data_6XKI # _model_server_result.job_id muqjj0T31cQdAlpiEhKhrg _model_server_result.datetime_utc '2024-10-24 12:15:10' _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 6xki # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":501}' # _entry.id 6XKI # _exptl.entry_id 6XKI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 506.196 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _entity.pdbx_number_of_molecules 1 _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 6XKI _cell.length_a 66.785 _cell.length_b 99.942 _cell.length_c 153.663 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6XKI _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall 'I 2 2' _symmetry.space_group_name_H-M 'I 2 2 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 _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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 C O3G ANP . A ANP 501 1_555 D MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.161 ? metalc ? metalc2 C O1B ANP . A ANP 501 1_555 D MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.119 ? metalc ? metalc3 D MG MG . A MG 502 1_555 F O HOH . A HOH 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.196 ? metalc ? metalc4 D MG MG . A MG 502 1_555 F O HOH . A HOH 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.146 ? metalc ? metalc5 D MG MG . A MG 502 1_555 F O HOH . A HOH 613 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.989 ? metalc ? metalc6 D MG MG . A MG 502 1_555 F O HOH . A HOH 617 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.967 ? # _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 52 n n PG O2G ANP sing 53 n n PG O3G ANP sing 54 n n PG N3B ANP sing 55 n n O2G HOG2 ANP sing 56 n n O3G HOG3 ANP sing 57 n n PB O1B ANP doub 58 n n PB O2B ANP sing 59 n n PB N3B ANP sing 60 n n PB O3A ANP sing 61 n n O2B HOB2 ANP sing 62 n n N3B HNB1 ANP sing 63 n n PA O1A ANP doub 64 n n PA O2A ANP sing 65 n n PA O3A ANP sing 66 n n PA O5' ANP sing 67 n n O2A HOA2 ANP sing 68 n n O5' C5' ANP sing 69 n n C5' C4' ANP sing 70 n n C5' "H5'1" ANP sing 71 n n C5' "H5'2" ANP sing 72 n n C4' O4' ANP sing 73 n n C4' C3' ANP sing 74 n n C4' H4' ANP sing 75 n n O4' C1' ANP sing 76 n n C3' O3' ANP sing 77 n n C3' C2' ANP sing 78 n n C3' H3' ANP sing 79 n n O3' HO3' ANP sing 80 n n C2' O2' ANP sing 81 n n C2' C1' ANP sing 82 n n C2' H2' ANP sing 83 n n O2' HO2' ANP sing 84 n n C1' N9 ANP sing 85 n n C1' H1' ANP sing 86 n n N9 C8 ANP sing 87 n y N9 C4 ANP sing 88 n y C8 N7 ANP doub 89 n y C8 H8 ANP sing 90 n n N7 C5 ANP sing 91 n y C5 C6 ANP sing 92 n y C5 C4 ANP doub 93 n y C6 N6 ANP sing 94 n n C6 N1 ANP doub 95 n y N6 HN61 ANP sing 96 n n N6 HN62 ANP sing 97 n n N1 C2 ANP sing 98 n y C2 N3 ANP doub 99 n y C2 H2 ANP sing 100 n n N3 C4 ANP sing 101 n y # _atom_sites.entry_id 6XKI _atom_sites.fract_transf_matrix[1][1] 0.014973 _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] 0.010006 _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] 0.006508 _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 ANP A 1 501 500 ANP ANP . D 4 MG A 1 502 501 MG MG . E 5 V6D A 1 503 1 V6D LIG . F 6 HOH A 1 601 16 HOH HOH . F 6 HOH A 2 602 17 HOH HOH . F 6 HOH A 3 603 26 HOH HOH . F 6 HOH A 4 604 13 HOH HOH . F 6 HOH A 5 605 25 HOH HOH . F 6 HOH A 6 606 22 HOH HOH . F 6 HOH A 7 607 9 HOH HOH . F 6 HOH A 8 608 14 HOH HOH . F 6 HOH A 9 609 7 HOH HOH . F 6 HOH A 10 610 23 HOH HOH . F 6 HOH A 11 611 6 HOH HOH . F 6 HOH A 12 612 8 HOH HOH . F 6 HOH A 13 613 18 HOH HOH . F 6 HOH A 14 614 3 HOH HOH . F 6 HOH A 15 615 2 HOH HOH . F 6 HOH A 16 616 1 HOH HOH . F 6 HOH A 17 617 10 HOH HOH . F 6 HOH A 18 618 19 HOH HOH . F 6 HOH A 19 619 15 HOH HOH . F 6 HOH A 20 620 4 HOH HOH . F 6 