data_3JAL # _model_server_result.job_id j5FJFdG_uLV2bjpFdI0Egg _model_server_result.datetime_utc '2024-11-26 04:51:25' _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":"Z","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 . . . Z 6 364.695 446.449 273.179 1 59.66 ? O3B G2P 501 I 1 HETATM 2 P PB G2P . . . Z 6 365.061 446.068 271.799 1 60.4 ? PB G2P 501 I 1 HETATM 3 O O1B G2P . . . Z 6 364.409 444.695 271.259 1 60.9 ? O1B G2P 501 I 1 HETATM 4 O O2B G2P . . . Z 6 364.543 447.259 270.844 1 60.22 ? O2B G2P 501 I 1 HETATM 5 C C3A G2P . . . Z 6 366.857 446.087 271.647 1 57.86 ? C3A G2P 501 I 1 HETATM 6 P PA G2P . . . Z 6 367.732 444.69 272.397 1 55.81 ? PA G2P 501 I 1 HETATM 7 O O1A G2P . . . Z 6 367.048 444.543 273.703 1 55.22 ? O1A G2P 501 I 1 HETATM 8 O O2A G2P . . . Z 6 367.664 443.241 271.701 1 54.16 ? O2A G2P 501 I 1 HETATM 9 O O5' G2P . . . Z 6 369.145 445.307 272.842 1 51.85 ? O5' G2P 501 I 1 HETATM 10 C C5' G2P . . . Z 6 370.454 444.981 272.393 1 48.5 ? C5' G2P 501 I 1 HETATM 11 C C4' G2P . . . Z 6 371.351 444.984 273.632 1 46.08 ? C4' G2P 501 I 1 HETATM 12 O O4' G2P . . . Z 6 370.994 444.015 274.649 1 43.69 ? O4' G2P 501 I 1 HETATM 13 C C3' G2P . . . Z 6 372.707 444.347 273.411 1 45.02 ? C3' G2P 501 I 1 HETATM 14 O O3' G2P . . . Z 6 373.704 444.708 274.39 1 45.71 ? O3' G2P 501 I 1 HETATM 15 C C2' G2P . . . Z 6 372.434 442.872 273.237 1 43.23 ? C2' G2P 501 I 1 HETATM 16 O O2' G2P . . . Z 6 373.759 442.357 273.105 1 42.98 ? O2' G2P 501 I 1 HETATM 17 C C1' G2P . . . Z 6 371.722 442.754 274.571 1 42.4 ? C1' G2P 501 I 1 HETATM 18 N N9 G2P . . . Z 6 370.857 441.558 274.551 1 40.93 ? N9 G2P 501 I 1 HETATM 19 C C8 G2P . . . Z 6 369.926 441.199 273.656 1 40.85 ? C8 G2P 501 I 1 HETATM 20 N N7 G2P . . . Z 6 369.36 440.013 274.009 1 40.29 ? N7 G2P 501 I 1 HETATM 21 C C5 G2P . . . Z 6 369.949 439.59 275.138 1 39.73 ? C5 G2P 501 I 1 HETATM 22 C C6 G2P . . . Z 6 369.846 438.416 276.044 1 39.7 ? C6 G2P 501 I 1 HETATM 23 O O6 G2P . . . Z 6 369.04 437.491 275.82 1 39.93 ? O6 G2P 501 I 1 HETATM 24 N N1 G2P . . . Z 6 370.66 438.355 277.105 1 39.31 ? N1 G2P 501 I 1 HETATM 25 C C2 G2P . . . Z 6 371.558 439.321 277.371 1 39.86 ? C2 G2P 501 I 1 HETATM 26 N N2 G2P . . . Z 6 372.335 439.189 278.47 1 40.42 ? N2 G2P 501 I 1 HETATM 27 N N3 G2P . . . Z 6 371.69 440.438 276.603 1 39.87 ? N3 G2P 501 I 1 HETATM 28 C C4 G2P . . . Z 6 370.934 440.618 275.49 1 40.05 ? C4 G2P 501 I 1 # _model_server_stats.io_time_ms 25 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 64 _model_server_stats.query_time_ms 319 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 28 #