data_2ZC5 # _model_server_result.job_id AoRqgRsVwoCNJTeIRqVxhQ _model_server_result.datetime_utc '2024-12-02 07:54:49' _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 2zc5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":701}' # _entry.id 2ZC5 # _exptl.entry_id 2ZC5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 352.409 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(4R,5S)-3-(6,7-dihydro-5H-pyrazolo[1,2-a][1,2,4]triazol-4-ium-6-ylsulfanyl)-5-[(1S,2R)-1-formyl-2-hydroxypropyl]-4-meth yl-4,5-dihydro-1H-pyrrole-2-carboxylate' _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 2ZC5 _cell.length_a 185.704 _cell.length_b 50.665 _cell.length_c 110.784 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2ZC5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # 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 dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 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,B,E,F,G,H,I,O 1 1 C,D,J,K,L,M,N,P 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 ? 4 I N N ? 4 N 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 B OG SER 107 B SER 370 1_555 I C7 BMG . B BMG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.361 ? covale ? covale2 D OG SER 107 D SER 370 1_555 N C7 BMG . D BMG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.362 ? metalc ? metalc1 B ND1 HIS 46 B HIS 309 1_555 E ZN ZN . B ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? metalc ? metalc2 B ND1 HIS 132 B HIS 395 1_555 F ZN ZN . B ZN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.111 ? metalc ? metalc3 B OE1 GLU 172 B GLU 435 1_555 F ZN ZN . B ZN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.893 ? metalc ? metalc4 B ND1 HIS 197 B HIS 460 1_555 G ZN ZN . B ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? metalc ? metalc5 D ND1 HIS 46 D HIS 309 1_555 J ZN ZN . D ZN 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.2 ? metalc ? metalc6 D OE2 GLU 55 D GLU 318 1_555 M ZN ZN . D ZN 808 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.318 ? metalc ? metalc7 D OH TYR 56 D TYR 319 1_555 M ZN ZN . D ZN 808 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.194 ? metalc ? metalc8 D ND1 HIS 132 D HIS 395 1_555 K ZN ZN . D ZN 806 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? metalc ? metalc9 D OE2 GLU 172 D GLU 435 1_555 K ZN ZN . D ZN 806 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.802 ? metalc ? metalc10 D ND1 HIS 197 D HIS 460 1_555 L ZN ZN . D ZN 807 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.157 ? # _chem_comp.formula 'C15 H20 N4 O4 S' _chem_comp.formula_weight 352.409 _chem_comp.id BMG _chem_comp.mon_nstd_flag . _chem_comp.name '(4R,5S)-3-(6,7-dihydro-5H-pyrazolo[1,2-a][1,2,4]triazol-4-ium-6-ylsulfanyl)-5-[(1S,2R)-1-formyl-2-hydroxypropyl]-4-meth yl-4,5-dihydro-1H-pyrrole-2-carboxylate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '(4R,5S)-3-(6,7-dihydro-5H-pyrazolo[1,2-a][1,2,4]triazol-4-ium-6-ylthio)-5-((2S,3R)-3-hydroxy-1-oxobutan-2-yl)-4- methyl-4,5-dihydro-1H-pyrrole-2-carboxylate' # 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 C9 C8 BMG sing 70 n n C10 C1 BMG sing 71 n n O15 C8 BMG sing 72 n n C8 C6 BMG sing 73 n n C6 C5 BMG sing 74 n n C6 C7 BMG sing 75 n n C1 C5 BMG sing 76 n n C1 C2 BMG sing 77 n n S16 C2 BMG sing 78 n n S16 C17 BMG sing 79 n n C18 C17 BMG sing 80 n n C18 N19 BMG sing 81 n n O14 C7 BMG doub 82 n n C5 N4 BMG sing 83 n n C2 C3 BMG