data_3ZVD # _model_server_result.job_id yeS72gvKdumCnsnko73aGg _model_server_result.datetime_utc '2024-11-29 02:05:18' _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 3zvd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1190}' # _entry.id 3ZVD # _exptl.entry_id 3ZVD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 680.788 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'ETHYL (5S,8S,11R)-8-BENZYL-5-(2-TERT-BUTOXY-2-OXOETHYL)-3,6,9-TRIOXO-11-{[(3S)-2-OXOPYRROLIDIN-3-YL]METHYL}-1-PHENYL-2-OXA-4,7,10-TRIAZATETRADECAN-14-OATE' _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 3ZVD _cell.length_a 56.31 _cell.length_b 56.31 _cell.length_c 170.35 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3ZVD _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 31 2 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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 6_555 -x,-x+y,-z+1/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 56.783333 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 147 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 147 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id C63 _struct_conn.ptnr2_label_comp_id G83 _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id G83 _struct_conn.ptnr2_auth_seq_id 1190 _struct_conn.ptnr2_symmetry 1_555 _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 1.807 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C36 H48 N4 O9' _chem_comp.formula_weight 680.788 _chem_comp.id G83 _chem_comp.mon_nstd_flag . _chem_comp.name 'ETHYL (5S,8S,11R)-8-BENZYL-5-(2-TERT-BUTOXY-2-OXOETHYL)-3,6,9-TRIOXO-11-{[(3S)-2-OXOPYRROLIDIN-3-YL]METHYL}-1-PHENYL-2-OXA-4,7,10-TRIAZATETRADECAN-14-OATE' _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 O19 C17 G83 doub 83 n n C17 O15 G83 sing 84 n n C17 N21 G83 sing 85 n n O15 C13 G83 sing 86 n n C13 C4 G83 sing 87 n n C4 C6 G83 sing 88 n y C4 C2 G83 doub 89 n y C6 C8 G83 doub 90 n y C8 C10 G83 sing 91 n y C10 C1 G83 doub 92 n y C1 C2 G83 sing 93 n y N21 C23 G83 sing 94 n n C23 C25 G83 sing 95 n n C23 C31 G83 sing 96 n n C25 C14 G83 sing 97 n n C14 O1 G83 doub 98 n n C14 O2 G83 sing 99 n n O2 C29 G83 sing 100 n n C29 C12 G83 sing 101 n n C29 C43 G83 sing 102 n n C29 C45 G83 sing 103 n n C31 O35 G83 doub 104 n n C31 N33 G83 sing 105 n n N33 C37 G83 sing 106 n n C37 C41 G83 sing 107 n n C37 C39 G83 sing 108 n n C41 C51 G83 sing 109 n n C51 C53 G83 sing 110 n y C51 C55 G83 doub 111 n y C53 C7 G83 doub 112 n y C7 C9 G83 sing 113 n y C9 C11 G83 doub 114 n y C11 C55 G83 sing 115 n y C39 O47 G83 doub 116 n n C39 N49 G83 sing 117 n n N49 C57 G83 sing 118 n n C57 C59 G83 sing 119 n n C57 C63 G83 sing 120 n n C59 C61 G83 sing 121 n n C61 C73 G83 sing 122 n n C61 C65 G83 sing 123 n n C73 C71 G83 sing 124 n n C71 N69 G83 sing 125 n n N69 C65 G83 sing 126 n n C65 O66 G83 doub 127 n n C63 C82 G83 sing 