data_9IMJ # _model_server_result.job_id bNi4q5e5Z8DBSC5UQrk8Uw _model_server_result.datetime_utc '2024-11-14 10:48:59' _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 9imj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":402}' # _entry.id 9IMJ # _exptl.entry_id 9IMJ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 506.196 _entity.id 3 _entity.src_method nat _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 9IMJ _cell.length_a 90.989 _cell.length_b 90.989 _cell.length_c 102.9 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9IMJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 1' # _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 6_555 -x,-x+y,-z+1/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 34.3 # _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 A OD1 ASN 58 A ASN 58 1_555 B MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.927 ? metalc ? metalc2 B MG MG . A MG 401 1_555 C O2G ANP . A ANP 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.298 ? # _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 9IMJ _atom_sites.fract_transf_matrix[1][1] 0.01099 _atom_sites.fract_transf_matrix[1][2] 0.006345 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012691 _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] 0.009718 _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 1 401 1 MG MG . C 3 ANP A 1 402 1 ANP ANP . D 4 HOH A 1 501 13 HOH HOH . D 4 HOH A 2 502 7 HOH HOH . D 4 HOH A 3 503 14 HOH HOH . D 4 HOH A 4 504 5 HOH HOH . D 4 HOH A 5 505 19 HOH HOH . D 4 HOH A 6 506 1 HOH HOH . D 4 HOH A 7 507 12 HOH HOH . D 4 HOH A 8 508 15 HOH HOH . D 4 HOH A 9 509 4 HOH HOH . D 4 HOH A 10 510 9 HOH HOH . D 4 HOH A 11 511 6 HOH HOH . D 4 HOH A 12 512 11 HOH HOH . D 4 HOH A 13 513 2 HOH HOH . D 4 HOH A 14 514 16 HOH HOH . D 4 HOH A 15 515 17 HOH HOH . D 4 HOH A 16 516 8 HOH HOH . D 4 HOH A 17 517 20 HOH HOH . D 4 HOH A 18 518 3 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 36.7 -45.951 10.473 1 37.67 ? PG ANP 402 A 1 HETATM 2 O O1G ANP . . . C 3 36.194 -44.662 11.077 1 43.92 ? O1G ANP 402 A 1 HETATM 3 O O2G ANP . . . C 3 36.478 -45.967 8.917 1 41.97 ? O2G ANP 402 A 1 HETATM 4 O O3G ANP . . . C 3 35.935 -47.212 11.053 1 39.95 ? O3G ANP 402 A 1 HETATM 5 P PB ANP . . . C 3 39.248 -46.832 9.602 1 42.47 ? PB ANP 402 A 1 HETATM 6 O O1B ANP . . . C 3 39.365 -45.877 8.443 1 45.88 ? O1B ANP 402 A 1 HETATM 7 O O2B ANP . . . C 3 40.677 -47.162 10.103 1 42.02 ? O2B ANP 402 A 1 HETATM 8 N N3B ANP . . . C 3 38.356 -46.107 10.824 1 42.07 ? N3B ANP 402 A 1 HETATM 9 P PA ANP . . . C 3 38.934 -48.995 7.889 1 42.11 ? PA ANP 402 A 1 HETATM 10 O O1A ANP . . . C 3 38.345 -50.358 7.92 1 41.39 -1 O1A ANP 402 A 1 HETATM 11 O O2A ANP . . . C 3 38.462 -48.148 6.716 1 42.32 ? O2A ANP 402 A 1 HETATM 12 O O3A ANP . . . C 3 38.541 -48.168 9.183 1 46.88 ? O3A ANP 402 A 1 HETATM 13 O O5' ANP . . . C 3 40.509 -49.072 8.013 1 41.77 ? O5' ANP 402 A 1 HETATM 14 C C5' ANP . . . C 3 41.33 -49.889 7.157 1 44.74 ? C5' ANP 402 A 1 HETATM 15 C C4' ANP . . . C 3 42.743 -49.344 7.062 1 48.3 ? C4' ANP 402 A 1 HETATM 16 O O4' ANP . . . C 3 43.222 -49.461 5.702 1 44.41 ? O4' ANP 402 A 1 HETATM 17 C C3' ANP . . . C 3 42.95 -47.871 7.404 1 48.45 ? C3' ANP 402 A 1 HETATM 18 O O3' ANP . . . C 3 43.008 -47.619 8.807 1 46.59 ? O3' ANP 402 A 1 HETATM 19 C C2' ANP . . . C 3 44.276 -47.577 6.699 1 45.11 ? C2' ANP 402 A 1 HETATM 20 O O2' ANP . . . C 3 45.385 -48.014 7.477 1 51.23 ? O2' ANP 402 A 1 HETATM 21 C C1' ANP . . . C 3 44.151 -48.425 5.422 1 46.01 ? C1' ANP 402 A 1 HETATM 22 N N9 ANP . . . C 3 43.662 -47.658 4.276 1 47.41 ? N9 ANP 402 A 1 HETATM 23 C C8 ANP . . . C 3 42.401 -47.708 3.737 1 43.45 ? C8 ANP 402 A 1 HETATM 24 N N7 ANP . . . C 3 42.223 -46.883 2.735 1 42.02 ? N7 ANP 402 A 1 HETATM 25 C C5 ANP . . . C 3 43.441 -46.235 2.604 1 44.06 ? C5 ANP 402 A 1 HETATM 26 C C6 ANP . . . C 3 43.902 -45.235 1.73 1 50.22 ? C6 ANP 402 A 1 HETATM 27 N N6 ANP . . . C 3 43.144 -44.686 0.771 1 45.74 ? N6 ANP 402 A 1 HETATM 28 N N1 ANP . . . C 3 45.186 -44.809 1.876 1 50 ? N1 ANP 402 A 1 HETATM 29 C C2 ANP . . . C 3 45.938 -45.35 2.839 1 39.6 ? C2 ANP 402 A 1 HETATM 30 N N3 ANP . . . C 3 45.611 -46.3 3.72 1 44.1 ? N3 ANP 402 A 1 HETATM 31 C C4 ANP . . . C 3 44.339 -46.7 3.56 1 48.95 ? C4 ANP 402 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 231 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 31 #