data_8XJ6 # _model_server_result.job_id wFM5qVGid3TZ_BNeka0LsA _model_server_result.datetime_utc '2024-11-22 21:36:05' _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 8xj6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":801}' # _entry.id 8XJ6 # _exptl.entry_id 8XJ6 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 426.216 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'AMP PHOSPHORAMIDATE' _entity.pdbx_number_of_molecules 3 _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 8XJ6 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8XJ6 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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,E,F,G,H,I,J,K,L,M,N _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 H N N ? 3 K N N ? 3 M N 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 E SG CYS 282 E CYS 282 1_555 L ZN ZN . E ZN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.86 ? metalc ? metalc2 E SG CYS 285 E CYS 285 1_555 L ZN ZN . E ZN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.502 ? metalc ? metalc3 E ND1 HIS 290 E HIS 290 1_555 L ZN ZN . E ZN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.514 ? metalc ? metalc4 E SG CYS 314 E CYS 314 1_555 L ZN ZN . E ZN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.698 ? metalc ? metalc5 F SG CYS 282 F CYS 282 1_555 N ZN ZN . F ZN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.431 ? metalc ? metalc6 F SG CYS 285 F CYS 285 1_555 N ZN ZN . F ZN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.203 ? metalc ? metalc7 F SG CYS 314 F CYS 314 1_555 N ZN ZN . F ZN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.383 ? # _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 8XJ6 _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 G 2 ANP A 1 801 801 ANP ANP . H 3 AN2 B 1 801 801 AN2 ANP . I 2 ANP C 1 801 801 ANP ANP . J 2 ANP D 1 801 801 ANP ANP . K 3 AN2 E 1 801 801 AN2 ANP . L 4 ZN E 1 802 1 ZN ZN . M 3 AN2 F 1 801 801 AN2 ANP . N 4 ZN F 1 802 2 ZN ZN . # 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 . . . H 3 132.042 164.783 195.68 1 200.07 ? N3B AN2 801 B 1 HETATM 2 P PB AN2 . . . H 3 132.655 166.242 195.781 1 200.07 ? PB AN2 801 B 1 HETATM 3 O O2B AN2 . . . H 3 133.288 166.485 197.09 1 200.07 ? O2B AN2 801 B 1 HETATM 4 O O1B AN2 . . . H 3 133.551 166.435 194.56 1 200.07 ? O1B AN2 801 B 1 HETATM 5 O O3A AN2 . . . H 3 131.368 167.15 195.561 1 200.07 ? O3A AN2 801 B 1 HETATM 6 P PA AN2 . . . H 3 130.529 167.677 194.327 1 200.07 ? PA AN2 801 B 1 HETATM 7 O O1A AN2 . . . H 3 130.145 166.568 193.43 1 200.07 ? O1A AN2 801 B 1 HETATM 8 O O2A AN2 . . . H 3 131.345 168.79 193.669 1 200.07 ? O2A AN2 801 B 1 HETATM 9 O O5' AN2 . . . H 3 129.259 168.316 195.012 1 200.07 ? O5' AN2 801 B 1 HETATM 10 C C5' AN2 . . . H 3 128.079 167.529 195.278 1 200.07 ? C5' AN2 801 B 1 HETATM 11 C C4' AN2 . . . H 3 126.86 168.392 195.075 1 200.07 ? C4' AN2 801 B 1 HETATM 12 O O4' AN2 . . . H 3 126.991 169.607 195.846 1 200.07 ? O4' AN2 801 B 1 HETATM 13 C C3' AN2 . . . H 3 126.592 168.813 193.627 1 200.07 ? C3' AN2 801 B 1 HETATM 14 O O3' AN2 . . . H 3 125.221 168.648 193.283 1 200.07 ? O3' AN2 801 B 1 HETATM 15 C C2' AN2 . . . H 3 127.004 170.287 193.606 1 200.07 ? C2' AN2 801 B 1 HETATM 16 O O2' AN2 . . . H 3 126.229 171.033 192.674 1 200.07 ? O2' AN2 801 B 1 HETATM 17 C C1' AN2 . . . H 3 126.672 170.714 195.032 1 200.07 ? C1' AN2 801 B 1 HETATM 18 N N9 AN2 . . . H 3 127.437 171.864 195.496 1 200.07 ? N9 AN2 801 B 1 HETATM 19 C C8 AN2 . . . H 3 128.791 171.93 195.699 1 200.07 ? C8 AN2 801 B 1 HETATM 20 N N7 AN2 . . . H 3 129.214 173.098 196.115 1 200.07 ? N7 AN2 801 B 1 HETATM 21 C C5 AN2 . . . H 3 128.056 173.858 196.19 1 200.07 ? C5 AN2 801 B 1 HETATM 22 C C4 AN2 . . . H 3 126.953 173.11 195.809 1 200.07 ? C4 AN2 801 B 1 HETATM 23 N N3 AN2 . . . H 3 125.683 173.526 195.763 1 200.07 ? N3 AN2 801 B 1 HETATM 24 C C2 AN2 . . . H 3 125.579 174.801 196.142 1 200.07 ? C2 AN2 801 B 1 HETATM 25 N N1 AN2 . . . H 3 126.543 175.64 196.528 1 200.07 ? N1 AN2 801 B 1 HETATM 26 C C6 AN2 . . . H 3 127.818 175.193 196.566 1 200.07 ? C6 AN2 801 B 1 HETATM 27 N N6 AN2 . . . H 3 128.777 176.038 196.955 1 200.07 ? N6 AN2 801 B 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 38 _model_server_stats.query_time_ms 266 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 27 #