128 n n C82 C84 G83 sing 129 n n C84 O88 G83 doub 130 n n C84 O86 G83 sing 131 n n O86 C3 G83 sing 132 n n C3 C5 G83 sing 133 n n N21 H21 G83 sing 134 n n C13 H131 G83 sing 135 n n C13 H132 G83 sing 136 n n C6 H6 G83 sing 137 n n C2 H2 G83 sing 138 n n C8 H8 G83 sing 139 n n C10 H10 G83 sing 140 n n C1 H1 G83 sing 141 n n C23 H23 G83 sing 142 n n C25 H251 G83 sing 143 n n C25 H252 G83 sing 144 n n C12 H121 G83 sing 145 n n C12 H122 G83 sing 146 n n C12 H123 G83 sing 147 n n C43 H431 G83 sing 148 n n C43 H432 G83 sing 149 n n C43 H433 G83 sing 150 n n C45 H451 G83 sing 151 n n C45 H452 G83 sing 152 n n C45 H453 G83 sing 153 n n N33 H33 G83 sing 154 n n C37 H37 G83 sing 155 n n C41 H411 G83 sing 156 n n C41 H412 G83 sing 157 n n C53 H53 G83 sing 158 n n C55 H55 G83 sing 159 n n C7 H7 G83 sing 160 n n C9 H9 G83 sing 161 n n C11 H11 G83 sing 162 n n N49 H49 G83 sing 163 n n C57 H57 G83 sing 164 n n C59 H591 G83 sing 165 n n C59 H592 G83 sing 166 n n C63 H631 G83 sing 167 n n C63 H632 G83 sing 168 n n C61 H61 G83 sing 169 n n C73 H731 G83 sing 170 n n C73 H732 G83 sing 171 n n C71 H711 G83 sing 172 n n C71 H712 G83 sing 173 n n N69 H69 G83 sing 174 n n C82 H821 G83 sing 175 n n C82 H822 G83 sing 176 n n C3 H31C G83 sing 177 n n C3 H32C G83 sing 178 n n C5 H51C G83 sing 179 n n C5 H52C G83 sing 180 n n C5 H53C G83 sing 181 n n # _atom_sites.entry_id 3ZVD _atom_sites.fract_transf_matrix[1][1] 0.017759 _atom_sites.fract_transf_matrix[1][2] 0.010253 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.020506 _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] 0.00587 _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 B 2 G83 A 1 1190 1190 G83 G83 . C 3 HOH A 1 2001 2001 HOH HOH . C 3 HOH A 2 2002 2002 HOH HOH . C 3 HOH A 3 2003 2003 HOH HOH . C 3 HOH A 4 2004 2004 HOH HOH . C 3 HOH A 5 2005 2005 HOH HOH . C 3 HOH A 6 2006 2006 HOH HOH . C 3 HOH A 7 2007 2007 HOH HOH . C 3 HOH A 8 2008 2008 HOH HOH . C 3 HOH A 9 2009 2009 HOH HOH . C 3 HOH A 10 2010 2010 HOH HOH . C 3 HOH A 11 2011 2011 HOH HOH . C 3 HOH A 12 2012 2012 HOH HOH . C 3 HOH A 13 2013 2013 HOH HOH . C 3 HOH A 14 2014 2014 HOH HOH . C 3 HOH A 15 2015 2015 HOH HOH . C 3 HOH A 16 2016 2016 HOH HOH . C 3 HOH A 17 2017 2017 HOH HOH . C 3 HOH A 18 2018 2018 HOH HOH . C 3 HOH A 19 2019 2019 HOH HOH . C 3 HOH A 20 2020 2020 HOH HOH . C 3 HOH A 21 2021 2021 HOH HOH . C 3 HOH A 22 2022 2022 HOH HOH . C 3 HOH A 23 2023 2023 HOH HOH . C 3 HOH A 24 2024 2024 HOH HOH . C 3 HOH A 25 2025 2025 HOH HOH . C 3 HOH A 26 2026 2026 HOH HOH . C 3 HOH A 27 2027 2027 HOH HOH . C 3 HOH A 28 2028 2028 HOH HOH . C 3 HOH A 29 2029 2029 HOH HOH . C 3 HOH A 30 2030 2030 HOH HOH . C 3 HOH A 31 2031 2031 HOH HOH . C 3 HOH A 32 2032 2032 HOH HOH . C 3 HOH A 33 2033 2033 HOH HOH . C 3 HOH A 34 2034 2034 HOH HOH . C 3 HOH A 35 2035 2035 HOH HOH . C 3 HOH A 36 2036 2036 HOH HOH . C 3 HOH A 37 