data_2XD1 # _model_server_result.job_id Jxy2LjYsZNga2MUjwAr0oQ _model_server_result.datetime_utc '2024-10-09 23:23:55' _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 2xd1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":1460}' # _entry.id 2XD1 # _exptl.entry_id 2XD1 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 397.429 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "CEFOTAXIME,C3' cleaved,open,bound form" _entity.pdbx_number_of_molecules 2 _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 2XD1 _cell.length_a 96.6 _cell.length_b 102.3 _cell.length_c 146.5 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2XD1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,G 1 1 B,E,F,H 2 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 E N 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 covale ? covale1 A OG SER 163 A SER 460 1_555 C C8 CEF . A CEF 1460 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.424 ? covale ? covale2 B OG SER 163 B SER 460 1_555 E C8 CEF . B CEF 1460 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.421 ? # _chem_comp.formula 'C14 H15 N5 O5 S2' _chem_comp.formula_weight 397.429 _chem_comp.id CEF _chem_comp.mon_nstd_flag . _chem_comp.name "CEFOTAXIME, C3' cleaved, open, bound form" _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 S1 C1 CEF sing 70 n n S1 C6 CEF sing 71 n n C1 C2 CEF sing 72 n n C1 H1 CEF sing 73 n n C1 H2 CEF sing 74 n n C2 C3 CEF doub 75 n n C2 C4 CEF sing 76 n n C3 H3 CEF sing 77 n n C3 H4 CEF sing 78 n n C4 C5 CEF sing 79 n n C4 N1 CEF doub 80 n n C5 O1 CEF doub 81 n n C5 O2 CEF sing 82 n n O2 H5 CEF sing 83 n n N1 C6 CEF sing 84 n n C6 C7 CEF sing 85 n n C6 H6 CEF sing 86 n n C7 C8 CEF sing 87 n n C7 N2 CEF sing 88 n n C7 H7 CEF sing 89 n n C8 O3 CEF doub 90 n n C8 H8 CEF sing 91 n n N2 C9 CEF sing 92 n n N2 H9 CEF sing 93 n n C9 O4 CEF doub 94 n n C9 C10 CEF sing 95 n n C10 N3 CEF doub 96 z n C10 C12 CEF sing 97 n n N3 O5 CEF sing 98 n n O5 C11 CEF sing 99 n n C11 H10 CEF sing 100 n n C11 H11 CEF sing 101 n n C11 H12 CEF sing 102 n n C12 C13 CEF doub 103 n y C12 N5 CEF sing 104 n y C13 S2 CEF sing 105 n y C13 H13 CEF sing 106 n n S2 C14 CEF sing 107 n y C14 N4 CEF sing 108 n n C14 N5 CEF doub 109 n y N4 H14 CEF sing 110 n n N4 H15 CEF sing 111 n n # _atom_sites.entry_id 2XD1 _atom_sites.fract_transf_matrix[1][1] 0.010352 _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] 0.009775 _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] 0.006826 _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 2 CEF A 1 1460 1460 CEF CEF . D 3 SO4 A 1 1790 