data_5IX2 # _model_server_result.job_id mmJJjHqkYl6XjJIWNNnv0A _model_server_result.datetime_utc '2024-11-26 06:46:23' _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 5ix2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":502}' # _entry.id 5IX2 # _exptl.entry_id 5IX2 _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 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 5IX2 _cell.length_a 112.202 _cell.length_b 147.542 _cell.length_c 173.611 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5IX2 _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 2 2 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J _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 # 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 OD2 ASP 37 A ASP 42 1_555 A NZ LYS 83 A LYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale2 A OE2 GLU 179 A GLU 184 1_555 A NH2 ARG 190 A ARG 195 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.256 ? metalc ? metalc1 A OD1 ASN 34 A ASN 39 1_555 G MG MG . A MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.239 ? metalc ? metalc2 A SG CYS 408 A CYS 413 1_555 E ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.401 ? metalc ? metalc3 A SG CYS 411 A CYS 416 1_555 E ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.397 ? metalc ? metalc4 A SG CYS 430 A CYS 435 1_555 E ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.478 ? metalc ? metalc5 A SG CYS 441 A CYS 446 1_555 E ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.467 ? metalc ? metalc6 F O2G ANP . A ANP 502 1_555 G MG MG . A MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.541 ? metalc ? metalc7 F O1B ANP . A ANP 502 1_555 G MG MG . A MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.541 ? metalc ? metalc8 B OE1 GLU 30 B GLU 35 1_555 J MG MG . B MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.594 ? metalc ? metalc9 B SG CYS 408 B CYS 413 1_555 H ZN ZN . B ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.385 ? metalc ? metalc10 B SG CYS 411 B CYS 416 1_555 H ZN ZN . B ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.142 ? metalc ? metalc11 B SG CYS 430 B CYS 435 1_555 H ZN ZN . B ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.954 ? metalc ? metalc12 B SG CYS 441 B CYS 446 1_555 H ZN ZN . B ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.964 ? metalc ? metalc13 I O1G ANP . B ANP 502 1_555 J MG MG . B MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.321 ? metalc ? metalc14 I O1A ANP . B ANP 502 1_555 J MG MG . B MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.829 ? # _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 5IX2 _atom_sites.fract_transf_matrix[1][1] 0.008912 _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] 0.006778 _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] 0.00576 _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 A 1 501 499 ZN ZN . F 4 ANP A 1 502 501 ANP ANP . G 5 MG A 1 503 502 MG MG . H 3 ZN B 1 501 499 ZN ZN . I 4 ANP B 1 502 501 ANP ANP . J 5 MG B 1 503 502 MG MG . # 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 71.278 62.901 36 1 48.64 ? PG ANP 502 A 1 HETATM 2 O O1G ANP . . . F 4 72.245 63.642 36.793 1 46.74 ? O1G ANP 502 A 1 HETATM 3 O O2G ANP . . . F 4 71.783 62.691 34.623 1 134.71 ? O2G ANP 502 A 1 HETATM 4 O O3G ANP . . . F 4 70.664 61.747 36.642 1 38.92 ? O3G ANP 502 A 1 HETATM 5 P PB ANP . . . F 4 70.476 65.147 34.566 1 55.94 ? PB ANP 502 A 1 HETATM 6 O O1B ANP . . . F 4 70.351 64.362 33.332 1 53.55 ? O1B ANP 502 A 1 HETATM 7 O O2B ANP . . . F 4 69.905 66.481 34.713 1 53.72 ? O2B ANP 502 A 1 HETATM 8 N N3B ANP . . . F 4 70.017 64.012 35.761 1 126.24 ? N3B ANP 502 A 1 HETATM 9 P PA ANP . . . F 4 72.841 65.821 33.619 1 65.79 ? PA ANP 502 A 1 HETATM 10 O O1A ANP . . . F 4 72.729 64.805 32.556 1 66.29 ? O1A ANP 502 A 1 HETATM 11 O O2A ANP . . . F 4 74.155 66.339 33.958 1 66.74 ? O2A ANP 502 A 1 HETATM 12 O O3A ANP . . . F 4 71.999 65.327 34.812 1 44.95 ? O3A ANP 502 A 1 HETATM 13 O O5' ANP . . . F 4 72.036 67.109 33.372 1 71.02 ? O5' ANP 502 A 1 HETATM 14 C C5' ANP . . . F 4 72.635 68.076 32.549 1 70.6 ? C5' ANP 502 A 1 HETATM 15 C C4' ANP . . . F 4 71.59 69.096 32.174 1 70.83 ? C4' ANP 502 A 1 HETATM 16 O O4' ANP . . . F 4 72.076 69.789 31.06 1 70.28 ? O4' ANP 502 A 1 HETATM 17 C C3' ANP . . . F 4 70.313 68.432 31.763 1 72.25 ? C3' ANP 502 A 1 HETATM 18 O O3' ANP . . . F 4 69.287 68.77 32.664 1 74.94 ? O3' ANP 502 A 1 HETATM 19 C C2' ANP . . . F 4 69.904 69.138 30.545 1 70.54 ? C2' ANP 502 A 1 HETATM 20 O O2' ANP . . . F 4 69.112 70.187 31.035 1 70.86 ? O2' ANP 502 A 1 HETATM 21 C C1' ANP . . . F 4 71.15 69.747 30.002 1 70.14 ? C1' ANP 502 A 1 HETATM 22 N N9 ANP . . . F 4 71.657 68.855 28.957 1 68.93 ? N9 ANP 502 A 1 HETATM 23 C C8 ANP . . . F 4 72.617 67.96 29.095 1 66.83 ? C8 ANP 502 A 1 HETATM 24 N N7 ANP . . . F 4 72.845 67.306 27.951 1 67.27 ? N7 ANP 502 A 1 HETATM 25 C C5 ANP . . . F 4 72.007 67.8 27.051 1 68.97 ? C5 ANP 502 A 1 HETATM 26 C C6 ANP . . . F 4 71.728 67.56 25.642 1 67.11 ? C6 ANP 502 A 1 HETATM 27 N N6 ANP . . . F 4 72.397 66.633 24.969 1 66.06 ? N6 ANP 502 A 1 HETATM 28 N N1 ANP . . . F 4 70.778 68.28 25.07 1 66.55 ? N1 ANP 502 A 1 HETATM 29 C C2 ANP . . . F 4 70.098 69.203 25.743 1 66.83 ? C2 ANP 502 A 1 HETATM 30 N N3 ANP . . . F 4 70.297 69.482 27.02 1 68.04 ? N3 ANP 502 A 1 HETATM 31 C C4 ANP . . . F 4 71.223 68.815 27.72 1 68.9 ? C4 ANP 502 A 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 243 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 31 #