data_1W8B # _model_server_result.job_id WXJiQ7d-3n-hvZs_MSFgLA _model_server_result.datetime_utc '2024-12-26 19:39:24' _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 1w8b # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1259}' # _entry.id 1W8B # _exptl.entry_id 1W8B _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 538.594 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(S)-[(R)-2-(4-BENZYLOXY-3-METHOXY-PHENYL)-2-(4-CARBAMIMIDOYL-PHENYLAMINO)-ACETYLAMINO]-PHENYL-ACETIC 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 1W8B _cell.length_a 82.846 _cell.length_b 82.846 _cell.length_c 147.768 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1W8B _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 43 21 2' # _pdbx_struct_assembly.method_details PQS _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,D,E,F _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 4 _struct_asym.id D _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 7 H CYS 22 1_555 A SG CYS 12 H CYS 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf2 A SG CYS 26 H CYS 42 1_555 A SG CYS 42 H CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? disulf ? disulf3 A SG CYS 110 H CYS 122 1_555 B SG CYS 48 L CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf4 A SG CYS 158 H CYS 168 1_555 A SG CYS 177 H CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf5 A SG CYS 188 H CYS 191 1_555 A SG CYS 216 H CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf6 B SG CYS 4 L CYS 91 1_555 B SG CYS 15 L CYS 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf7 B SG CYS 11 L CYS 98 1_555 B SG CYS 25 L CYS 112 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf8 B SG CYS 27 L CYS 114 1_555 B SG CYS 40 L CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? metalc ? metalc1 A OE1 GLU 58 H GLU 70 1_555 C CA CA . H CA 1258 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.32 ? metalc ? metalc2 A O ASP 60 H ASP 72 1_555 C CA CA . H CA 1258 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.551 ? metalc ? metalc3 A O GLU 63 H GLU 75 1_555 C CA CA . H CA 1258 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.213 ? metalc ? metalc4 A OE2 GLU 68 H GLU 80 1_555 C CA CA . H CA 1258 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.317 ? metalc ? metalc5 C CA CA . H CA 1258 1_555 E O HOH . H HOH 2013 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.443 ? # _chem_comp.formula 'C31 H30 N4 O5' _chem_comp.formula_weight 538.594 _chem_comp.id 413 _chem_comp.mon_nstd_flag . _chem_comp.name '(S)-[(R)-2-(4-BENZYLOXY-3-METHOXY-PHENYL)-2-(4-CARBAMIMIDOYL-PHENYLAMINO)-ACETYLAMINO]-PHENYL-ACETIC 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 O31 C31 413 doub 1 n n C31 N4 413 sing 2 n n C31 C8 413 sing 3 n n N4 C23 413 sing 4 n n N4 H4 413 sing 5 n n C23 C24 413 sing 6 n n C23 C30 413 sing 7 n n C23 H23 413 sing 8 n n C24 C25 413 doub 9 n y C24 C29 413 sing 10 n y C25 C26 413 sing 11 n y C25 H25 413 sing 12 n n C26 C27 413 doub 13 n y C26 H26 413 sing 14 n n C27 C28 413 sing 15 n y C27 H27 413 sing 16 n n C28 C29 413 doub 17 n y C28 H28 413 sing 18 n n C29 H29 413 sing 19 n n C30 O30 413 doub 20 n n C30 O40 413 sing 21 n n O40 H40 413 sing 22 n n C8 N3 413 sing 23 n n C8 C9 413 sing 24 n n C8 H8 413 sing 25 n n N3 C5 413 sing 26 n n