2037 2037 HOH HOH . C 3 HOH A 38 2038 2038 HOH HOH . C 3 HOH A 39 2039 2039 HOH HOH . C 3 HOH A 40 2040 2040 HOH HOH . C 3 HOH A 41 2041 2041 HOH HOH . C 3 HOH A 42 2042 2042 HOH HOH . C 3 HOH A 43 2043 2043 HOH HOH . C 3 HOH A 44 2044 2044 HOH HOH . C 3 HOH A 45 2045 2045 HOH HOH . C 3 HOH A 46 2046 2046 HOH HOH . C 3 HOH A 47 2047 2047 HOH HOH . C 3 HOH A 48 2048 2048 HOH HOH . C 3 HOH A 49 2049 2049 HOH HOH . C 3 HOH A 50 2050 2050 HOH HOH . C 3 HOH A 51 2051 2051 HOH HOH . C 3 HOH A 52 2052 2052 HOH HOH . C 3 HOH A 53 2053 2053 HOH HOH . C 3 HOH A 54 2054 2054 HOH HOH . C 3 HOH A 55 2055 2055 HOH HOH . C 3 HOH A 56 2056 2056 HOH HOH . C 3 HOH A 57 2057 2057 HOH HOH . C 3 HOH A 58 2058 2058 HOH HOH . C 3 HOH A 59 2059 2059 HOH HOH . C 3 HOH A 60 2060 2060 HOH HOH . C 3 HOH A 61 2061 2061 HOH HOH . C 3 HOH A 62 2062 2062 HOH HOH . C 3 HOH A 63 2063 2063 HOH HOH . C 3 HOH A 64 2064 2064 HOH HOH . C 3 HOH A 65 2065 2065 HOH HOH . C 3 HOH A 66 2066 2066 HOH HOH . C 3 HOH A 67 2067 2067 HOH HOH . C 3 HOH A 68 2068 2068 HOH HOH . C 3 HOH A 69 2069 2069 HOH HOH . C 3 HOH A 70 2070 2070 HOH HOH . C 3 HOH A 71 2071 2071 HOH HOH . C 3 HOH A 72 2072 2072 HOH HOH . C 3 HOH A 73 2073 2073 HOH HOH . C 3 HOH A 74 2074 2074 HOH HOH . C 3 HOH A 75 2075 2075 HOH HOH . C 3 HOH A 76 2076 2076 HOH HOH . C 3 HOH A 77 2077 2077 HOH HOH . C 3 HOH A 78 2078 2078 HOH HOH . C 3 HOH A 79 2079 2079 HOH HOH . C 3 HOH A 80 2080 2080 HOH HOH . C 3 HOH A 81 2081 2081 HOH HOH . C 3 HOH A 82 2082 2082 HOH HOH . C 3 HOH A 83 2083 2083 HOH HOH . C 3 HOH A 84 2084 2084 HOH HOH . C 3 HOH A 85 2085 2085 HOH HOH . C 3 HOH A 86 2086 2086 HOH HOH . C 3 HOH A 87 2087 2087 HOH HOH . C 3 HOH A 88 2088 2088 HOH HOH . C 3 HOH A 89 2089 2089 HOH HOH . C 3 HOH A 90 2090 2090 HOH HOH . C 3 HOH A 91 2091 2091 HOH HOH . C 3 HOH A 92 2092 2092 HOH HOH . C 3 HOH A 93 2093 2093 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 O19 G83 . . . B 2 2.881 16.758 12.88 1 38.21 ? O19 G83 1190 A 1 HETATM 2 C C17 G83 . . . B 2 2.482 17.355 13.859 1 36.51 ? C17 G83 1190 A 1 HETATM 3 O O15 G83 . . . B 2 2.897 18.745 13.996 1 39.01 ? O15 G83 1190 A 1 HETATM 4 C C13 G83 . . . B 2 3.876 19.313 13.109 1 46.11 ? C13 G83 1190 A 1 HETATM 5 C C4 G83 . . . B 2 5.263 18.928 13.593 1 52.46 ? C4 G83 1190 A 1 HETATM 6 C C6 G83 . . . B 2 6.073 19.876 14.232 1 56.15 ? C6 G83 1190 A 1 HETATM 7 C C8 G83 . . . B 2 7.358 19.543 14.698 1 58.72 ? C8 G83 1190 A 1 HETATM 8 C C10 G83 . . . B 2 7.838 18.232 14.519 1 59.14 ? C10 G83 1190 A 1 HETATM 9 C C1 G83 . . . B 2 7.03 17.275 13.894 1 58.65 ? C1 G83 1190 A 1 HETATM 10 C C2 G83 . . . B 2 5.749 17.628 13.434 1 55.1 ? C2 G83 1190 A 1 HETATM 11 N N21 G83 . . . B 2 1.705 16.759 14.76 1 34.12 ? N21 G83 1190 A 1 HETATM 12 C C23 G83 . . . B 2 1.22 15.388 14.612 1 33.29 ? C23 G83 1190 A 1 HETATM 13 C C25 G83 . . . B 2 1.551 14.621 15.891 1 39.75 ? C25 G83 