data_3JAL # _model_server_result.job_id R_GIgD7WpX-oWbzvMu_u-A _model_server_result.datetime_utc '2024-11-26 04:53:27' _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 3jal # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"FA","auth_seq_id":501}' # _entry.id 3JAL # _exptl.entry_id 3JAL _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 521.208 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER' _entity.pdbx_number_of_molecules 6 _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 3JAL _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3JAL _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 tetradecameric _pdbx_struct_assembly.oligomeric_count 14 _pdbx_struct_assembly.details author_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,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA _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 ? 6 Q N N ? 6 T N N ? 6 W N N ? 6 Z N N ? 6 CA N N ? 6 FA 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 A OE2 GLU 71 E GLU 71 1_555 P MG MG . E MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.951 ? metalc ? metalc2 O O1B GTP . E GTP 501 1_555 P MG MG . E MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.988 ? metalc ? metalc3 O O3G GTP . E GTP 501 1_555 P MG MG . E MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? metalc ? metalc4 D OE2 GLU 71 J GLU 71 1_555 S MG MG . J MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.862 ? metalc ? metalc5 R O1B GTP . J GTP 501 1_555 S MG MG . J MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.959 ? metalc ? metalc6 R O3G GTP . J GTP 501 1_555 S MG MG . J MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.09 ? metalc ? metalc7 F OE2 GLU 71 C GLU 71 1_555 V MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.903 ? metalc ? metalc8 U O1B GTP . C GTP 501 1_555 V MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.962 ? metalc ? metalc9 U O3G GTP . C GTP 501 1_555 V MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.185 ? metalc ? metalc10 H OE2 GLU 71 L GLU 71 1_555 Y MG MG . L MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.763 ? metalc ? metalc11 X O1B GTP . L GTP 501 1_555 Y MG MG . L MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.978 ? metalc ? metalc12 X O3G GTP . L GTP 501 1_555 Y MG MG . L MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.21 ? metalc ? metalc13 J OE2 GLU 71 A GLU 71 1_555 BA MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.976 ? metalc ? metalc14 AA O1B GTP . A GTP 501 1_555 BA MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.953 ? metalc ? metalc15 AA O3G GTP . A GTP 501 1_555 BA MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.08 ? metalc ? metalc16 M OE2 GLU 71 K GLU 71 1_555 EA MG MG . K MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.872 ? metalc ? metalc17 DA O1B GTP . K GTP 501 1_555 EA MG MG . K MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.948 ? metalc ? metalc18 DA O3G GTP . K GTP 501 1_555 EA MG MG . K MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? # _chem_comp.formula 'C11 H18 N5 O13 P3' _chem_comp.formula_weight 521.208 _chem_comp.id G2P _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE 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 G2P sing 83 n n PG O2G G2P doub 84 n n PG O3G G2P sing 85 n n PG O3B G2P sing 86 n n O3B PB G2P sing 87 n n PB O1B G2P sing 88 n n PB O2B G2P doub 89 n n PB C3A G2P sing 90 n n C3A PA G2P sing 91 n n C3A H3A1 G2P sing 92 n n C3A H3A2 G2P sing 93 n n PA O1A G2P sing 94 n n PA O2A G2P doub 95 n n PA O5' G2P sing 96 n n O5' C5' G2P sing 97 n n C5' C4' G2P sing 98 n n C5' "H5'1" G2P sing 99 n n C5' "H5'2" G2P sing 100 n n C4' O4' G2P sing 101 n n C4' C3' G2P sing 102 n n C4' H4' G2P sing 103 n n O4' C1' G2P