data_5HV3 # _model_server_result.job_id r8bAgXVoTY3eKX0PudqhLg _model_server_result.datetime_utc '2024-11-15 22:52:06' _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 5hv3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":901}' # _entry.id 5HV3 # _exptl.entry_id 5HV3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 506.196 _entity.id 2 _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 5HV3 _cell.length_a 58.686 _cell.length_b 127.99 _cell.length_c 140.819 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5HV3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 2 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 2 _struct_asym.id B _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 OE1 GLU 309 A GLU 297 1_555 C MG MG . A MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.93 ? metalc ? metalc2 A OE1 GLN 321 A GLN 309 1_555 C MG MG . A MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.509 ? metalc ? metalc3 B O1G ANP . A ANP 901 1_555 C MG MG . A MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.167 ? metalc ? metalc4 B O1B ANP . A ANP 901 1_555 C MG MG . A MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.418 ? metalc ? metalc5 B O3A ANP . A ANP 901 1_555 C MG MG . A MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.983 ? # _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 5HV3 _atom_sites.fract_transf_matrix[1][1] 0.01704 _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] 0.007813 _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] 0.007101 _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 ANP A 1 901 868 ANP ANP . C 3 MG A 1 902 869 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 . . . B 2 -22.014 -38.213 10.386 1 67.35 ? PG ANP 901 A 1 HETATM 2 O O1G ANP . . . B 2 -23.47 -37.936 10.253 1 74.42 ? O1G ANP 901 A 1 HETATM 3 O O2G ANP . . . B 2 -21.807 -39.222 11.569 1 57.81 ? O2G ANP 901 A 1 HETATM 4 O O3G ANP . . . B 2 -21.28 -36.85 10.72 1 68.51 ? O3G ANP 901 A 1 HETATM 5 P PB ANP . . . B 2 -22.195 -38.272 7.555 1 73.62 ? PB ANP 901 A 1 HETATM 6 O O1B ANP . . . B 2 -22.132 -36.773 7.559 1 82.78 ? O1B ANP 901 A 1 HETATM 7 O O2B ANP . . . B 2 -21.439 -38.857 6.321 1 62.73 ? O2B ANP 901 A 1 HETATM 8 N N3B ANP . . . B 2 -21.438 -38.897 8.93 1 69.52 ? N3B ANP 901 A 1 HETATM 9 P PA ANP . . . B 2 -23.997 -40.17 7.283 1 78.07 ? PA ANP 901 A 1 HETATM 10 O O1A ANP . . . B 2 -25.261 -40.688 7.832 1 46.64 ? O1A ANP 901 A 1 HETATM 11 O O2A ANP . . . B 2 -22.779 -40.822 7.924 1 77.71 ? O2A ANP 901 A 1 HETATM 12 O O3A ANP . . . B 2 -23.714 -38.653 7.527 1 66.86 ? O3A ANP 901 A 1 HETATM 13 O O5' ANP . . . B 2 -23.966 -40.335 5.728 1 60.4 ? O5' ANP 901 A 1 HETATM 14 C C5' ANP . . . B 2 -25.164 -40.591 5.035 1 59.16 ? C5' ANP 901 A 1 HETATM 15 C C4' ANP . . . B 2 -25.247 -39.651 3.867 1 59.5 ? C4' ANP 901 A 1 HETATM 16 O O4' ANP . . . B 2 -26.292 -40.113 2.995 1 64.38 ? O4' ANP 901 A 1 HETATM 17 C C3' ANP . . . B 2 -25.668 -38.232 4.212 1 56.16 ? C3' ANP 901 A 1 HETATM 18 O O3' ANP . . . B 2 -25.375 -37.354 3.134 1 63.75 ? O3' ANP 901 A 1 HETATM 19 C C2' ANP . . . B 2 -27.176 -38.38 4.37 1 51.42 ? C2' ANP 901 A 1 HETATM 20 O O2' ANP . . . B 2 -27.825 -37.153 4.071 1 59.09 ? O2' ANP 901 A 1 HETATM 21 C C1' ANP . . . B 2 -27.499 -39.446 3.306 1 59.05 ? C1' ANP 901 A 1 HETATM 22 N N9 ANP . . . B 2 -28.446 -40.447 3.765 1 53 ? N9 ANP 901 A 1 HETATM 23 C C8 ANP . . . B 2 -28.454 -41.073 4.983 1 49.39 ? C8 ANP 901 A 1 HETATM 24 N N7 ANP . . . B 2 -29.431 -41.942 5.118 1 51.13 ? N7 ANP 901 A 1 HETATM 25 C C5 ANP . . . B 2 -30.098 -41.893 3.927 1 50.37 ? C5 ANP 901 A 1 HETATM 26 C C6 ANP . . . B 2 -31.234 -42.565 3.424 1 51.35 ? C6 ANP 901 A 1 HETATM 27 N N6 ANP . . . B 2 -31.919 -43.475 4.143 1 52.96 ? N6 ANP 901 A 1 HETATM 28 N N1 ANP . . . B 2 -31.648 -42.285 2.172 1 53.54 ? N1 ANP 901 A 1 HETATM 29 C C2 ANP . . . B 2 -30.975 -41.375 1.462 1 54.44 ? C2 ANP 901 A 1 HETATM 30 N N3 ANP . . . B 2 -29.895 -40.673 1.815 1 52.72 ? N3 ANP 901 A 1 HETATM 31 C C4 ANP . . . B 2 -29.51 -40.975 3.048 1 51.44 ? C4 ANP 901 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 272 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 31 #