HOH A 21 621 20 HOH HOH . F 6 HOH A 22 622 11 HOH HOH . G 6 HOH B 1 101 21 HOH HOH . G 6 HOH B 2 102 12 HOH HOH . G 6 HOH B 3 103 24 HOH HOH . G 6 HOH B 4 104 5 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 . . . C 3 -22.041 -25.174 -17.436 1 51.21 ? PG ANP 501 A 1 HETATM 2 O O1G ANP . . . C 3 -22.306 -24.202 -18.541 1 57.4 ? O1G ANP 501 A 1 HETATM 3 O O2G ANP . . . C 3 -23.263 -25.162 -16.441 1 50.7 ? O2G ANP 501 A 1 HETATM 4 O O3G ANP . . . C 3 -21.882 -26.627 -18.04 1 53.41 ? O3G ANP 501 A 1 HETATM 5 P PB ANP . . . C 3 -20.492 -25.634 -15.183 1 55.3 ? PB ANP 501 A 1 HETATM 6 O O1B ANP . . . C 3 -20.438 -27.09 -15.513 1 57.57 ? O1B ANP 501 A 1 HETATM 7 O O2B ANP . . . C 3 -21.746 -25.353 -14.304 1 58.46 ? O2B ANP 501 A 1 HETATM 8 N N3B ANP . . . C 3 -20.615 -24.761 -16.613 1 61.93 ? N3B ANP 501 A 1 HETATM 9 P PA ANP . . . C 3 -17.777 -25.732 -14.783 1 59.01 ? PA ANP 501 A 1 HETATM 10 O O1A ANP . . . C 3 -17.774 -26.224 -16.177 1 61.91 ? O1A ANP 501 A 1 HETATM 11 O O2A ANP . . . C 3 -17.332 -26.76 -13.74 1 63.32 ? O2A ANP 501 A 1 HETATM 12 O O3A ANP . . . C 3 -19.226 -25.234 -14.36 1 60.03 ? O3A ANP 501 A 1 HETATM 13 O O5' ANP . . . C 3 -16.851 -24.457 -14.726 1 75.63 ? O5' ANP 501 A 1 HETATM 14 C C5' ANP . . . C 3 -17.019 -23.486 -13.685 1 80.04 ? C5' ANP 501 A 1 HETATM 15 C C4' ANP . . . C 3 -15.762 -22.666 -13.523 1 82.9 ? C4' ANP 501 A 1 HETATM 16 O O4' ANP . . . C 3 -15.541 -22.426 -12.114 1 84.15 ? O4' ANP 501 A 1 HETATM 17 C C3' ANP . . . C 3 -14.471 -23.279 -14.056 1 83.44 ? C3' ANP 501 A 1 HETATM 18 O O3' ANP . . . C 3 -13.599 -22.277 -14.573 1 90.33 ? O3' ANP 501 A 1 HETATM 19 C C2' ANP . . . C 3 -13.881 -23.951 -12.812 1 82.93 ? C2' ANP 501 A 1 HETATM 20 O O2' ANP . . . C 3 -12.467 -24.082 -12.923 1 83.74 ? O2' ANP 501 A 1 HETATM 21 C C1' ANP . . . C 3 -14.293 -22.965 -11.717 1 83.4 ? C1' ANP 501 A 1 HETATM 22 N N9 ANP . . . C 3 -14.446 -23.555 -10.382 1 81.46 ? N9 ANP 501 A 1 HETATM 23 C C8 ANP . . . C 3 -14.863 -24.826 -10.081 1 78.61 ? C8 ANP 501 A 1 HETATM 24 N N7 ANP . . . C 3 -14.898 -25.074 -8.795 1 78.25 ? N7 ANP 501 A 1 HETATM 25 C C5 ANP . . . C 3 -14.487 -23.899 -8.207 1 80.53 ? C5 ANP 501 A 1 HETATM 26 C C6 ANP . . . C 3 -14.309 -23.502 -6.866 1 80.21 ? C6 ANP 501 A 1 HETATM 27 N N6 ANP . . . C 3 -14.538 -24.311 -5.822 1 80.52 ? N6 ANP 501 A 1 HETATM 28 N N1 ANP . . . C 3 -13.882 -22.245 -6.624 1 80.02 ? N1 ANP 501 A 1 HETATM 29 C C2 ANP . . . C 3 -13.65 -21.436 -7.662 1 81.62 ? C2 ANP 501 A 1 HETATM 30 N N3 ANP . . . C 3 -13.781 -21.688 -8.968 1 82.75 ? N3 ANP 501 A 1 HETATM 31 C C4 ANP . . . C 3 -14.201 -22.935 -9.176 1 82.02 ? C4 ANP 501 A 1 HETATM 32 H HNB1 ANP . . . C 3 -19.9 -24.947 -17.14 1 76.24 ? HNB1 ANP 501 A 1 HETATM 33 H "H5'1" ANP . . . C 3 -17.76 -22.899 -13.913 1 97.97 ? "H5'1" ANP 501 A 1 HETATM 34 H "H5'2" ANP . . . C 3 -17.214 -23.945 -12.849 1 97.97 ? "H5'2" ANP 501 A 1 HETATM 35 H H4' ANP . . . C 3 -15.864 -21.794 -13.957 1 101.41 ? H4' ANP 501 A 1 HETATM 36 H H3' ANP . . . C 3 -14.689 -23.937 -14.72 1 102.05 ? H3' ANP 501 A 1 HETATM 37 H H2' ANP . . . C 3 -14.302 -24.798 -12.622 1 101.44 ? H2' ANP 501 A 1 HETATM 38 H HO2' ANP . . . C 3 -12.157 -24.54 -12.229 1 102.41 ? HO2' ANP 501 A 1 HETATM 39 H H1' ANP . . . C 3 -13.623 -22.264 -11.689 1 102.01 ? H1' ANP 501 A 1 HETATM 40 H H8 ANP . . . C 3 -15.104 -25.469 -10.745 1 96.25 ? H8 ANP 501 A 1 HETATM 41 H HN61 ANP . . . C 3 -14.601 -25.223 -5.946 1 98.55 ? HN61 ANP 501 A 1 HETATM 42 H HN62 ANP . . . C 3 -14.622 -23.959 -4.983 1 98.55 ? HN62 ANP 501 A 1 HETATM 43 H H2 ANP . . . C 3 -13.345 -20.542 -7.437 1 99.87 ? H2 ANP 501 A 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 312 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 43 #