data_4U7Z # _model_server_result.job_id aNNt-0t1erGQYZpH1EnCoQ _model_server_result.datetime_utc '2024-11-26 15:42:01' _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 4u7z # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":503}' # _entry.id 4U7Z # _exptl.entry_id 4U7Z _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 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 120 _cell.entry_id 4U7Z _cell.length_a 81.845 _cell.length_b 81.845 _cell.length_c 129.604 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4U7Z _symmetry.cell_setting ? _symmetry.Int_Tables_number 171 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 62' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _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 4 _struct_asym.id D _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 A OD1 ASN 135 A ASN 195 1_555 B MG MG . A MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.464 ? metalc ? metalc2 A OD2 ASP 148 A ASP 208 1_555 B MG MG . A MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.276 ? metalc ? metalc3 B MG MG . A MG 501 1_555 D O3G ANP . A ANP 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.944 ? metalc ? metalc4 B MG MG . A MG 501 1_555 D O1B ANP . A ANP 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.319 ? metalc ? metalc5 B MG MG . A MG 501 1_555 D O1A ANP . A ANP 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.207 ? metalc ? metalc6 B MG MG . A MG 501 1_555 E O HOH . A HOH 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.455 ? # _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 57 n n PG O2G ANP sing 58 n n PG O3G ANP sing 59 n n PG N3B ANP sing 60 n n O2G HOG2 ANP sing 61 n n O3G HOG3 ANP sing 62 n n PB O1B ANP doub 63 n n PB O2B ANP sing 64 n n PB N3B ANP sing 65 n n PB O3A ANP sing 66 n n O2B HOB2 ANP sing 67 n n N3B HNB1 ANP sing 68 n n PA O1A ANP doub 69 n n PA O2A ANP sing 70 n n PA O3A ANP sing 71 n n PA O5' ANP sing 72 n n O2A HOA2 ANP sing 73 n n O5' C5' ANP sing 74 n n C5' C4' ANP sing 75 n n C5' "H5'1" ANP sing 76 n n C5' "H5'2" ANP sing 77 n n C4' O4' ANP sing 78 n n C4' C3' ANP sing 79 n n C4' H4' ANP sing 80 n n O4' C1' ANP sing 81 n n C3' O3' ANP sing 82 n n C3' C2' ANP sing 83 n n C3' H3' ANP sing 84 n n O3' HO3' ANP sing 85 n n C2' O2' ANP sing 86 n n C2' C1' ANP sing 87 n n C2' H2' ANP sing 88 n n O2' HO2' ANP sing 89 n n C1' N9 ANP sing 90 n n C1' H1' ANP sing 91 n n N9 C8 ANP sing 92 n y N9 C4 ANP sing 93 n y C8 N7 ANP doub 94 n y C8 H8 ANP sing 95 n n N7 C5 ANP sing 96 n y C5 C6 ANP sing 97 n y C5 C4 ANP doub 98 n y C6 N6 ANP sing 99 n n C6 N1 ANP doub 100 n y N6 HN61 ANP sing 101 n n N6 HN62 ANP sing 102 n n N1 C2 ANP sing 103 n y C2 N3 ANP doub 104 n y C2 H2 ANP sing 105 n n N3 C4 ANP sing 106 n y # _atom_sites.entry_id 4U7Z _atom_sites.fract_transf_matrix[1][1] 0.012218 _atom_sites.fract_transf_matrix[1][2] 0.007054 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014108 _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] 0.007716 _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 B 2 MG A 1 501 3 MG MG . C 3 3EW A 1 502 1 3EW XXX . D 4 ANP A 1 503 1 ANP DRG . E 5 HOH A 1 601 9 HOH HOH . E 5 HOH A 2 602 10 HOH HOH . E 5 HOH A 3 603 5 HOH HOH . E 5 HOH A 4 604 1 HOH HOH . E 5 HOH A 5 605 2 HOH HOH . E 5 HOH A 6 606 3 HOH HOH . E 5 HOH A 7 607 4 HOH HOH . E 5 HOH A 8 608 6 HOH HOH . E 5 HOH A 9 609 7 HOH HOH . E 5 HOH A 10 610 8 HOH HOH . E 5 HOH A 11 611 11 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 . . . D 4 -24.13 27.709 11.554 1 80.21 ? PG ANP 503 A 1 HETATM 2 O O1G ANP . . . D 4 -23.265 28.371 10.372 1 101.03 ? O1G ANP 503 A 1 HETATM 3 O O2G ANP . . . D 4 -24.346 28.708 12.617 1 83.02 ? O2G ANP 503 A 1 HETATM 4 O O3G ANP . . . D 4 -25.574 27.254 11.011 1 190.57 ? O3G ANP 503 A 1 HETATM 5 P PB ANP . . . D 4 -24.005 25.571 13.392 1 50.32 ? PB ANP 503 A 1 HETATM 6 O O1B ANP . . . D 4 -25.415 24.88 13.017 1 57.27 ? O1B ANP 503 A 1 HETATM 7 O O2B ANP . . . D 4 -22.983 24.626 13.903 1 56.77 ? O2B ANP 503 A 1 HETATM 8 N N3B ANP . . . D 4 -23.281 26.374 12.104 1 62.85 ? N3B ANP 503 A 1 HETATM 9 P PA ANP . . . D 4 -25.295 26.528 15.835 1 54.35 ? PA ANP 503 A 1 HETATM 10 O O1A ANP . . . D 4 -26.712 26.386 15.436 1 56.13 ? O1A ANP 503 A 1 HETATM 11 O O2A ANP . . . D 4 -25.094 27.906 16.633 1 62.45 ? O2A ANP 503 A 1 HETATM 12 O O3A ANP . . . D 4 -24.379 26.598 14.535 1 50.33 ? O3A ANP 503 A 1 HETATM 13 O O5' ANP . . . D 4 -24.845 25.29 16.725 1 41.26 ? O5' ANP 503 A 1 HETATM 14 C C5' ANP . . . D 4 -23.495 24.886 16.849 1 52.28 ? C5' ANP 503 A 1 HETATM 15 C C4' ANP . . . D 4 -23.468 23.447 17.386 1 58.95 ? C4' ANP 503 A 1 HETATM 16 O O4' ANP . . . D 4 -24.261 23.323 18.592 1 53.63 ? O4' ANP 503 A 1 HETATM 17 C C3' ANP . . . D 4 -24.133 22.484 16.384 1 58.95 ? C3' ANP 503 A 1 HETATM 18 O O3' ANP . . . D 4 -23.219 22.061 15.356 1 66.92 ? O3' ANP 503 A 1 HETATM 19 C C2' ANP . . . D 4 -24.443 21.319 17.319 1 50.44 ? C2' ANP 503 A 1 HETATM 20 O O2' ANP . . . D 4 -23.245 20.574 17.419 1 56.48 ? O2' ANP 503 A 1 HETATM 21 C C1' ANP . . . D 4 -24.752 21.967 18.678 1 48.5 ? C1' ANP 503 A 1 HETATM 22 N N9 ANP . . . D 4 -26.188 21.962 18.992 1 50.93 ? N9 ANP 503 A 1 HETATM 23 C C8 ANP . . . D 4 -27.103 22.902 18.622 1 53.22 ? C8 ANP 503 A 1 HETATM 24 N N7 ANP . . . D 4 -28.267 22.571 19.087 1 55.99 ? N7 ANP 503 A 1 HETATM 25 C C5 ANP . . . D 4 -28.184 21.404 19.789 1 56.52 ? C5 ANP 503 A 1 HETATM 26 C C6 ANP . . . D 4 -29.103 20.579 20.502 1 57.24 ? C6 ANP 503 A 1 HETATM 27 N N6 ANP . . . D 4 -30.458 20.922 20.582 1 48.91 ? N6 ANP 503 A 1 HETATM 28 N N1 ANP . . . D 4 -28.627 19.462 21.09 1 54.43 ? N1 ANP 503 A 1 HETATM 29 C C2 ANP . . . D 4 -27.352 19.12 21.014 1 49.63 ? C2 ANP 503 A 1 HETATM 30 N N3 ANP . . . D 4 -26.479 19.863 20.359 1 52.52 ? N3 ANP 503 A 1 HETATM 31 C C4 ANP . . . D 4 -26.839 20.998 19.736 1 54.21 ? C4 ANP 503 A 1 HETATM 32 H H4' ANP . . . D 4 -22.441 23.138 17.58 1 70.73 ? H4' ANP 503 A 1 HETATM 33 H H3' ANP . . . D 4 -25.043 22.911 15.961 1 70.74 ? H3' ANP 503 A 1 HETATM 34 H H2' ANP . . . D 4 -25.273 20.713 16.955 1 60.53 ? H2' ANP 503 A 1 HETATM 35 H H1' ANP . . . D 4 -24.21 21.439 19.464 1 58.2 ? H1' ANP 503 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 263 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 35 #