data_3OF9 # _model_server_result.job_id cTI0Hr0-Vd0N5aIDjlg2jQ _model_server_result.datetime_utc '2024-12-04 01:43:15' _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 3of9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 3OF9 # _exptl.entry_id 3OF9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 542.625 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description Nalpha-[(benzyloxy)carbonyl]-N-[(1S)-1-(4-tert-butoxybenzyl)-3-diazo-2-oxopropyl]-L-phenylalaninamide _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 3OF9 _cell.length_a 85.557 _cell.length_b 85.557 _cell.length_c 50.201 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3OF9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 170 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B _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 2 _struct_asym.id B _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 23 A CYS 23 1_555 A SG CYS 66 A CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf2 A SG CYS 57 A CYS 57 1_555 A SG CYS 99 A CYS 99 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf3 A SG CYS 157 A CYS 157 1_555 A SG CYS 210 A CYS 210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? covale ? covale1 A SG CYS 26 A CYS 26 1_555 B C31 I0X . A I0X 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.794 ? # _chem_comp.formula 'C31 H34 N4 O5' _chem_comp.formula_weight 542.625 _chem_comp.id I0X _chem_comp.mon_nstd_flag . _chem_comp.name Nalpha-[(benzyloxy)carbonyl]-N-[(1S)-1-(4-tert-butoxybenzyl)-3-diazo-2-oxopropyl]-L-phenylalaninamide _chem_comp.type peptide-like _chem_comp.pdbx_synonyms Z-Phe-Tyr(t-Bu)-diazomethylketone # 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 N1 C10 I0X sing 150 n n N1 C1 I0X sing 151 n n N1 H1 I0X sing 152 n n O1 C2 I0X doub 153 n n C1 H2 I0X sing 154 n n C2 C1 I0X sing 155 n n C2 N2 I0X sing 156 n n C3 C1 I0X sing 157 n n C3 C4 I0X sing 158 n n C3 H3 I0X sing 159 n n C3 H4 I0X sing 160 n n C4 C9 I0X doub 161 n y C5 C4 I0X sing 162 n y C5 C7 I0X doub 163 n y C5 H5 I0X sing 164 n n C6 H6 I0X sing 165 n n C7 C8 I0X sing 166 n y C7 H7 I0X sing 167 n n C8 C6 I0X doub 168 n y C8 H8 I0X sing 169 n n C9 C6 I0X sing 170 n y C9 H9 I0X sing 171 n n C10 O2 I0X doub 172 n n C11 H10 I0X sing 173 n n C11 H11 I0X sing 174 n n N2 H12 I0X sing 175 n n O3 C10 I0X sing 176 n n O3 C11 I0X sing 177 n n C12 C11 I0X sing 178 n n C12 C13 I0X doub 179 n y C13 H13 I0X sing 180 n n O4 C24 I0X sing 181 n n C14 C13 I0X sing 182 n y C14 H14 I0X sing 183 n n O5 C26 I0X doub 184 n n C15 C14 I0X doub 185 n y C15 H15 I0X sing 186 n n C16 C15 I0X sing 187 n y C16 C17 I0X doub 188 n y C16 H16 I0X sing 189 n n C17 C12 I0X sing 190 n y C17 H17 I0X sing 191 n n C18 C28 I0X doub 192 n y C19 O4 I0X sing 193 n n C19 C30 I0X doub 194 n y C20 C18 I0X sing 195 n n C20 H18 I0X sing 196 n n C20 H19 I0X sing 197 n n C21 C24 I0X sing 198 n n C21 H20 I0X sing 199 n n C21 H21 I0X sing 200 n n C21 H22 I0X sing 201 n n C22 H23 I0X sing 202 n n C22 H24 I0X sing 203 n n C22 H25 I0X sing 204 n n C23 H26 I0X sing 205 n n C23 H27 I0X sing 206 n n C23 H28 I0X sing 207 n n C24 C22 I0X sing 208 n n C24 C23 I0X sing 209 n n C25 N2 I0X sing 210 n n C25 C20 I0X sing 211 n n C25 H29 I0X sing 212 n n C26 C25 I0X sing 213 n n C26 C31 I0X sing 214 n n C27 C18 I0X sing 215 n y C27 C29 I0X doub 216 n y C27 H30 I0X sing 217 n n C28 C30 I0X sing 218 n y C28 H31 I0X sing 219 n n C29 C19 I0X sing 220 n y C29 H32 I0X sing 221 n n C30 H33 I0X sing 222 n n N3 C31 I0X doub 223 n n C31 H34 I0X sing 224 n n N3 N4 I0X doub 225 n n # _atom_sites.entry_id 3OF9 _atom_sites.fract_transf_matrix[1][1] 0.011688 _atom_sites.fract_transf_matrix[1][2] 0.006748 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013496 _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] 0.01992 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # _pdbx_nonpoly_scheme.asym_id B _pdbx_nonpoly_scheme.entity_id 2 _pdbx_nonpoly_scheme.mon_id I0X _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 501 _pdbx_nonpoly_scheme.auth_seq_num 501 _pdbx_nonpoly_scheme.pdb_mon_id I0X _pdbx_nonpoly_scheme.auth_mon_id I0X _pdbx_nonpoly_scheme.pdb_ins_code . # 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 C10 I0X . . . B 2 20.651 -21.792 2.985 1 20.54 ? C10 I0X 501 A 1 HETATM 2 O O2 I0X . . . B 2 19.604 -21.765 3.649 1 22.07 ? O2 I0X 501 A 1 HETATM 3 O O3 I0X . . . B 2 21.107 -22.864 2.573 1 21.34 ? O3 I0X 501 A 1 HETATM 4 C C11 I0X . . . B 2 20.448 -24.088 2.809 1 24.93 ? C11 I0X 501 A 1 HETATM 5 C C12 I0X . . . B 2 21.107 -25.178 1.947 1 20.41 ? C12 I0X 501 A 1 HETATM 6 C C13 I0X . . . B 2 21.899 -26.175 2.57 1 24.17 ? C13 I0X 501 A 1 HETATM 7 C C14 I0X . . . B 2 22.533 -27.123 1.763 1 22.39 ? C14 I0X 501 A 1 HETATM 8 C C15 I0X . . . B 2 22.386 -27.057 0.374 1 22.44 ? C15 I0X 501 A 1 HETATM 9 C C16 I0X . . . B 2 21.612 -26.072 -0.222 1 21.83 ? C16 I0X 501 A 1 HETATM 10 C C17 I0X . . . B 2 20.963 -25.11 0.584 1 20.16 ? C17 I0X 501 A 1 HETATM 11 N N1 I0X . . . B 2 21.404 -20.64 2.661 1 14.63 ? N1 I0X 501 A 1 HETATM 12 C C1 I0X . . . B 2 20.844 -19.434 3.12 1 16.22 ? C1 I0X 501 A 1 HETATM 13 C C2 I0X . . . B 2 19.81 -18.974 2.152 1 19.24 ? C2 I0X 501 A 1 HETATM 14 O O1 I0X . . . B 2 19.84 -19.302 0.94 1 17.51 ? O1 I0X 501 A 1 HETATM 15 C C3 I0X . . . B 2 21.986 -18.392 3.168 1 15.61 ? C3 I0X 501 A 1 HETATM 16 C C4 I0X . . . B 2 23.272 -18.889 3.842 1 17.7 ? C4 I0X 501 A 1 HETATM 17 C C9 I0X . . . B 2 23.227 -19.299 5.176 1 18.21 ? C9 I0X 501 A 1 HETATM 18 C C5 I0X . . . B 2 24.502 -18.907 3.115 1 17.26 ? C5 I0X 501 A 1 HETATM 19 C C6 I0X . . . B 2 24.37 -19.735 5.783 1 19.24 ? C6 I0X 501 A 1 HETATM 20 C C7 I0X . . . B 2 25.673 -19.353 3.751 1 20.13 ? C7 I0X 501 A 1 HETATM 21 C C8 I0X . . . B 2 25.643 -19.765 5.037 1 20.24 ? C8 I0X 501 A 1 HETATM 22 N N2 I0X . . . B 2 18.749 -18.194 2.652 1 16.76 ? N2 I0X 501 A 1 HETATM 23 C C18 I0X . . . B 2 15.689 -17.598 3.237 1 17.93 ? C18 I0X 501 A 1 HETATM 24 O O4 I0X . . . B 2 14.251 -15.435 6.45 1 20.69 ? O4 I0X 501 A 1 HETATM 25 C C19 I0X . . . B 2 14.722 -16.164 5.377 1 18.62 ? C19 I0X 501 A 1 HETATM 26 C C20 I0X . . . B 2 16.255 -18.368 2.043 1 17.91 ? C20 I0X 501 A 1 HETATM 27 C C23 I0X . . . B 2 14.153 -13.083 5.837 1 22.37 ? C23 I0X 501 A 1 HETATM 28 C C22 I0X . . . B 2 14.34 -13.851 8.152 1 21.38 ? C22 I0X 501 A 1 HETATM 29 C C21 I0X . . . B 2 16.273 -14.074 6.708 1 19.76 ? C21 I0X 501 A 1 HETATM 30 C C24 I0X . . . B 2 14.752 -14.151 6.772 1 22.99 ? C24 I0X 501 A 1 HETATM 31 C C26 I0X . . . B 2 17.677 -16.189 1.47 1 16.48 ? C26 I0X 501 A 1 HETATM 32 C C25 I0X . . . B 2 17.691 -17.677 1.624 1 19.37 ? C25 I0X 501 A 1 HETATM 33 C C27 I0X . . . B 2 16.15 -17.891 4.532 1 20.42 ? C27 I0X 501 A 1 HETATM 34 C C28 I0X . . . B 2 14.771 -16.592 3.012 1 18.85 ? C28 I0X 501 A 1 HETATM 35 C C29 I0X . . . B 2 15.649 -17.162 5.594 1 18.64 ? C29 I0X 501 A 1 HETATM 36 C C30 I0X . . . B 2 14.285 -15.868 4.073 1 17.55 ? C30 I0X 501 A 1 HETATM 37 O O5 I0X . . . B 2 17.011 -15.698 0.619 1 17.52 ? O5 I0X 501 A 1 HETATM 38 C C31 I0X . . . B 2 18.532 -15.317 2.423 1 20.08 ? C31 I0X 501 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 298 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 38 #