data_6JT2 # _model_server_result.job_id Is3OCTM5NqbKZCREmShzTQ _model_server_result.datetime_utc '2024-11-26 04:34:47' _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 6jt2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1001}' # _entry.id 6JT2 # _exptl.entry_id 6JT2 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 521.208 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE 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 90 _cell.entry_id 6JT2 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6JT2 _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 ? _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 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 ASP 486 A ASP 486 1_555 D MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? metalc ? metalc2 A OD2 ASP 486 A ASP 486 1_555 D MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? metalc ? metalc3 A OD1 ASP 486 A ASP 486 1_555 E MG MG . A MG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.689 ? metalc ? metalc4 A O ILE 487 A ILE 487 1_555 D MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.403 ? metalc ? metalc5 A OD2 ASP 530 A ASP 530 1_555 D MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.279 ? metalc ? metalc6 A OD1 ASP 530 A ASP 530 1_555 E MG MG . A MG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.484 ? metalc ? metalc7 A OD2 ASP 530 A ASP 530 1_555 E MG MG . A MG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.966 ? metalc ? metalc8 C O2B G2P . A G2P 1001 1_555 D MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.98 ? metalc ? metalc9 C O1A G2P . A G2P 1001 1_555 D MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.96 ? metalc ? metalc10 C O1A G2P . A G2P 1001 1_555 E MG MG . A MG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.277 ? metalc ? metalc11 C O5' G2P . A G2P 1001 1_555 E MG MG . A MG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.172 ? # _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 6JT2 _atom_sites.fract_transf_matrix[1][1] 0.003987 _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] 0.003987 _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] 0.003987 _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 C 3 G2P A 1 1001 1001 G2P G2P . D 4 MG A 1 1002 1002 MG MG . E 4 MG A 1 1003 1003 MG MG . F 5 HEM B 1 1000 1000 HEM HEM . # 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 G2P . . . C 3 185.165 129.925 123.453 1 146.1 ? PG G2P 1001 A 1 HETATM 2 O O1G G2P . . . C 3 184.187 131.065 123.313 1 142.17 ? O1G G2P 1001 A 1 HETATM 3 O O2G G2P . . . C 3 186.381 130.033 122.565 1 149 ? O2G G2P 1001 A 1 HETATM 4 O O3G G2P . . . C 3 185.49 129.528 124.874 1 136.85 ? O3G G2P 1001 A 1 HETATM 5 O O3B G2P . . . C 3 184.363 128.669 122.844 1 147.87 ? O3B G2P 1001 A 1 HETATM 6 P PB G2P . . . C 3 183.64 127.598 123.803 1 158.65 ? PB G2P 1001 A 1 HETATM 7 O O1B G2P . . . C 3 184.721 126.517 124.306 1 149.12 ? O1B G2P 1001 A 1 HETATM 8 O O2B G2P . . . C 3 183.058 128.299 124.965 1 146.85 ? O2B G2P 1001 A 1 HETATM 9 C C3A G2P . . . C 3 182.319 126.755 122.896 1 142.4 ? C3A G2P 1001 A 1 HETATM 10 P PA G2P . . . C 3 181.587 127.897 121.695 1 143.65 ? PA G2P 1001 A 1 HETATM 11 O O1A G2P . . . C 3 182.028 129.405 122.047 1 133.12 ? O1A G2P 1001 A 1 HETATM 12 O O2A G2P . . . C 3 182.041 127.564 120.327 1 143.32 ? O2A G2P 1001 A 1 HETATM 13 O O5' G2P . . . C 3 179.987 127.773 121.792 1 139.65 ? O5' G2P 1001 A 1 HETATM 14 C C5' G2P . . . C 3 179.388 126.483 121.694 1 125.96 ? C5' G2P 1001 A 1 HETATM 15 C C4' G2P . . . C 3 179.163 126.142 120.228 1 114.29 ? C4' G2P 1001 A 1 HETATM 16 O O4' G2P . . . C 3 178.266 125.035 120.133 1 110.05 ? O4' G2P 1001 A 1 HETATM 17 C C3' G2P . . . C 3 178.543 127.311 119.481 1 113.52 ? C3' G2P 1001 A 1 HETATM 18 O O3' G2P . . . C 3 179.319 127.615 118.319 1 121.16 ? O3' G2P 1001 A 1 HETATM 19 C C2' G2P . . . C 3 177.156 126.858 119.082 1 108.19 ? C2' G2P 1001 A 1 HETATM 20 O O2' G2P . . . C 3 176.953 127.105 117.688 1 104.45 ? O2' G2P 1001 A 1 HETATM 21 C C1' G2P . . . C 3 177.117 125.363 119.349 1 107.25 ? C1' G2P 1001 A 1 HETATM 22 N N9 G2P . . . C 3 175.884 124.993 120.083 1 96.95 ? N9 G2P 1001 A 1 HETATM 23 C C8 G2P . . . C 3 175.827 124.389 121.285 1 96.23 ? C8 G2P 1001 A 1 HETATM 24 N N7 G2P . . . C 3 174.54 124.186 121.668 1 95.47 ? N7 G2P 1001 A 1 HETATM 25 C C5 G2P . . . C 3 173.747 124.666 120.693 1 98.41 ? C5 G2P 1001 A 1 HETATM 26 C C6 G2P . . . C 3 172.288 124.772 120.452 1 110.52 ? C6 G2P 1001 A 1 HETATM 27 O O6 G2P . . . C 3 171.46 124.349 121.289 1 110.82 ? O6 G2P 1001 A 1 HETATM 28 N N1 G2P . . . C 3 171.881 125.338 119.308 1 104.2 ? N1 G2P 1001 A 1 HETATM 29 C C2 G2P . . . C 3 172.748 125.803 118.389 1 109.51 ? C2 G2P 1001 A 1 HETATM 30 N N2 G2P . . . C 3 172.259 126.361 117.256 1 119.69 ? N2 G2P 1001 A 1 HETATM 31 N N3 G2P . . . C 3 174.093 125.738 118.543 1 97.5 ? N3 G2P 1001 A 1 HETATM 32 C C4 G2P . . . C 3 174.64 125.189 119.65 1 89.56 ? C4 G2P 1001 A 1 # _model_server_stats.io_time_ms 59 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 247 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 32 #