOH . L 5 HOH C 5 2005 2005 HOH HOH . L 5 HOH C 6 2006 2006 HOH HOH . L 5 HOH C 7 2007 2007 HOH HOH . L 5 HOH C 8 2008 2008 HOH HOH . L 5 HOH C 9 2009 2009 HOH HOH . M 5 HOH D 1 2001 2001 HOH HOH . M 5 HOH D 2 2002 2002 HOH HOH . M 5 HOH D 3 2003 2003 HOH HOH . M 5 HOH D 4 2004 2004 HOH HOH . M 5 HOH D 5 2005 2005 HOH HOH . M 5 HOH D 6 2006 2006 HOH HOH . M 5 HOH D 7 2007 2007 HOH HOH . M 5 HOH D 8 2008 2008 HOH HOH . M 5 HOH D 9 2009 2009 HOH HOH . M 5 HOH D 10 2010 2010 HOH HOH . M 5 HOH D 11 2011 2011 HOH HOH . M 5 HOH D 12 2012 2012 HOH HOH . M 5 HOH D 13 2013 2013 HOH HOH . M 5 HOH D 14 2014 2014 HOH HOH . M 5 HOH D 15 2015 2015 HOH HOH . M 5 HOH D 16 2016 2016 HOH HOH . M 5 HOH D 17 2017 2017 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 C C MPB . A . F 4 3.702 20.55 -0.674 0.5 23.09 ? C MPB 1022 C 1 HETATM 2 C C MPB . B . F 4 6.241 18.737 -2.197 0.5 33.06 ? C MPB 1022 C 1 HETATM 3 O O1 MPB . A . F 4 3.802 21.336 0.254 0.5 23.07 ? O1 MPB 1022 C 1 HETATM 4 O O1 MPB . B . F 4 6.201 18.519 -3.4 0.5 33.05 ? O1 MPB 1022 C 1 HETATM 5 O O2 MPB . A . F 4 2.382 20.291 -1.229 0.5 23.1 ? O2 MPB 1022 C 1 HETATM 6 O O2 MPB . B . F 4 7.367 18.231 -1.424 0.5 33.1 ? O2 MPB 1022 C 1 HETATM 7 C CM MPB . A . F 4 1.373 19.687 -0.424 0.5 22.98 ? CM MPB 1022 C 1 HETATM 8 C CM MPB . B . F 4 8.494 17.641 -2.071 0.5 33.11 ? CM MPB 1022 C 1 HETATM 9 C C1 MPB . A . F 4 4.913 19.863 -1.246 0.5 23.14 ? C1 MPB 1022 C 1 HETATM 10 C C1 MPB . B . F 4 5.149 19.514 -1.513 0.5 33.08 ? C1 MPB 1022 C 1 HETATM 11 C C2 MPB . A . F 4 4.846 19.285 -2.514 0.5 23.1 ? C2 MPB 1022 C 1 HETATM 12 C C2 MPB . B . F 4 5.323 19.941 -0.196 0.5 33.06 ? C2 MPB 1022 C 1 HETATM 13 C C3 MPB . A . F 4 5.962 18.648 -3.056 0.5 23.11 ? C3 MPB 1022 C 1 HETATM 14 C C3 MPB . B . F 4 4.319 20.662 0.448 0.5 33.06 ? C3 MPB 1022 C 1 HETATM 15 C C4 MPB . A . F 4 7.15 18.586 -2.333 0.5 23.14 ? C4 MPB 1022 C 1 HETATM 16 C C4 MPB . B . F 4 3.136 20.96 -0.221 0.5 33.05 ? C4 MPB 1022 C 1 HETATM 17 C C5 MPB . A . F 4 7.221 19.162 -1.066 0.5 23.07 ? C5 MPB 1022 C 1 HETATM 18 C C5 MPB . B . F 4 2.956 20.537 -1.536 0.5 33.06 ? C5 MPB 1022 C 1 HETATM 19 C C6 MPB . A . F 4 6.106 19.799 -0.524 0.5 23.1 ? C6 MPB 1022 C 1 HETATM 20 C C6 MPB . B . F 4 3.96 19.815 -2.181 0.5 33.04 ? C6 MPB 1022 C 1 HETATM 21 O O4 MPB . A . F 4 8.24 17.963 -2.863 0.5 23.12 ? O4 MPB 1022 C 1 HETATM 22 O O4 MPB . B . F 4 2.158 21.665 0.413 0.5 33.06 ? O4 MPB 1022 C 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 327 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 22 #