1790 SO4 SO4 . E 2 CEF B 1 1460 1460 CEF CEF . F 3 SO4 B 1 1790 1790 SO4 SO4 . G 4 HOH A 1 2001 2001 HOH HOH . G 4 HOH A 2 2002 2002 HOH HOH . G 4 HOH A 3 2003 2003 HOH HOH . G 4 HOH A 4 2004 2004 HOH HOH . G 4 HOH A 5 2005 2005 HOH HOH . G 4 HOH A 6 2006 2006 HOH HOH . G 4 HOH A 7 2007 2007 HOH HOH . G 4 HOH A 8 2008 2008 HOH HOH . G 4 HOH A 9 2009 2009 HOH HOH . G 4 HOH A 10 2010 2010 HOH HOH . G 4 HOH A 11 2011 2011 HOH HOH . G 4 HOH A 12 2012 2012 HOH HOH . G 4 HOH A 13 2013 2013 HOH HOH . G 4 HOH A 14 2014 2014 HOH HOH . G 4 HOH A 15 2015 2015 HOH HOH . G 4 HOH A 16 2016 2016 HOH HOH . G 4 HOH A 17 2017 2017 HOH HOH . G 4 HOH A 18 2018 2018 HOH HOH . G 4 HOH A 19 2019 2019 HOH HOH . G 4 HOH A 20 2020 2020 HOH HOH . G 4 HOH A 21 2021 2021 HOH HOH . G 4 HOH A 22 2022 2022 HOH HOH . G 4 HOH A 23 2023 2023 HOH HOH . G 4 HOH A 24 2024 2024 HOH HOH . G 4 HOH A 25 2025 2025 HOH HOH . G 4 HOH A 26 2026 2026 HOH HOH . G 4 HOH A 27 2027 2027 HOH HOH . G 4 HOH A 28 2028 2028 HOH HOH . G 4 HOH A 29 2029 2029 HOH HOH . G 4 HOH A 30 2030 2030 HOH HOH . G 4 HOH A 31 2031 2031 HOH HOH . G 4 HOH A 32 2032 2032 HOH HOH . G 4 HOH A 33 2033 2033 HOH HOH . G 4 HOH A 34 2034 2034 HOH HOH . G 4 HOH A 35 2035 2035 HOH HOH . G 4 HOH A 36 2036 2036 HOH HOH . G 4 HOH A 37 2037 2037 HOH HOH . G 4 HOH A 38 2038 2038 HOH HOH . G 4 HOH A 39 2039 2039 HOH HOH . G 4 HOH A 40 2040 2040 HOH HOH . G 4 HOH A 41 2041 2041 HOH HOH . G 4 HOH A 42 2042 2042 HOH HOH . G 4 HOH A 43 2043 2043 HOH HOH . G 4 HOH A 44 2044 2044 HOH HOH . H 4 HOH B 1 2001 2001 HOH HOH . H 4 HOH B 2 2002 2002 HOH HOH . H 4 HOH B 3 2003 2003 HOH HOH . H 4 HOH B 4 2004 2004 HOH HOH . H 4 HOH B 5 2005 2005 HOH HOH . H 4 HOH B 6 2006 2006 HOH HOH . H 4 HOH B 7 2007 2007 HOH HOH . H 4 HOH B 8 2008 2008 HOH HOH . H 4 HOH B 9 2009 2009 HOH HOH . H 4 HOH B 10 2010 2010 HOH HOH . H 4 HOH B 11 2011 2011 HOH HOH . H 4 HOH B 12 2012 2012 HOH HOH . H 4 HOH B 13 2013 2013 HOH HOH . H 4 HOH B 14 2014 2014 HOH HOH . H 4 HOH B 15 2015 2015 HOH HOH . H 4 HOH B 16 2016 2016 HOH HOH . H 4 HOH B 17 2017 2017 HOH HOH . H 4 HOH B 18 2018 2018 HOH HOH . H 4 HOH B 19 2019 2019 HOH HOH . H 4 HOH B 20 2020 2020 HOH HOH . H 4 HOH B 21 2021 2021 HOH HOH . H 4 HOH B 22 2022 2022 HOH HOH . H 4 HOH B 23 2023 2023 HOH HOH . H 4 HOH B 24 2024 2024 HOH HOH . H 4 HOH B 25 2025 2025 HOH HOH . H 4 HOH B 26 2026 2026 HOH HOH . H 4 HOH B 27 2027 2027 HOH HOH . H 4 HOH B 28 2028 2028 HOH HOH . H 4 HOH B 29 2029 2029 HOH HOH . H 4 HOH B 30 2030 2030 HOH HOH . H 4 HOH B 31 2031 2031 HOH HOH . H 4 HOH B 32 2032 2032 HOH HOH . H 4 HOH B 33 