data_4ZIR # _model_server_result.job_id LPtd94wLcr8FxhsMxrJ4Yg _model_server_result.datetime_utc '2025-01-03 00:16:02' _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 4zir # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":303}' # _entry.id 4ZIR # _exptl.entry_id 4ZIR _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 506.196 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _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 4ZIR _cell.length_a 107.275 _cell.length_b 107.275 _cell.length_c 96.758 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4ZIR _symmetry.cell_setting ? _symmetry.Int_Tables_number 94 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 42 21 2' # _pdbx_struct_assembly.method_details PISA _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,G,H,I,J,K _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 F N N ? 5 I 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 disulf ? disulf1 A SG CYS 265 A CYS 264 1_555 B SG CYS 246 B CYS 237 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? metalc ? metalc1 A OG SER 48 A SER 47 1_555 C MG MG . A MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.946 ? metalc ? metalc2 A OE1 GLN 86 A GLN 85 1_555 C MG MG . A MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.136 ? metalc ? metalc3 C MG MG . A MG 301 1_555 F O3G ANP . A ANP 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.919 ? metalc ? metalc4 C MG MG . A MG 301 1_555 F O1B ANP . A ANP 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.129 ? metalc ? metalc5 C MG MG . A MG 301 1_555 J O HOH . A HOH 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.795 ? metalc ? metalc6 B OG1 THR 51 B THR 42 1_555 G MG MG . B MG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.983 ? metalc ? metalc7 G MG MG . B MG 301 1_555 I O1B ANP . B ANP 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? metalc ? metalc8 G MG MG . B MG 301 1_555 I O1G ANP . B ANP 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.923 ? metalc ? metalc9 G MG MG . B MG 301 1_555 K O HOH . B HOH 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? metalc ? metalc10 G MG MG . B MG 301 1_555 K O HOH . B HOH 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.511 ? # _chem_comp.formula 'C10 H17 N6 O12 P3' _chem_comp.formula_weight 506.196 _chem_comp.id ANP _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _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 PG O1G ANP doub 13 n n PG O2G ANP sing 14 n n PG O3G ANP sing 15 n n PG N3B ANP sing 16 n n O2G HOG2 ANP sing 17 n n O3G HOG3 ANP sing 18 n n PB O1B ANP doub 19 n n PB O2B ANP sing 20 n n PB N3B ANP sing 21 n n PB O3A ANP sing 22 n n O2B HOB2 ANP sing 23 n n N3B HNB1 ANP sing 24 n n PA O1A ANP doub 25 n n PA O2A ANP sing 26 n n PA O3A ANP sing 27 n n PA O5' ANP sing 28 n n O2A HOA2 ANP sing 29 n n O5' C5' ANP sing 30 n n C5' C4' ANP sing 31 n n C5' "H5'1" ANP sing 32 n n C5' "H5'2" ANP sing 33 n n C4' O4' ANP sing 34 n n C4' C3' ANP sing 35 n n C4' H4' ANP sing 36 n n O4' C1' ANP sing 37 n n C3' O3' ANP sing 38 n n C3' C2' ANP sing 39 n n C3' H3' ANP sing 40 n n O3' HO3' ANP sing 41 n n C2' O2' ANP sing 42 n n C2' C1' ANP sing 43 n n C2' H2' ANP sing 44 n n O2' HO2' ANP sing 45 n n C1' N9 ANP sing 46 n n C1' H1' ANP sing 47 n n N9 C8 ANP sing 48 n y N9 C4 ANP sing 49 n y C8 N7 ANP doub 50 n y C8 H8 ANP sing 51 n n N7 C5 ANP sing 52 n y C5 C6 ANP sing 53 n y C5 C4 ANP doub 54 n y C6 N6 ANP sing 55 n n C6 N1 ANP doub 56 n y N6 HN61 ANP sing 57 n n N6 HN62 ANP sing 58 n n N1 C2 ANP sing 59 n y C2 N3 