N3 H3 413 sing 27 n n C5 C4 413 doub 28 n y C5 C6 413 sing 29 n y C4 C3 413 sing 30 n y C4 HA 413 sing 31 n n C3 C2 413 doub 32 n y C3 HB 413 sing 33 n n C6 C7 413 doub 34 n y C6 H6 413 sing 35 n n C7 C2 413 sing 36 n y C7 H7 413 sing 37 n n C2 C1 413 sing 38 n n C1 N2 413 doub 39 n n C1 N1 413 sing 40 n n N2 HN2 413 sing 41 n n N1 H1N1 413 sing 42 n n N1 H1N2 413 sing 43 n n C9 C14 413 doub 44 n y C9 C10 413 sing 45 n y C14 C13 413 sing 46 n y C14 H14 413 sing 47 n n C13 O3 413 sing 48 n n C13 C12 413 doub 49 n y O3 C15 413 sing 50 n n C15 H151 413 sing 51 n n C15 H152 413 sing 52 n n C15 H153 413 sing 53 n n C12 C11 413 sing 54 n y C12 O4 413 sing 55 n n C11 C10 413 doub 56 n y C11 H11 413 sing 57 n n C10 H10 413 sing 58 n n O4 C16 413 sing 59 n n C16 C17 413 sing 60 n n C16 H161 413 sing 61 n n C16 H162 413 sing 62 n n C17 C22 413 doub 63 n y C17 C18 413 sing 64 n y C22 C21 413 sing 65 n y C22 H22 413 sing 66 n n C21 C20 413 doub 67 n y C21 H21 413 sing 68 n n C20 C19 413 sing 69 n y C20 H20 413 sing 70 n n C19 C18 413 doub 71 n y C19 H19 413 sing 72 n n C18 H18 413 sing 73 n n # _atom_sites.entry_id 1W8B _atom_sites.fract_transf_matrix[1][1] 0.012071 _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] 0.012071 _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] 0.006767 _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 3 CA H 1 1258 1258 CA CA . D 4 413 H 1 1259 1259 413 413 . E 5 HOH H 1 2001 2001 HOH HOH . E 5 HOH H 2 2002 2002 HOH HOH . E 5 HOH H 3 2003 2003 HOH HOH . E 5 HOH H 4 2004 2004 HOH HOH . E 5 HOH H 5 2005 2005 HOH HOH . E 5 HOH H 6 2006 2006 HOH HOH . E 5 HOH H 7 2007 2007 HOH HOH . E 5 HOH H 8 2008 2008 HOH HOH . E 5 HOH H 9 2009 2009 HOH HOH . E 5 HOH H 10 2010 2010 HOH HOH . E 5 HOH H 11 2011 2011 HOH HOH . E 5 HOH H 12 2012 2012 HOH HOH . E 5 HOH H 13 2013 2013 HOH HOH . E 5 HOH H 14 2014 2014 HOH HOH . E 5 HOH H 15 2015 2015 HOH HOH . E 5 HOH H 16 2016 2016 HOH HOH . E 5 HOH H 17 2017 2017 HOH HOH . E 5 HOH H 18 2018 2018 HOH HOH . E 5 HOH H 19 2019 2019 HOH HOH . E 5 HOH H 20 2020 2020 HOH HOH . E 5 HOH H 21 2021 2021 HOH HOH . E 5 HOH H 22 2022 2022 HOH HOH . E 5 HOH H 23 2023 2023 HOH HOH . E 5 HOH H 24 2024 2024 HOH HOH . E 5 HOH H 25 2025 2025 HOH HOH . E 5 HOH H 26 2026 2026 HOH HOH . E 5 HOH H 27 2027 2027 HOH HOH . E 5 HOH H 28 2028 2028 HOH HOH . E 5 HOH H 29 2029 2029 HOH HOH . E 5 HOH H 30 2030 2030 HOH HOH . E 5 HOH H 31 2031 2031 HOH HOH . E 5 HOH H 32 2032 2032 HOH HOH . E 5 HOH H 33 2033 2033 HOH HOH . E 5 HOH H 34 2034 2034 HOH HOH . E 5 HOH H 35 2035 2035 HOH HOH . E 5 HOH H 36 2036 2036 HOH HOH . E 5 HOH H 37 2037 2037 HOH HOH . E 5 HOH H 38 2038 2038 HOH HOH . E 5 HOH H 39 2039 2039 HOH HOH . E 5 HOH H 40 2040 2040 HOH HOH . E 5 HOH H 41 2041 2041 HOH HOH . E 5 HOH H 42 2042 2042 HOH HOH . E 5 HOH H 43 2043 2043 HOH HOH . E 5 HOH H 44 2044 2044 HOH HOH . E 5 HOH H 45 2045 2045 HOH HOH . E 5 HOH H 46 2046 2046 HOH HOH . E 5 HOH H 47 2047 2047 HOH HOH . E 5 HOH H 48 2048 2048 HOH HOH . F 5 HOH L 1 2001 2001 HOH HOH . F 5 HOH L 2 2002 2002 HOH HOH . F 5 HOH L 3 2003 2003 HOH HOH . F 5 HOH L 4 2004 2004 HOH HOH . F 5 HOH L 5 2005 2005 HOH HOH . F 5 HOH L 6 2006 2006 HOH HOH . F 5 HOH L 7 2007 2007 HOH HOH . F 5 HOH L 8 2008 2008 HOH HOH . F 5 HOH L 9 2009 2009 HOH HOH . F 5 HOH L 10 2010 