2033 2033 HOH HOH . H 4 HOH B 34 2034 2034 HOH HOH . H 4 HOH B 35 2035 2035 HOH HOH . H 4 HOH B 36 2036 2036 HOH HOH . H 4 HOH B 37 2037 2037 HOH HOH . H 4 HOH B 38 2038 2038 HOH HOH . H 4 HOH B 39 2039 2039 HOH HOH . H 4 HOH B 40 2040 2040 HOH HOH . H 4 HOH B 41 2041 2041 HOH HOH . H 4 HOH B 42 2042 2042 HOH HOH . H 4 HOH B 43 2043 2043 HOH HOH . H 4 HOH B 44 2044 2044 HOH HOH . H 4 HOH B 45 2045 2045 HOH HOH . H 4 HOH B 46 2046 2046 HOH HOH . H 4 HOH B 47 2047 2047 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 S S1 CEF . . . E 2 10.634 32.131 64.536 1 41.8 ? S1 CEF 1460 B 1 HETATM 2 C C1 CEF . . . E 2 11.51 31.114 63.415 1 38.13 ? C1 CEF 1460 B 1 HETATM 3 C C2 CEF . . . E 2 12.453 31.949 62.551 1 39.24 ? C2 CEF 1460 B 1 HETATM 4 C C3 CEF . . . E 2 13.656 31.142 62.091 1 31.38 ? C3 CEF 1460 B 1 HETATM 5 C C4 CEF . . . E 2 12.213 33.294 62.251 1 39.46 ? C4 CEF 1460 B 1 HETATM 6 C C5 CEF . . . E 2 12.774 33.949 61.027 1 40.05 ? C5 CEF 1460 B 1 HETATM 7 O O1 CEF . . . E 2 12.572 33.416 59.878 1 40.91 ? O1 CEF 1460 B 1 HETATM 8 O O2 CEF . . . E 2 13.415 35.056 61.166 1 40.09 ? O2 CEF 1460 B 1 HETATM 9 N N1 CEF . . . E 2 11.435 34.103 63.046 1 38.28 ? N1 CEF 1460 B 1 HETATM 10 C C6 CEF . . . E 2 11.145 33.807 64.42 1 35.77 ? C6 CEF 1460 B 1 HETATM 11 C C7 CEF . . . E 2 10.025 34.669 64.9 1 33.62 ? C7 CEF 1460 B 1 HETATM 12 C C8 CEF . . . E 2 10.207 35.937 64.158 1 35.7 ? C8 CEF 1460 B 1 HETATM 13 O O3 CEF . . . E 2 9.384 36.326 63.377 1 44.84 ? O3 CEF 1460 B 1 HETATM 14 N N2 CEF . . . E 2 8.716 34.138 64.562 1 35.05 ? N2 CEF 1460 B 1 HETATM 15 C C9 CEF . . . E 2 7.641 34.292 65.37 1 35.38 ? C9 CEF 1460 B 1 HETATM 16 O O4 CEF . . . E 2 7.672 34.747 66.445 1 36.98 ? O4 CEF 1460 B 1 HETATM 17 C C10 CEF . . . E 2 6.285 33.814 65.146 1 38.02 ? C10 CEF 1460 B 1 HETATM 18 N N3 CEF . . . E 2 6.197 32.624 64.321 1 43.14 ? N3 CEF 1460 B 1 HETATM 19 O O5 CEF . . . E 2 6.788 31.335 64.784 1 54.36 ? O5 CEF 1460 B 1 HETATM 20 C C11 CEF . . . E 2 7.338 30.185 64.003 1 53.99 ? C11 CEF 1460 B 1 HETATM 21 C C12 CEF . . . E 2 5.359 34.943 64.846 1 38.45 ? C12 CEF 1460 B 1 HETATM 22 C C13 CEF . . . E 2 5.795 36.274 65.007 1 39.83 ? C13 CEF 1460 B 1 HETATM 23 S S2 CEF . . . E 2 4.395 37.336 64.648 1 42.39 ? S2 CEF 1460 B 1 HETATM 24 C C14 CEF . . . E 2 3.424 36.002 64.315 1 38.48 ? C14 CEF 1460 B 1 HETATM 25 N N4 CEF . . . E 2 2.144 36.125 63.972 1 42.72 ? N4 CEF 1460 B 1 HETATM 26 N N5 CEF . . . E 2 4.048 34.84 64.464 1 39.44 ? N5 CEF 1460 B 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 299 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 26 #