data_4U81 # _model_server_result.job_id kLb5eN9BAJshCDWuJxNOMQ _model_server_result.datetime_utc '2024-11-26 16:32:56' _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 4u81 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":503}' # _entry.id 4U81 # _exptl.entry_id 4U81 _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 4U81 _cell.length_a 82.083 _cell.length_b 82.083 _cell.length_c 129.48 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4U81 _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 ? ? ? ? ? ? ? ? ? ? ? ? 2.26 ? metalc ? metalc2 A OD2 ASP 148 A ASP 208 1_555 B MG MG . A MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? metalc ? metalc3 B MG MG . A MG 501 1_555 D O2B ANP . A ANP 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.344 ? metalc ? metalc4 B MG MG . A MG 501 1_555 D O2A ANP . A ANP 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.325 ? metalc ? metalc5 B MG MG . A MG 501 1_555 E O HOH . A HOH 609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? # _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 62 n n PG O2G ANP sing 63 n n PG O3G ANP sing 64 n n PG N3B ANP sing 65 n n O2G HOG2 ANP sing 66 n n O3G HOG3 ANP sing 67 n n PB O1B ANP doub 68 n n PB O2B ANP sing 69 n n PB N3B ANP sing 70 n n PB O3A ANP sing 71 n n O2B HOB2 ANP sing 72 n n N3B HNB1 ANP sing 73 n n PA O1A ANP doub 74 n n PA O2A ANP sing 75 n n PA O3A ANP sing 76 n n PA O5' ANP sing 77 n n O2A HOA2 ANP sing 78 n n O5' C5' ANP sing 79 n n C5' C4' ANP sing 80 n n C5' "H5'1" ANP sing 81 n n C5' "H5'2" ANP sing 82 n n C4' O4' ANP sing 83 n n C4' C3' ANP sing 84 n n C4' H4' ANP sing 85 n n O4' C1' ANP sing 86 n n C3' O3' ANP sing 87 n n C3' C2' ANP sing 88 n n C3' H3' ANP sing 89 n n O3' HO3' ANP sing 90 n n C2' O2' ANP sing 91 n n C2' C1' ANP sing 92 n n C2' H2' ANP sing 93 n n O2' HO2' ANP sing 94 n n C1' N9 ANP sing 95 n n C1' H1' ANP sing 96 n n N9 C8 ANP sing 97 n y N9 C4 ANP sing 98 n y C8 N7 ANP doub 99 n y C8 H8 ANP sing 100 n n N7 C5 ANP sing 101 n y C5 C6 ANP sing 102 n y C5 C4 ANP doub 103 n y C6 N6 ANP sing 104 n n C6 N1 ANP doub 105 n y N6 HN61 ANP sing 106 n n N6 HN62 ANP sing 107 n n N1 C2 ANP sing 108 n y C2 N3 ANP doub 109 n y C2 H2 ANP sing 110 n n N3 C4 ANP sing 111 n y # _atom_sites.entry_id 4U81 _atom_sites.fract_transf_matrix[1][1] 0.012183 _atom_sites.fract_transf_matrix[1][2] 0.007034 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014067 _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] 0.007723 _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 3EY A 1 502 1 3EY XXX . D 4 ANP A 1 503 1 ANP DRG . E 5 HOH A 1 601 2 HOH HOH . E 5 HOH A 2 602 22 HOH HOH . E 5 HOH A 3 603 20 HOH HOH . E 5 HOH A 4 604 15 HOH HOH . E 5 HOH A 5 605 21 HOH HOH . E 5 HOH A 6 606 3 HOH HOH . E 5 HOH A 7 607 7 HOH HOH . E 5 HOH A 8 608 17 HOH HOH . E 5 HOH A 9 609 1 HOH HOH . E 5 HOH A 10 610 4 HOH HOH . E 5 HOH A 11 611 5 HOH HOH . E 5 HOH A 12 612 6 HOH HOH . E 5 HOH A 13 613 8 HOH HOH . E 5 HOH A 14 614 9 HOH HOH . E 5 HOH A 15 615 10 HOH HOH . E 5 HOH A 16 616 11 HOH HOH . E 5 HOH A 17 617 12 HOH HOH . E 5 HOH A 18 618 13 HOH HOH . E 5 HOH A 19 619 14 HOH HOH . E 5 HOH A 20 620 16 HOH HOH . E 5 HOH A 21 621 18 HOH HOH . E 5 HOH