sing 104 n n C3' O3' G2P sing 105 n n C3' C2' G2P sing 106 n n C3' H3' G2P sing 107 n n O3' HA G2P sing 108 n n C2' O2' G2P sing 109 n n C2' C1' G2P sing 110 n n C2' H2' G2P sing 111 n n O2' HB G2P sing 112 n n C1' N9 G2P sing 113 n n C1' H1' G2P sing 114 n n N9 C8 G2P sing 115 n y N9 C4 G2P sing 116 n y C8 N7 G2P doub 117 n y C8 H8 G2P sing 118 n n N7 C5 G2P sing 119 n y C5 C6 G2P sing 120 n y C5 C4 G2P doub 121 n y C6 O6 G2P doub 122 n n C6 N1 G2P sing 123 n y N1 C2 G2P sing 124 n y N1 H1 G2P sing 125 n n C2 N2 G2P sing 126 n n C2 N3 G2P doub 127 n y N2 H2N1 G2P sing 128 n n N2 H2N2 G2P sing 129 n n N3 C4 G2P sing 130 n y HO1 O1G G2P sing 131 n n HO2 O3G G2P sing 132 n n HO3 O1A G2P sing 133 n n HO4 O1B G2P sing 134 n n # _atom_sites.entry_id 3JAL _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 O 4 GTP E 1 501 501 GTP GTP . P 5 MG E 1 502 502 MG MG . Q 6 G2P F 1 501 501 G2P G2P . R 4 GTP J 1 501 501 GTP GTP . S 5 MG J 1 502 502 MG MG . T 6 G2P G 1 501 501 G2P G2P . U 4 GTP C 1 501 501 GTP GTP . V 5 MG C 1 502 502 MG MG . W 6 G2P D 1 501 501 G2P G2P . X 4 GTP L 1 501 501 GTP GTP . Y 5 MG L 1 502 502 MG MG . Z 6 G2P I 1 501 501 G2P G2P . AA 4 GTP A 1 501 501 GTP GTP . BA 5 MG A 1 502 502 MG MG . CA 6 G2P B 1 501 501 G2P G2P . DA 4 GTP K 1 501 501 GTP GTP . EA 5 MG K 1 502 502 MG MG . FA 6 G2P H 1 501 501 G2P G2P . # 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 O O3B G2P . . . FA 6 311.253 446.51 263.783 1 60.7 ? O3B G2P 501 H 1 HETATM 2 P PB G2P . . . FA 6 311.739 446.329 262.398 1 61.48 ? PB G2P 501 H 1 HETATM 3 O O1B G2P . . . FA 6 311.783 444.804 261.872 1 62.08 ? O1B G2P 501 H 1 HETATM 4 O O2B G2P . . . FA 6 310.716 447.14 261.452 1 61.67 ? O2B G2P 501 H 1 HETATM 5 C C3A G2P . . . FA 6 313.322 447.17 262.206 1 59.33 ? C3A G2P 501 H 1 HETATM 6 P PA G2P . . . FA 6 314.754 446.34 262.939 1 57.79 ? PA G2P 501 H 1 HETATM 7 O O1A G2P . . . FA 6 314.236 445.911 264.258 1 57.63 ? O1A G2P 501 H 1 HETATM 8 O O2A G2P . . . FA 6 315.348 445.014 262.248 1 56.37 ? O2A G2P 501 H 1 HETATM 9 O O5' G2P . . . FA 6 315.73 447.539 263.364 1 54.27 ? O5' G2P 501 H 1 HETATM 10 C C5' G2P . . . FA 6 317.037 447.856 262.906 1 51.26 ? C5' G2P 501 H 1 HETATM 11 C C4' G2P . . . FA 6 317.811 448.273 264.158 1 49.14 ? C4' G2P 501 H 1 HETATM 12 O O4' G2P . . . FA 6 317.928 447.243 265.173 1 47.05 ? O4' G2P 501 H 1 HETATM 13 C C3' G2P . . . FA 6 319.31 448.342 263.958 1 48.12 ? C3' G2P 501 H 1 HETATM 14 O O3' G2P . . . FA 6 320.01 449.122 264.952 1 48.36 ? O3' G2P 501 H 1 HETATM 15 C C2' G2P . . . FA 6 319.751 446.906 263.783 1 46.44 ? C2' G2P 501 H 1 HETATM 16 O O2' G2P . . . FA 6 321.165 447.06 263.673 1 46.48 ? O2' G2P 501 H 1 HETATM 17 C C1' G2P . . . FA 6 319.158 446.462 265.107 1 45.81 ? C1' G2P 501 H 1 HETATM 18 N N9 G2P . . . FA 6 318.941 445.001 265.078 1 44.43 ? N9 G2P 501 H 1 HETATM 19 C C8 G2P . . . FA 6 318.287 444.256 264.174 1 44.48 ? C8 G2P 501 H 1 HETATM 20 N N7 G2P . . . FA 6 318.328 442.941 264.522 1 43.72 ? N7 G2P 501 H 1 HETATM 21 C C5 G2P . . . FA 6 319.036 442.834 265.657 1 42.84 ? C5 G2P 501 H 1 HETATM 22 C C6 G2P . . . FA 6 319.479 441.745 266.561 1 42.71 ? C6 G2P 501 H 1 HETATM 23 O O6 G2P . . . FA 6 319.193 440.555 266.329 1 43.44 ? O6 G2P 501 H 1 HETATM 24 N N1 G2P . . . FA 6 320.22 442.058 267.628 1 42.3 ? N1 G2P 501 H 1 HETATM 25 C C2 G2P . . . FA 6 320.57 443.325 267.904 1 43.05 ? C2 G2P 501 H 1 HETATM 26 N N2 G2P . . . FA 6 321.313 443.561 269.011 1 43.78 ? N2 G2P 501 H 1 HETATM 27 N N3 G2P . . . FA 6 320.179 444.38 267.137 1 43.14 ? N3 G2P 501 H 1 HETATM 28 C C4 G2P . . . FA 6 319.433 444.197 266.018 1 43.33 ? C4 G2P 501 H 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 66 _model_server_stats.query_time_ms 234 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 28 #