data_8PSY # _model_server_result.job_id RfF29DIzVaIf27vS7PGFKw _model_server_result.datetime_utc '2024-11-25 02:33:50' _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 8psy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 8PSY # _exptl.entry_id 8PSY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 426.216 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'AMP PHOSPHORAMIDATE' _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 8PSY _cell.length_a 41.9 _cell.length_b 78.33 _cell.length_c 127.14 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8PSY _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 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,D _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 # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 165 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 161 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id C _struct_conn.ptnr2_label_atom_id C3 _struct_conn.ptnr2_label_comp_id EI0 _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id EI0 _struct_conn.ptnr2_auth_seq_id 402 _struct_conn.ptnr2_symmetry 1_555 _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 1.742 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C10 H16 N6 O9 P2' _chem_comp.formula_weight 426.216 _chem_comp.id AN2 _chem_comp.mon_nstd_flag . _chem_comp.name 'AMP PHOSPHORAMIDATE' _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 N3B PB AN2 sing 13 n n N3B H3B1 AN2 sing 14 n n N3B H3B2 AN2 sing 15 n n PB O2B AN2 sing 16 n n PB O1B AN2 doub 17 n n PB O3A AN2 sing 18 n n O2B HO2B AN2 sing 19 n n O3A PA AN2 sing 20 n n PA O1A AN2 doub 21 n n PA O2A AN2 sing 22 n n PA O5' AN2 sing 23 n n O2A HO2A AN2 sing 24 n n O5' C5' AN2 sing 25 n n C5' C4' AN2 sing 26 n n C5' "H5'1" AN2 sing 27 n n C5' "H5'2" AN2 sing 28 n n C4' O4' AN2 sing 29 n n C4' C3' AN2 sing 30 n n C4' H4' AN2 sing 31 n n O4' C1' AN2 sing 32 n n C3' O3' AN2 sing 33 n n C3' C2' AN2 sing 34 n n C3' H3' AN2 sing 35 n n O3' HA AN2 sing 36 n n C2' O2' AN2 sing 37 n n C2' C1' AN2 sing 38 n n C2' H2' AN2 sing 39 n n O2' HB AN2 sing 40 n n C1' N9 AN2 sing 41 n n C1' H1' AN2 sing 42 n n N9 C8 AN2 sing 43 n y N9 C4 AN2 sing 44 n y C8 N7 AN2 doub 45 n y C8 H8 AN2 sing 46 n n N7 C5 AN2 sing 47 n y C5 C4 AN2 doub 48 n y C5 C6 AN2 sing 49 n y C4 N3 AN2 sing 50 n y N3 C2 AN2 doub 51 n y C2 N1 AN2 sing 52 n y C2 H2 AN2 sing 53 n n N1 C6 AN2 doub 54 n y C6 N6 AN2 sing 55 n n N6 H6N1 AN2 sing 56 n n N6 H6N2 AN2 sing 57 n n # _atom_sites.entry_id 8PSY _atom_sites.fract_transf_matrix[1][1] 0.023866 _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] 0.012767 _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] 0.007865 _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 AN2 A 1 401 401 AN2 AN2 . C 3 EI0 A 1 402 501 EI0 