data_9NAY # _model_server_result.job_id ErnEdLF9Wja8xmq8NrvMyQ _model_server_result.datetime_utc '2025-06-29 14:37:43' _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 9nay # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 9NAY # _exptl.entry_id 9NAY _exptl.method 'ELECTRON CRYSTALLOGRAPHY' # _entity.details ? _entity.formula_weight 371.472 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(3S)-4-({(1S)-2-[(8-aminooctyl)amino]-1-cyclobutyl-2-oxoethyl}amino)-3-hydroxy-4-oxobutanoic acid' _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 90 _cell.entry_id 9NAY _cell.length_a 42.2 _cell.length_b 48.78 _cell.length_c 100.1 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9NAY _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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,C _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 22 A CYS 22 1_555 A SG CYS 63 A CYS 63 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf2 A SG CYS 56 A CYS 56 1_555 A SG CYS 95 A CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf3 A SG CYS 153 A CYS 153 1_555 A SG CYS 200 A CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? covale ? covale1 A SG CYS 25 A CYS 25 1_555 B C2 A1AXI . A A1AXI 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.808 ? # _chem_comp.formula 'C18 H33 N3 O5' _chem_comp.formula_weight 371.472 _chem_comp.id A1AXI _chem_comp.mon_nstd_flag . _chem_comp.name '(3S)-4-({(1S)-2-[(8-aminooctyl)amino]-1-cyclobutyl-2-oxoethyl}amino)-3-hydroxy-4-oxobutanoic 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 O2 C1 A1AXI doub 1 n n C1 O1 A1AXI sing 2 n n C1 C2 A1AXI sing 3 n n C2 C3 A1AXI sing 4 n n C3 O3 A1AXI sing 5 n n C3 C4 A1AXI sing 6 n n O4 C4 A1AXI doub 7 n n C4 N1 A1AXI sing 8 n n N1 C5 A1AXI sing 9 n n C5 C10 A1AXI sing 10 n n C5 C6 A1AXI sing 11 n n C8 C7 A1AXI sing 12 n n C8 C9 A1AXI sing 13 n n C7 C6 A1AXI sing 14 n n C16 C17 A1AXI sing 15 n n C16 C15 A1AXI sing 16 n n N2 C10 A1AXI sing 17 n n N2 C11 A1AXI sing 18 n n C12 C11 A1AXI sing 19 n n C12 C13 A1AXI sing 20 n n C14 C13 A1AXI sing 21 n n C14 C15 A1AXI sing 22 n n C10 O5 A1AXI doub 23 n n C6 C9 A1AXI sing 24 n n C17 C18 A1AXI sing 25 n n C18 N3 A1AXI sing 26 n n N1 H1 A1AXI sing 27 n n N3 H2 A1AXI sing 28 n n N3 H3 A1AXI sing 29 n n C5 H5 A1AXI sing 30 n n C6 H6 A1AXI sing 31 n n C7 H7 A1AXI sing 32 n n C7 H8 A1AXI sing 33 n n C8 H9 A1AXI sing 34 n n C8 H10 A1AXI sing 35 n n C13 H11 A1AXI sing 36 n n C13 H12 A1AXI sing 37 n n C15 H13 A1AXI sing 38 n n C15 H14 A1AXI sing 39 n n C17 H15 A1AXI sing 40 n n C17 H16 A1AXI sing 41 n n C11 H17 A1AXI sing 42 n n C11 H18 A1AXI sing 43 n n C12 H19 A1AXI sing 44 n n C12 H20 A1AXI sing 45 n n C14 H21 A1AXI sing 46 n n C14 H22 A1AXI sing 47 n n C16 H23 A1AXI sing 48 n n C16 H24 A1AXI sing 49 n n C18 H25 A1AXI sing 50 n n C18 H26 A1AXI sing 51 n n C2 H27 A1AXI