data_9AXH # _model_server_result.job_id glOkUSV0IXy-HsHfNF1bIQ _model_server_result.datetime_utc '2024-11-07 22:07:56' _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 9axh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":402}' # _entry.id 9AXH # _exptl.entry_id 9AXH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 506.196 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90.25 _cell.angle_gamma 90 _cell.entry_id 9AXH _cell.length_a 249.87 _cell.length_b 67.08 _cell.length_c 74.4 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9AXH _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall 'C 2y' _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,L,M,N,O,P,Q,R,S,T,U _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 ? 4 F N N ? 4 I N N ? 4 K N N ? 4 O 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 metalc ? metalc1 A OD1 ASN 160 A ASN 195 1_555 G MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.153 ? metalc ? metalc2 A OD2 ASP 173 A ASP 208 1_555 G MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.074 ? metalc ? metalc3 F O1B ANP . A ANP 402 1_555 G MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.185 ? metalc ? metalc4 F O1A ANP . A ANP 402 1_555 G MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.146 ? metalc ? metalc5 G MG MG . A MG 403 1_555 R O HOH . A HOH 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.38 ? metalc ? metalc6 G MG MG . A MG 403 1_555 R O HOH . A HOH 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.864 ? metalc ? metalc7 B OD1 ASN 160 B ASN 195 1_555 J MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.118 ? metalc ? metalc8 B OD2 ASP 173 B ASP 208 1_555 J MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.352 ? metalc ? metalc9 I O2B ANP . B ANP 402 1_555 J MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.956 ? metalc ? metalc10 I O1A ANP . B ANP 402 1_555 J MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.097 ? metalc ? metalc11 J MG MG . B MG 403 1_555 S O HOH . B HOH 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? metalc ? metalc12 J MG MG . B MG 403 1_555 S O HOH . B HOH 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.911 ? metalc ? metalc13 C OD1 ASN 139 C ASN 738 1_555 L MG MG . C MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.001 ? metalc ? metalc14 C OD2 ASP 151 C ASP 750 1_555 L MG MG . C MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.166 ? metalc ? metalc15 K O1B ANP . C ANP 901 1_555 L MG MG . C MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.246 ? metalc ? metalc16 K O1A ANP . C ANP 901 1_555 L MG MG . C MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.429 ? metalc ? metalc17 L MG MG . C MG 902 1_555 T O HOH . C HOH 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.209 ? metalc ? metalc18 L MG MG . C MG 902 1_555 T O HOH . C HOH 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? metalc ? metalc19 D OD1 ASN 139 D ASN 738 1_555 P MG MG . D MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? metalc ? metalc20 D OD2 ASP 151 D ASP 750 1_555 P MG MG . D MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.134 ? metalc ? metalc21 O O2B ANP . D ANP 901 1_555 P MG MG . D MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.238 ? metalc ? metalc22 O O1A ANP . D ANP 901 1_555 P MG MG . D MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.192 ? metalc ? metalc23 P MG MG . D MG 902 1_555 U O HOH . D HOH 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.125 ? metalc ? metalc24 P MG MG . D MG 902 1_555 U O HOH . D HOH 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.16 ? # _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 68 n n PG O2G ANP sing 69 n n PG O3G ANP sing 70 n n PG N3B ANP sing 71 n n O2G HOG2 ANP sing 72 n n O3G HOG3 ANP sing 73 n n PB O1B ANP doub 74 n n PB O2B ANP sing 75 n n PB N3B ANP sing 76 n n PB O3A ANP sing 77 n n O2B HOB2 ANP sing 78 n n N3B HNB1 ANP sing 79 n n PA O1A ANP doub 80 n n PA O2A ANP sing 81 n n PA O3A ANP sing 82 n n PA O5' ANP sing 83 n n O2A HOA2 ANP sing 84 n n O5' C5' ANP sing 85 n n C5' C4' ANP sing 86 n n C5' "H5'1" ANP sing 87 n n C5' "H5'2" ANP sing 88 n n C4' O4' ANP sing 89 n n C4' C3' ANP