ANP doub 60 n y C2 H2 ANP sing 61 n n N3 C4 ANP sing 62 n y # _atom_sites.entry_id 4ZIR _atom_sites.fract_transf_matrix[1][1] 0.009322 _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] 0.009322 _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] 0.010335 _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 MG A 1 301 302 MG MG . D 4 CL A 1 302 302 CL CL . E 4 CL A 1 303 304 CL CL . F 5 ANP A 1 304 302 ANP ANP . G 3 MG B 1 301 302 MG MG . H 4 CL B 1 302 303 CL CL . I 5 ANP B 1 303 301 ANP ANP . J 6 HOH A 1 401 42 HOH HOH . J 6 HOH A 2 402 37 HOH HOH . J 6 HOH A 3 403 4 HOH HOH . J 6 HOH A 4 404 24 HOH HOH . J 6 HOH A 5 405 20 HOH HOH . J 6 HOH A 6 406 22 HOH HOH . J 6 HOH A 7 407 2 HOH HOH . J 6 HOH A 8 408 6 HOH HOH . K 6 HOH B 1 401 36 HOH HOH . K 6 HOH B 2 402 39 HOH HOH . K 6 HOH B 3 403 19 HOH HOH . K 6 HOH B 4 404 9 HOH HOH . K 6 HOH B 5 405 41 HOH HOH . K 6 HOH B 6 406 40 HOH HOH . K 6 HOH B 7 407 13 HOH HOH . K 6 HOH B 8 408 18 HOH HOH . K 6 HOH B 9 409 3 HOH HOH . K 6 HOH B 10 410 16 HOH HOH . K 6 HOH B 11 411 43 HOH HOH . K 6 HOH B 12 412 8 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 P PG ANP . . . I 5 35.084 18.535 13.898 1 56.26 ? PG ANP 303 B 1 HETATM 2 O O1G ANP . . . I 5 34.265 17.649 12.878 1 51.25 ? O1G ANP 303 B 1 HETATM 3 O O2G ANP . . . I 5 34.147 19.719 14.352 1 54.01 ? O2G ANP 303 B 1 HETATM 4 O O3G ANP . . . I 5 35.471 17.714 15.092 1 54.04 ? O3G ANP 303 B 1 HETATM 5 P PB ANP . . . I 5 37.183 18.227 11.984 1 54.42 ? PB ANP 303 B 1 HETATM 6 O O1B ANP . . . I 5 36.156 17.272 11.31 1 66.43 ? O1B ANP 303 B 1 HETATM 7 O O2B ANP . . . I 5 38.268 17.405 12.599 1 53.89 ? O2B ANP 303 B 1 HETATM 8 N N3B ANP . . . I 5 36.455 19.2 13.152 1 47.51 ? N3B ANP 303 B 1 HETATM 9 P PA ANP . . . I 5 37.344 19.204 9.407 1 54.35 ? PA ANP 303 B 1 HETATM 10 O O1A ANP . . . I 5 38.164 18.269 8.608 1 61.55 ? O1A ANP 303 B 1 HETATM 11 O O2A ANP . . . I 5 35.828 18.981 9.351 1 48.74 ? O2A ANP 303 B 1 HETATM 12 O O3A ANP . . . I 5 37.813 19.181 10.923 1 119.66 ? O3A ANP 303 B 1 HETATM 13 O O5' ANP . . . I 5 37.699 20.663 8.922 1 56.43 ? O5' ANP 303 B 1 HETATM 14 C C5' ANP . . . I 5 39.009 21.222 9.119 1 56.44 ? C5' ANP 303 B 1 HETATM 15 C C4' ANP . . . I 5 38.982 22.65 8.635 1 57.65 ? C4' ANP 303 B 1 HETATM 16 O O4' ANP . . . I 5 38.443 22.685 7.3 1 59.26 ? O4' ANP 303 B 1 HETATM 17 C C3' ANP . . . I 5 38.164 23.618 9.487 1 60.73 ? C3' ANP 303 B 1 HETATM 18 O O3' ANP . . . I 5 38.857 24.83 9.766 1 63.83 ? O3' ANP 303 B 1 HETATM 19 C C2' ANP . . . I 5 36.894 23.864 8.663 1 61.82 ? C2' ANP 303 B 1 HETATM 20 O O2' ANP . . . I 5 36.508 25.232 8.763 1 63.8 ? O2' ANP 303 B 1 HETATM 21 C C1' ANP . . . I 5 37.314 23.538 7.229 1 59.93 ? C1' ANP 303 B 1 HETATM 22 N N9 ANP . . . I 5 36.273 22.852 6.468 1 56.89 ? N9 ANP 303 B 1 HETATM 23 C C8 ANP . . . I 5 35.597 21.722 6.835 1 55.33 ? C8 ANP 303 B 1 HETATM 24 N N7 ANP . . . I 5 34.693 21.317 5.966 1 54.12 ? N7 ANP 303 B 1 HETATM 25 C C5 ANP . . . I 5 34.797 22.269 4.958 1 54.78 ? C5 ANP 303 B 1 HETATM 26 C C6 ANP . . . I 5 34.099 22.41 3.73 1 55.96 ? C6 ANP 303 B 1 HETATM 27 N N6 ANP . . . I 5 33.146 21.578 3.31 1 56.11 ? N6 ANP 303 B 1 HETATM 28 N N1 ANP . . . I 5 34.434 23.459 2.949 1 57.65 ? N1 ANP 303 B 1 HETATM 29 C C2 ANP . . . I 5 35.391 24.299 3.361 1 57.4 ? C2 ANP 303 B 1 HETATM 30 N N3 ANP . . . I 5 36.106 24.259 4.491 1 56.6 ? N3 ANP 303 B 1 HETATM 31 C C4 ANP . . . I 5 35.752 23.213 5.241 1 55.56 ? C4 ANP 303 B 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 292 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 31 #