doub 84 n n C17 C24 BMG sing 85 n n N19 C20 BMG doub 86 n y N19 N23 BMG sing 87 n y C20 N21 BMG sing 88 n y C3 N4 BMG sing 89 n n C3 C11 BMG sing 90 n n C24 N23 BMG sing 91 n n N23 C22 BMG sing 92 n y O12 C11 BMG doub 93 n n N21 C22 BMG doub 94 n y C11 O13 BMG sing 95 n n C1 H1 BMG sing 96 n n C5 H5 BMG sing 97 n n C6 H6 BMG sing 98 n n C7 H7 BMG sing 99 n n C8 H8 BMG sing 100 n n C17 H17 BMG sing 101 n n C18 H18 BMG sing 102 n n C18 H18A BMG sing 103 n n C20 H20 BMG sing 104 n n C22 H22 BMG sing 105 n n C9 H9 BMG sing 106 n n C9 H9A BMG sing 107 n n C9 H9B BMG sing 108 n n O15 HO15 BMG sing 109 n n C10 H10 BMG sing 110 n n C10 H10A BMG sing 111 n n C10 H10B BMG sing 112 n n N4 HN4 BMG sing 113 n n C24 H24 BMG sing 114 n n C24 H24A BMG sing 115 n n # _atom_sites.entry_id 2ZC5 _atom_sites.fract_transf_matrix[1][1] 0.005385 _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] 0.019737 _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] 0.009027 _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 E 3 ZN B 1 801 801 ZN ZN . F 3 ZN B 1 802 802 ZN ZN . G 3 ZN B 1 803 803 ZN ZN . H 3 ZN B 1 804 804 ZN ZN . I 4 BMG B 1 701 701 BMG BIM . J 3 ZN D 1 805 805 ZN ZN . K 3 ZN D 1 806 806 ZN ZN . L 3 ZN D 1 807 807 ZN ZN . M 3 ZN D 1 808 808 ZN ZN . N 4 BMG D 1 701 701 BMG BIM . O 5 HOH B 1 901 901 HOH HOH . O 5 HOH B 2 902 902 HOH HOH . O 5 HOH B 3 903 903 HOH HOH . O 5 HOH B 4 904 904 HOH HOH . P 5 HOH D 1 905 905 HOH HOH . P 5 HOH D 2 906 906 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 C C1 BMG . . . I 4 11.921 16.706 8.576 1 55.25 ? C1 BMG 701 B 1 HETATM 2 C C3 BMG . . . I 4 13.684 16.543 7.017 1 56.52 ? C3 BMG 701 B 1 HETATM 3 C C5 BMG . . . I 4 12.6 15.282 8.691 1 53.32 ? C5 BMG 701 B 1 HETATM 4 C C6 BMG . . . I 4 13.37 14.954 10.001 1 50.55 ? C6 BMG 701 B 1 HETATM 5 C C7 BMG . . . I 4 14.745 14.41 9.742 1 47.76 ? C7 BMG 701 B 1 HETATM 6 C C8 BMG . . . I 4 12.609 13.968 10.907 1 50.77 ? C8 BMG 701 B 1 HETATM 7 C C11 BMG . . . I 4 14.87 16.692 6.023 1 57.21 ? C11 BMG 701 B 1 HETATM 8 C C17 BMG . . . I 4 11.79 18.847 5.401 1 62.31 ? C17 BMG 701 B 1 HETATM 9 C C18 BMG . . . I 4 10.614 19.851 5.243 1 63.57 ? C18 BMG 701 B 1 HETATM 10 C C20 BMG . . . I 4 9.505 19.75 2.816 1 65.03 ? C20 BMG 701 B 1 HETATM 11 C C22 BMG . . . I 4 11.351 19.187 1.892 1 65.26 ? C22 BMG 701 B 1 HETATM 12 C C9 BMG . . . I 4 13.333 13.653 12.224 1 51.09 ? C9 BMG 701 B 1 HETATM 13 O O14 BMG . . . I 4 15.769 14.935 10.116 1 47.51 ? O14 BMG 701 B 1 HETATM 14 O O15 BMG . . . I 4 11.34 14.59 11.206 1 50.98 ? O15 BMG 701 B 1 HETATM 15 C C10 BMG . . . I 4 11.867 17.552 9.863 1 54.9 ? C10 BMG 701 B 1 HETATM 16 N N4 BMG . . . I 4 13.465 15.266 7.508 1 54.7 ? N4 BMG 701 B 1 HETATM 17 O O13 BMG . . . I 4 15.051 15.677 5.31 1 57.73 ? O13 BMG 701 B 1 HETATM 18 O O12 BMG . . . I 4 15.49 17.777 6.04 1 57.46 ? O12 BMG 701 B 1 HETATM 19 C C2 BMG . . . I 4 12.793 17.402 7.508 1 56.98 ? C2 BMG 701 B 1 HETATM 20 S S16 BMG . . . I 4 12.578 19.07 7.029 1 59.89 ? S16 BMG 701 B 1 HETATM 21 C C24 BMG . . . I 4 12.699 19.214 4.204 1 63.36 ? C24 BMG 701 B 1 HETATM 22 N N23 BMG . . . I 4 11.601 19.322 3.177 1 64.31 ? N23 BMG 701 B 1 HETATM 23 N N19 BMG . . . I 4 10.42 19.684 3.774 1 64.39 ? N19 BMG 701 B 1 HETATM 24 N N21 BMG . . . I 4 10.052 19.449 1.637 1 65.6 ? N21 BMG 701 B 1 # _model_server_stats.io_time_ms 56 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 258 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 24 #