sing 90 n n C4' H4' ANP sing 91 n n O4' C1' ANP sing 92 n n C3' O3' ANP sing 93 n n C3' C2' ANP sing 94 n n C3' H3' ANP sing 95 n n O3' HO3' ANP sing 96 n n C2' O2' ANP sing 97 n n C2' C1' ANP sing 98 n n C2' H2' ANP sing 99 n n O2' HO2' ANP sing 100 n n C1' N9 ANP sing 101 n n C1' H1' ANP sing 102 n n N9 C8 ANP sing 103 n y N9 C4 ANP sing 104 n y C8 N7 ANP doub 105 n y C8 H8 ANP sing 106 n n N7 C5 ANP sing 107 n y C5 C6 ANP sing 108 n y C5 C4 ANP doub 109 n y C6 N6 ANP sing 110 n n C6 N1 ANP doub 111 n y N6 HN61 ANP sing 112 n n N6 HN62 ANP sing 113 n n N1 C2 ANP sing 114 n y C2 N3 ANP doub 115 n y C2 H2 ANP sing 116 n n N3 C4 ANP sing 117 n y # _atom_sites.entry_id 9AXH _atom_sites.fract_transf_matrix[1][1] 0.004002 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000017 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014908 _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] 0.013441 _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 A1AHE A 1 401 401 A1AHE 628 . F 4 ANP A 1 402 1 ANP ANP . G 5 MG A 1 403 1 MG MG . H 3 A1AHE B 1 401 401 A1AHE 628 . I 4 ANP B 1 402 2 ANP ANP . J 5 MG B 1 403 2 MG MG . K 4 ANP C 1 901 3 ANP ANP . L 5 MG C 1 902 3 MG MG . M 6 EDO C 1 903 1 EDO EDO . N 7 CL C 1 904 1 CL CL . O 4 ANP D 1 901 4 ANP ANP . P 5 MG D 1 902 4 MG MG . Q 7 CL D 1 903 2 CL CL . R 8 HOH A 1 501 10 HOH HOH . R 8 HOH A 2 502 9 HOH HOH . S 8 HOH B 1 501 4 HOH HOH . S 8 HOH B 2 502 3 HOH HOH . S 8 HOH B 3 503 5 HOH HOH . S 8 HOH B 4 504 6 HOH HOH . T 8 HOH C 1 1001 2 HOH HOH . T 8 HOH C 2 1002 1 HOH HOH . U 8 HOH D 1 1001 7 HOH HOH . U 8 HOH D 2 1002 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 . . . F 4 97.567 8.704 -52.759 1 108.63 ? PG ANP 402 A 1 HETATM 2 O O1G ANP . . . F 4 97.324 9.981 -53.507 1 88.42 ? O1G ANP 402 A 1 HETATM 3 O O2G ANP . . . F 4 98.925 8.781 -51.97 1 108.82 ? O2G ANP 402 A 1 HETATM 4 O O3G ANP . . . F 4 96.448 8.471 -51.664 1 102.93 ? O3G ANP 402 A 1 HETATM 5 P PB ANP . . . F 4 97.643 7.826 -55.435 1 85.9 ? PB ANP 402 A 1 HETATM 6 O O1B ANP . . . F 4 98.668 8.887 -55.663 1 81.8 ? O1B ANP 402 A 1 HETATM 7 O O2B ANP . . . F 4 97.999 6.581 -56.3 1 87.48 ? O2B ANP 402 A 1 HETATM 8 N N3B ANP . . . F 4 97.641 7.38 -53.817 1 101.63 ? N3B ANP 402 A 1 HETATM 9 P PA ANP . . . F 4 95.863 8.987 -57.227 1 81.26 ? PA ANP 402 A 1 HETATM 10 O O1A ANP . . . F 4 96.704 10.178 -57.5 1 77.44 ? O1A ANP 402 A 1 HETATM 11 O O2A ANP . . . F 4 94.373 9.333 -57.182 1 92.49 ? O2A ANP 402 A 1 HETATM 12 O O3A ANP . . . F 4 96.223 8.359 -55.802 1 97.12 ? O3A ANP 402 A 1 HETATM 13 O O5' ANP . . . F 4 96.174 7.857 -58.307 1 85.61 ? O5' ANP 402 A 1 HETATM 14 C C5' ANP . . . F 4 95.395 6.637 -58.389 1 80.9 ? C5' ANP 402 A 1 HETATM 15 C C4' ANP . . . F 4 95.96 5.726 -59.454 1 82.57 ? C4' ANP 402 A 1 HETATM 16 O O4' ANP . . . F 4 95.862 6.371 -60.745 1 86.69 ? O4' ANP 402 A 1 HETATM 17 C C3' ANP . . . F 4 97.427 5.324 -59.279 1 93.51 ? C3' ANP 402 A 1 HETATM 18 O O3' ANP . . . F 4 97.617 3.939 -59.543 1 90.61 ? O3' ANP 402 A 1 HETATM 19 C C2' ANP . . . F 4 98.153 6.185 -60.315 1 85.25 ? C2' ANP 402 A 1 HETATM 20 O O2' ANP . . . F 4 99.313 5.548 -60.834 1 93.24 ? O2' ANP 402 A 1 HETATM 21 C C1' ANP . . . F 4 97.102 6.272 -61.413 1 81.98 ? C1' ANP 402 A 1 HETATM 22 N N9 ANP . . . F 4 97.257 7.423 -62.288 1 78.59 ? N9 ANP 402 A 1 HETATM 23 C C8 ANP . . . F 4 97.153 8.75 -61.955 1 77.8 ? C8 ANP 402 A 1 HETATM 24 N N7 ANP . . . F 4 97.341 9.572 -62.958 1 71.6 ? N7 ANP 402 A 1 HETATM 25 C C5 ANP . . . F 4 97.589 8.725 -64.032 1 75.74 ? C5 ANP 402 A 1 HETATM 26 C C6 ANP . . . F 4 97.866 8.975 -65.389 1 77.44 ? C6 ANP 402 A 1 HETATM 27 N N6 ANP . . . F 4 97.946 10.197 -65.919 1 78.28 ? N6 ANP 402 A 1 HETATM 28 N N1 ANP . . . F 4 98.064 7.904 -66.194 1 73.39 ? N1 ANP 402 A 1 HETATM 29 C C2 ANP . . . F 4 97.986 6.679 -65.667 1 78.67 ? C2 ANP 402 A 1 HETATM 30 N N3 ANP . . . F 4 97.731 6.324 -64.405 1 77.02 ? N3 ANP 402 A 1 HETATM 31 C C4 ANP . . . F 4 97.54 7.404 -63.631 1 77.75 ? C4 ANP 402 A 1 # _model_server_stats.io_time_ms 27 _model_server_stats.parse_time_ms 26 _model_server_stats.create_model_time_ms 28 _model_server_stats.query_time_ms 237 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 31 #