1190 A 1 HETATM 14 C C14 G83 . . . B 2 3.042 14.624 16.142 1 45.45 ? C14 G83 1190 A 1 HETATM 15 O O1 G83 . . . B 2 3.837 14.29 15.28 1 44.26 ? O1 G83 1190 A 1 HETATM 16 O O2 G83 . . . B 2 3.495 15.084 17.449 1 51.47 ? O2 G83 1190 A 1 HETATM 17 C C29 G83 . . . B 2 4.81 14.957 18.012 1 52.94 ? C29 G83 1190 A 1 HETATM 18 C C12 G83 . . . B 2 5.274 13.494 17.924 1 54.09 ? C12 G83 1190 A 1 HETATM 19 C C43 G83 . . . B 2 4.694 15.373 19.481 1 53.14 ? C43 G83 1190 A 1 HETATM 20 C C45 G83 . . . B 2 5.788 15.879 17.291 1 53.22 ? C45 G83 1190 A 1 HETATM 21 C C31 G83 . . . B 2 -0.279 15.431 14.439 1 29.34 ? C31 G83 1190 A 1 HETATM 22 O O35 G83 . . . B 2 -0.875 16.384 14.912 1 27.81 ? O35 G83 1190 A 1 HETATM 23 N N33 G83 . . . B 2 -0.904 14.46 13.772 1 27.79 ? N33 G83 1190 A 1 HETATM 24 C C37 G83 . . . B 2 -2.352 14.466 13.598 1 28.64 ? C37 G83 1190 A 1 HETATM 25 C C41 G83 . . . B 2 -2.673 13.384 12.553 1 30.97 ? C41 G83 1190 A 1 HETATM 26 C C51 G83 . . . B 2 -4.183 13.205 12.437 1 33.45 ? C51 G83 1190 A 1 HETATM 27 C C53 G83 . . . B 2 -4.753 11.919 12.59 1 33.43 ? C53 G83 1190 A 1 HETATM 28 C C7 G83 . . . B 2 -6.148 11.76 12.489 1 33.65 ? C7 G83 1190 A 1 HETATM 29 C C9 G83 . . . B 2 -6.972 12.883 12.232 1 33.47 ? C9 G83 1190 A 1 HETATM 30 C C11 G83 . . . B 2 -6.428 14.177 12.077 1 32.14 ? C11 G83 1190 A 1 HETATM 31 C C55 G83 . . . B 2 -5.036 14.322 12.169 1 34.14 ? C55 G83 1190 A 1 HETATM 32 C C39 G83 . . . B 2 -2.986 14.207 14.946 1 29 ? C39 G83 1190 A 1 HETATM 33 O O47 G83 . . . B 2 -2.576 13.267 15.626 1 28.41 ? O47 G83 1190 A 1 HETATM 34 N N49 G83 . . . B 2 -3.961 15.043 15.384 1 27.86 ? N49 G83 1190 A 1 HETATM 35 C C57 G83 . . . B 2 -4.599 14.843 16.7 1 25.69 ? C57 G83 1190 A 1 HETATM 36 C C59 G83 . . . B 2 -4.354 16.101 17.561 1 23.74 ? C59 G83 1190 A 1 HETATM 37 C C61 G83 . . . B 2 -2.87 16.449 17.787 1 24.75 ? C61 G83 1190 A 1 HETATM 38 C C73 G83 . . . B 2 -1.97 15.29 18.291 1 24.2 ? C73 G83 1190 A 1 HETATM 39 C C71 G83 . . . B 2 -1.034 15.871 19.369 1 24.71 ? C71 G83 1190 A 1 HETATM 40 N N69 G83 . . . B 2 -1.764 17.115 19.67 1 26.13 ? N69 G83 1190 A 1 HETATM 41 C C65 G83 . . . B 2 -2.666 17.486 18.861 1 24.83 ? C65 G83 1190 A 1 HETATM 42 O O66 G83 . . . B 2 -3.315 18.646 18.941 1 23.86 ? O66 G83 1190 A 1 HETATM 43 C C63 G83 . . . B 2 -6.079 14.525 16.456 1 26.88 ? C63 G83 1190 A 1 HETATM 44 C C82 G83 . . . B 2 -6.302 13.141 15.84 1 36.26 ? C82 G83 1190 A 1 HETATM 45 C C84 G83 . . . B 2 -5.82 12.014 16.75 1 42.54 ? C84 G83 1190 A 1 HETATM 46 O O88 G83 . . . B 2 -5.91 12.112 17.983 1 43.79 ? O88 G83 1190 A 1 HETATM 47 O O86 G83 . . . B 2 -5.205 10.822 16.155 1 45.75 ? O86 G83 1190 A 1 HETATM 48 C C3 G83 . . . B 2 -5.968 9.646 15.799 1 49.58 ? C3 G83 1190 A 1 HETATM 49 C C5 G83 . . . B 2 -5.368 8.886 14.607 1 48.98 ? C5 G83 1190 A 1 # _model_server_stats.io_time_ms 59 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 49 #