2010 HOH HOH . F 5 HOH L 11 2011 2011 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 O31 413 . . . D 4 12.981 35.826 52.852 1 11.49 ? O31 413 1259 H 1 HETATM 2 C C31 413 . . . D 4 13.874 35.318 52.196 1 12.24 ? C31 413 1259 H 1 HETATM 3 N N4 413 . . . D 4 14.491 35.974 51.221 1 12.48 ? N4 413 1259 H 1 HETATM 4 C C23 413 . . . D 4 14.128 37.341 50.903 1 13.44 ? C23 413 1259 H 1 HETATM 5 C C24 413 . . . D 4 14.81 38.194 51.907 1 13.5 ? C24 413 1259 H 1 HETATM 6 C C25 413 . . . D 4 16.125 37.921 52.287 1 13.16 ? C25 413 1259 H 1 HETATM 7 C C26 413 . . . D 4 16.763 38.713 53.237 1 13.02 ? C26 413 1259 H 1 HETATM 8 C C27 413 . . . D 4 16.08 39.778 53.819 1 13.25 ? C27 413 1259 H 1 HETATM 9 C C28 413 . . . D 4 14.763 40.053 53.451 1 13.8 ? C28 413 1259 H 1 HETATM 10 C C29 413 . . . D 4 14.127 39.259 52.495 1 14.07 ? C29 413 1259 H 1 HETATM 11 C C30 413 . . . D 4 14.478 37.745 49.497 1 14.57 ? C30 413 1259 H 1 HETATM 12 O O30 413 . . . D 4 15.404 37.142 48.907 1 14.42 ? O30 413 1259 H 1 HETATM 13 O O40 413 . . . D 4 13.816 38.674 48.966 1 15.59 ? O40 413 1259 H 1 HETATM 14 C C8 413 . . . D 4 14.371 33.918 52.46 1 12.52 ? C8 413 1259 H 1 HETATM 15 N N3 413 . . . D 4 13.517 33.125 53.333 1 12.01 ? N3 413 1259 H 1 HETATM 16 C C5 413 . . . D 4 13.547 31.764 53.381 1 11.98 ? C5 413 1259 H 1 HETATM 17 C C4 413 . . . D 4 14.276 30.997 52.468 1 12.15 ? C4 413 1259 H 1 HETATM 18 C C3 413 . . . D 4 14.288 29.605 52.547 1 11.71 ? C3 413 1259 H 1 HETATM 19 C C6 413 . . . D 4 12.829 31.106 54.372 1 11.74 ? C6 413 1259 H 1 HETATM 20 C C7 413 . . . D 4 12.844 29.717 54.448 1 11.55 ? C7 413 1259 H 1 HETATM 21 C C2 413 . . . D 4 13.572 28.958 53.543 1 11.43 ? C2 413 1259 H 1 HETATM 22 C C1 413 . . . D 4 13.571 27.459 53.652 1 11.66 ? C1 413 1259 H 1 HETATM 23 N N2 413 . . . D 4 12.874 26.878 54.616 1 11.72 ? N2 413 1259 H 1 HETATM 24 N N1 413 . . . D 4 14.245 26.695 52.799 1 11.73 ? N1 413 1259 H 1 HETATM 25 C C9 413 . . . D 4 15.73 34.086 53.03 1 12.63 ? C9 413 1259 H 1 HETATM 26 C C14 413 . . . D 4 15.931 34.799 54.213 1 13.04 ? C14 413 1259 H 1 HETATM 27 C C13 413 . . . D 4 17.224 34.971 54.71 1 12.8 ? C13 413 1259 H 1 HETATM 28 O O3 413 . . . D 4 17.494 35.649 55.868 1 12.5 ? O3 413 1259 H 1 HETATM 29 C C15 413 . . . D 4 16.482 36.241 56.665 1 12.74 ? C15 413 1259 H 1 HETATM 30 C C12 413 . . . D 4 18.302 34.443 54.035 1 12.93 ? C12 413 1259 H 1 HETATM 31 C C11 413 . . . D 4 18.114 33.737 52.851 1 12.88 ? C11 413 1259 H 1 HETATM 32 C C10 413 . . . D 4 16.827 33.567 52.348 1 12.88 ? C10 413 1259 H 1 HETATM 33 O O4 413 . . . D 4 19.535 34.648 54.587 1 13.45 ? O4 413 1259 H 1 HETATM 34 C C16 413 . . . D 4 20.757 34.273 53.965 1 15.85 ? C16 413 1259 H 1 HETATM 35 C C17 413 . . . D 4 21.868 35.109 54.548 1 16.54 ? C17 413 1259 H 1 HETATM 36 C C22 413 . . . D 4 23.122 34.54 54.765 1 17.55 ? C22 413 1259 H 1 HETATM 37 C C21 413 . . . D 4 24.16 35.302 55.3 1 17.7 ? C21 413 1259 H 1 HETATM 38 C C20 413 . . . D 4 23.934 36.64 55.616 1 17.46 ? C20 413 1259 H 1 HETATM 39 C C19 413 . . . D 4 22.677 37.211 55.405 1 17.52 ? C19 413 1259 H 1 HETATM 40 C C18 413 . . . D 4 21.643 36.446 54.868 1 17.21 ? C18 413 1259 H 1 # _model_server_stats.io_time_ms 60 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 304 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 40 #