A 22 622 19 HOH HOH . E 5 HOH A 23 623 23 HOH HOH . E 5 HOH A 24 624 24 HOH HOH . E 5 HOH A 25 625 25 HOH HOH . E 5 HOH A 26 626 26 HOH HOH . E 5 HOH A 27 627 27 HOH HOH . E 5 HOH A 28 628 28 HOH HOH . E 5 HOH A 29 629 29 HOH HOH . E 5 HOH A 30 630 30 HOH HOH . E 5 HOH A 31 631 31 HOH HOH . E 5 HOH A 32 632 32 HOH HOH . E 5 HOH A 33 633 33 HOH HOH . E 5 HOH A 34 634 34 HOH HOH . E 5 HOH A 35 635 35 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 24.109 28.012 -11.614 1 73.1 ? PG ANP 503 A 1 HETATM 2 O O1G ANP . . . D 4 24.551 28.905 -12.718 1 78.12 ? O1G ANP 503 A 1 HETATM 3 O O2G ANP . . . D 4 22.962 28.742 -10.748 1 60.68 ? O2G ANP 503 A 1 HETATM 4 O O3G ANP . . . D 4 25.403 27.703 -10.71 1 101.86 ? O3G ANP 503 A 1 HETATM 5 P PB ANP . . . D 4 24.236 25.805 -13.4 1 45.28 ? PB ANP 503 A 1 HETATM 6 O O1B ANP . . . D 4 23.379 24.671 -13.789 1 40.25 ? O1B ANP 503 A 1 HETATM 7 O O2B ANP . . . D 4 25.704 25.306 -12.961 1 36.17 ? O2B ANP 503 A 1 HETATM 8 N N3B ANP . . . D 4 23.409 26.584 -12.162 1 59.38 ? N3B ANP 503 A 1 HETATM 9 P PA ANP . . . D 4 25.423 26.739 -15.919 1 39.18 ? PA ANP 503 A 1 HETATM 10 O O1A ANP . . . D 4 25.19 27.979 -16.899 1 50.19 ? O1A ANP 503 A 1 HETATM 11 O O2A ANP . . . D 4 26.852 26.725 -15.515 1 33.57 ? O2A ANP 503 A 1 HETATM 12 O O3A ANP . . . D 4 24.485 26.795 -14.632 1 29.9 ? O3A ANP 503 A 1 HETATM 13 O O5' ANP . . . D 4 24.986 25.387 -16.655 1 33.16 ? O5' ANP 503 A 1 HETATM 14 C C5' ANP . . . D 4 23.617 25.086 -16.871 1 42.53 ? C5' ANP 503 A 1 HETATM 15 C C4' ANP . . . D 4 23.503 23.644 -17.372 1 51.36 ? C4' ANP 503 A 1 HETATM 16 O O4' ANP . . . D 4 24.281 23.435 -18.58 1 46.64 ? O4' ANP 503 A 1 HETATM 17 C C3' ANP . . . D 4 24.111 22.683 -16.336 1 42.78 ? C3' ANP 503 A 1 HETATM 18 O O3' ANP . . . D 4 23.141 22.348 -15.333 1 46.16 ? O3' ANP 503 A 1 HETATM 19 C C2' ANP . . . D 4 24.432 21.462 -17.208 1 34.97 ? C2' ANP 503 A 1 HETATM 20 O O2' ANP . . . D 4 23.282 20.618 -17.184 1 50.44 ? O2' ANP 503 A 1 HETATM 21 C C1' ANP . . . D 4 24.665 22.044 -18.62 1 30.67 ? C1' ANP 503 A 1 HETATM 22 N N9 ANP . . . D 4 26.077 22.024 -18.981 1 33.91 ? N9 ANP 503 A 1 HETATM 23 C C8 ANP . . . D 4 26.971 22.985 -18.633 1 36.55 ? C8 ANP 503 A 1 HETATM 24 N N7 ANP . . . D 4 28.126 22.68 -19.109 1 36.81 ? N7 ANP 503 A 1 HETATM 25 C C5 ANP . . . D 4 28.063 21.52 -19.81 1 42.49 ? C5 ANP 503 A 1 HETATM 26 C C6 ANP . . . D 4 29.005 20.743 -20.536 1 46.85 ? C6 ANP 503 A 1 HETATM 27 N N6 ANP . . . D 4 30.339 21.16 -20.622 1 41.72 ? N6 ANP 503 A 1 HETATM 28 N N1 ANP . . . D 4 28.575 19.614 -21.13 1 37.68 ? N1 ANP 503 A 1 HETATM 29 C C2 ANP . . . D 4 27.304 19.231 -21.037 1 38.34 ? C2 ANP 503 A 1 HETATM 30 N N3 ANP . . . D 4 26.399 19.931 -20.365 1 48.77 ? N3 ANP 503 A 1 HETATM 31 C C4 ANP . . . D 4 26.732 21.076 -19.739 1 44.77 ? C4 ANP 503 A 1 HETATM 32 H H4' ANP . . . D 4 22.458 23.391 -17.552 1 61.64 ? H4' ANP 503 A 1 HETATM 33 H H3' ANP . . . D 4 25.014 23.1 -15.89 1 51.34 ? H3' ANP 503 A 1 HETATM 34 H H2' ANP . . . D 4 25.315 20.937 -16.845 1 41.97 ? H2' ANP 503 A 1 HETATM 35 H H1' ANP . . . D 4 24.074 21.507 -19.362 1 36.8 ? H1' ANP 503 A 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 319 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 35 #