R68 . D 4 HOH A 1 501 10 HOH HOH . D 4 HOH A 2 502 5 HOH HOH . D 4 HOH A 3 503 13 HOH HOH . D 4 HOH A 4 504 14 HOH HOH . D 4 HOH A 5 505 6 HOH HOH . D 4 HOH A 6 506 12 HOH HOH . D 4 HOH A 7 507 8 HOH HOH . D 4 HOH A 8 508 1 HOH HOH . D 4 HOH A 9 509 3 HOH HOH . D 4 HOH A 10 510 17 HOH HOH . D 4 HOH A 11 511 4 HOH HOH . D 4 HOH A 12 512 2 HOH HOH . D 4 HOH A 13 513 11 HOH HOH . D 4 HOH A 14 514 16 HOH HOH . D 4 HOH A 15 515 18 HOH HOH . D 4 HOH A 16 516 19 HOH HOH . D 4 HOH A 17 517 15 HOH HOH . D 4 HOH A 18 518 9 HOH HOH . D 4 HOH A 19 519 7 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 N N3B AN2 . . . B 2 -24.068 -11.045 17.666 1 89.48 ? N3B AN2 401 A 1 HETATM 2 P PB AN2 . . . B 2 -22.766 -10.011 17.196 1 91.29 ? PB AN2 401 A 1 HETATM 3 O O2B AN2 . . . B 2 -21.815 -9.823 18.36 1 99.69 ? O2B AN2 401 A 1 HETATM 4 O O1B AN2 . . . B 2 -23.26 -8.693 16.63 1 82.4 ? O1B AN2 401 A 1 HETATM 5 O O3A AN2 . . . B 2 -21.93 -10.799 16.027 1 89.14 ? O3A AN2 401 A 1 HETATM 6 P PA AN2 . . . B 2 -22.083 -10.493 14.431 1 78.84 ? PA AN2 401 A 1 HETATM 7 O O1A AN2 . . . B 2 -20.901 -11.141 13.872 1 82.36 ? O1A AN2 401 A 1 HETATM 8 O O2A AN2 . . . B 2 -21.944 -9.068 14.045 1 81.82 ? O2A AN2 401 A 1 HETATM 9 O O5' AN2 . . . B 2 -23.468 -11.11 13.848 1 74.7 ? O5' AN2 401 A 1 HETATM 10 C C5' AN2 . . . B 2 -23.924 -12.214 14.55 1 64.87 ? C5' AN2 401 A 1 HETATM 11 C C4' AN2 . . . B 2 -25.027 -12.895 13.844 1 57.35 ? C4' AN2 401 A 1 HETATM 12 O O4' AN2 . . . B 2 -24.493 -13.582 12.687 1 55.45 ? O4' AN2 401 A 1 HETATM 13 C C3' AN2 . . . B 2 -25.332 -13.932 14.87 1 60.43 ? C3' AN2 401 A 1 HETATM 14 O O3' AN2 . . . B 2 -26.644 -14.439 14.692 1 69.5 ? O3' AN2 401 A 1 HETATM 15 C C2' AN2 . . . B 2 -24.281 -14.961 14.618 1 57.47 ? C2' AN2 401 A 1 HETATM 16 O O2' AN2 . . . B 2 -24.702 -16.24 15.099 1 62.62 ? O2' AN2 401 A 1 HETATM 17 C C1' AN2 . . . B 2 -24.099 -14.937 13.116 1 53.65 ? C1' AN2 401 A 1 HETATM 18 N N9 AN2 . . . B 2 -22.758 -15.317 12.716 1 49.93 ? N9 AN2 401 A 1 HETATM 19 C C8 AN2 . . . B 2 -21.716 -14.515 12.848 1 48.56 ? C8 AN2 401 A 1 HETATM 20 N N7 AN2 . . . B 2 -20.612 -15.151 12.387 1 45.29 ? N7 AN2 401 A 1 HETATM 21 C C5 AN2 . . . B 2 -21.052 -16.477 11.929 1 43.89 ? C5 AN2 401 A 1 HETATM 22 C C4 AN2 . . . B 2 -22.489 -16.505 12.178 1 44.95 ? C4 AN2 401 A 1 HETATM 23 N N3 AN2 . . . B 2 -23.17 -17.579 11.854 1 44.1 ? N3 AN2 401 A 1 HETATM 24 C C2 AN2 . . . B 2 -22.595 -18.615 11.325 1 43.36 ? C2 AN2 401 A 1 HETATM 25 N N1 AN2 . . . B 2 -21.319 -18.658 11.085 1 43.08 ? N1 AN2 401 A 1 HETATM 26 C C6 AN2 . . . B 2 -20.52 -17.638 11.351 1 44.47 ? C6 AN2 401 A 1 HETATM 27 N N6 AN2 . . . B 2 -19.106 -17.753 11.034 1 47.68 ? N6 AN2 401 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 283 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 27 #