sing 52 n n C2 H28 A1AXI sing 53 n n C3 H29 A1AXI sing 54 n n C9 H30 A1AXI sing 55 n n C9 H31 A1AXI sing 56 n n N2 H32 A1AXI sing 57 n n O1 H33 A1AXI sing 58 n n O3 H34 A1AXI sing 59 n n # _atom_sites.entry_id 9NAY _atom_sites.fract_transf_matrix[1][1] 0.023697 _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] 0.0205 _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] 0.00999 _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 A1AXI A 1 301 301 A1AXI A65 . C 3 HOH A 1 401 5 HOH HOH . C 3 HOH A 2 402 1 HOH HOH . C 3 HOH A 3 403 6 HOH HOH . C 3 HOH A 4 404 3 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 N N1 A1AXI . . . B 2 0.782 11.765 19.555 0.75 43.51 ? N1 A1AXI 301 A 1 HETATM 2 N N3 A1AXI . . . B 2 -8.597 15.935 23.883 0.75 43.51 ? N3 A1AXI 301 A 1 HETATM 3 C C4 A1AXI . . . B 2 0.34 11.854 18.288 0.75 43.51 ? C4 A1AXI 301 A 1 HETATM 4 C C5 A1AXI . . . B 2 0.159 10.717 20.362 0.75 43.51 ? C5 A1AXI 301 A 1 HETATM 5 C C6 A1AXI . . . B 2 0.986 9.785 21.238 0.75 43.51 ? C6 A1AXI 301 A 1 HETATM 6 C C7 A1AXI . . . B 2 1.839 8.765 20.476 0.75 43.51 ? C7 A1AXI 301 A 1 HETATM 7 C C8 A1AXI . . . B 2 2.978 9.782 20.563 0.75 43.51 ? C8 A1AXI 301 A 1 HETATM 8 C C10 A1AXI . . . B 2 -1.072 11.192 21.135 0.75 43.51 ? C10 A1AXI 301 A 1 HETATM 9 C C13 A1AXI . . . B 2 -5.674 11.969 21.308 0.75 43.51 ? C13 A1AXI 301 A 1 HETATM 10 C C15 A1AXI . . . B 2 -7.259 13.673 20.089 0.75 43.51 ? C15 A1AXI 301 A 1 HETATM 11 C C17 A1AXI . . . B 2 -8.876 15.18 21.472 0.75 43.51 ? C17 A1AXI 301 A 1 HETATM 12 C C1 A1AXI . . . B 2 2.733 13.911 15.995 0.75 43.51 ? C1 A1AXI 301 A 1 HETATM 13 C C11 A1AXI . . . B 2 -3.502 10.683 21.489 0.75 43.51 ? C11 A1AXI 301 A 1 HETATM 14 C C12 A1AXI . . . B 2 -4.224 11.861 20.848 0.75 43.51 ? C12 A1AXI 301 A 1 HETATM 15 C C14 A1AXI . . . B 2 -6.254 13.374 21.197 0.75 43.51 ? C14 A1AXI 301 A 1 HETATM 16 C C16 A1AXI . . . B 2 -8.689 14.011 20.505 0.75 43.51 ? C16 A1AXI 301 A 1 HETATM 17 C C18 A1AXI . . . B 2 -8.667 14.813 22.931 0.75 43.51 ? C18 A1AXI 301 A 1 HETATM 18 C C2 A1AXI . . . B 2 2.279 12.913 17.047 0.75 43.51 ? C2 A1AXI 301 A 1 HETATM 19 C C3 A1AXI . . . B 2 0.801 13.034 17.429 0.75 43.51 ? C3 A1AXI 301 A 1 HETATM 20 C C9 A1AXI . . . B 2 2.295 10.308 21.831 0.75 43.51 ? C9 A1AXI 301 A 1 HETATM 21 N N2 A1AXI . . . B 2 -2.174 10.46 20.935 0.75 43.51 ? N2 A1AXI 301 A 1 HETATM 22 O O1 A1AXI . . . B 2 2.209 13.858 14.86 0.75 43.51 ? O1 A1AXI 301 A 1 HETATM 23 O O2 A1AXI . . . B 2 3.621 14.743 16.294 0.75 43.51 ? O2 A1AXI 301 A 1 HETATM 24 O O3 A1AXI . . . B 2 0.524 14.273 18.063 0.75 43.51 ? O3 A1AXI 301 A 1 HETATM 25 O O4 A1AXI . . . B 2 -0.427 11.032 17.804 0.75 43.51 ? O4 A1AXI 301 A 1 HETATM 26 O O5 A1AXI . . . B 2 -1.016 12.153 21.912 0.75 43.51 ? O5 A1AXI 301 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 341 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 26 #