data_4C3R # _model_server_result.job_id 21b-4m3D8auQ6J0keNy42Q _model_server_result.datetime_utc '2024-11-24 12:42:48' _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 4c3r # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1389}' # _entry.id 4C3R # _exptl.entry_id 4C3R _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 505.208 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE 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 120 _cell.entry_id 4C3R _cell.length_a 83.468 _cell.length_b 83.468 _cell.length_c 172.63 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4C3R _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 61 2 2' # _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 _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 # _chem_comp.formula 'C11 H18 N5 O12 P3' _chem_comp.formula_weight 505.208 _chem_comp.id ACP _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "ADENOSINE-5'-[BETA, GAMMA-METHYLENE]TRIPHOSPHATE" # 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 ACP doub 1 n n PG O2G ACP sing 2 n n PG O3G ACP sing 3 n n PG C3B ACP sing 4 n n O2G HOG2 ACP sing 5 n n O3G HOG3 ACP sing 6 n n PB O1B ACP doub 7 n n PB O2B ACP sing 8 n n PB C3B ACP sing 9 n n PB O3A ACP sing 10 n n O2B HOB2 ACP sing 11 n n C3B H3B1 ACP sing 12 n n C3B H3B2 ACP sing 13 n n PA O1A ACP doub 14 n n PA O2A ACP sing 15 n n PA O3A ACP sing 16 n n PA O5' ACP sing 17 n n O2A HOA2 ACP sing 18 n n O5' C5' ACP sing 19 n n C5' C4' ACP sing 20 n n C5' "H5'1" ACP sing 21 n n C5' "H5'2" ACP sing 22 n n C4' O4' ACP sing 23 n n C4' C3' ACP sing 24 n n C4' H4' ACP sing 25 n n O4' C1' ACP sing 26 n n C3' O3' ACP sing 27 n n C3' C2' ACP sing 28 n n C3' H3' ACP sing 29 n n O3' HO3' ACP sing 30 n n C2' O2' ACP sing 31 n n C2' C1' ACP sing 32 n n C2' H2' ACP sing 33 n n O2' HO2' ACP sing 34 n n C1' N9 ACP sing 35 n n C1' H1' ACP sing 36 n n N9 C8 ACP sing 37 n y N9 C4 ACP sing 38 n y C8 N7 ACP doub 39 n y C8 H8 ACP sing 40 n n N7 C5 ACP sing 41 n y C5 C6 ACP sing 42 n y C5 C4 ACP doub 43 n y C6 N6 ACP sing 44 n n C6 N1 ACP doub 45 n y N6 HN61 ACP sing 46 n n N6 HN62 ACP sing 47 n n N1 C2 ACP sing 48 n y C2 N3 ACP doub 49 n y C2 H2 ACP sing 50 n n N3 C4 ACP sing 51 n y # _atom_sites.entry_id 4C3R _atom_sites.fract_transf_matrix[1][1] 0.011981 _atom_sites.fract_transf_matrix[1][2] 0.006917 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013834 _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] 0.005793 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # _pdbx_nonpoly_scheme.asym_id B _pdbx_nonpoly_scheme.entity_id 2 _pdbx_nonpoly_scheme.mon_id ACP _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 1389 _pdbx_nonpoly_scheme.auth_seq_num 1389 _pdbx_nonpoly_scheme.pdb_mon_id ACP _pdbx_nonpoly_scheme.auth_mon_id ACP _pdbx_nonpoly_scheme.pdb_ins_code . # 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 ACP . . . B 2 11.966 26.474 2.43 1 130.7 ? PG ACP 1389 A 1 HETATM 2 O O1G ACP . . . B 2 11.165 27.763 1.889 1 119.12 ? O1G ACP 1389 A 1 HETATM 3 O O2G ACP . . . B 2 12.191 26.551 4.025 1 122.61 ? O2G ACP 1389 A 1 HETATM 4 O O3G ACP . . . B 2 13.293 26.428 1.769 1 128.77 ? O3G ACP 1389 A 1 HETATM 5 P PB ACP . . . B 2 9.89 24.552 3.453 1 134.61 ? PB ACP 1389 A 1 HETATM 6 O O1B ACP . . . B 2 9.564 23.105 3.355 1 127.22 ? O1B ACP 1389 A 1 HETATM 7 O O2B ACP . . . B 2 10.71 24.815 4.826 1 126.16 ? O2B ACP 1389 A 1 HETATM 8 C C3B ACP . . . B 2 10.955 25.012 2.049 1 128.5 ? C3B ACP 1389 A 1 HETATM 9 P PA ACP . . . B 2 8.142 26.793 4.11 1 121.46 ? PA ACP 1389 A 1 HETATM 10 O O1A ACP . . . B 2 8.272 26.816 5.625 1 99.88 ? O1A ACP 1389 A 1 HETATM 11 O O2A ACP . . . B 2 8.861 27.836 3.282 1 116.13 ? O2A ACP 1389 A 1 HETATM 12 O O3A ACP . . . B 2 8.461 25.337 3.453 1 129.1 ? O3A ACP 1389 A 1 HETATM 13 O O5' ACP . . . B 2 6.575 26.912 3.792 1 112.44 ? O5' ACP 1389 A 1 HETATM 14 C C5' ACP . . . B 2 6.115 27.112 2.463 1 113.71 ? C5' ACP 1389 A 1 HETATM 15 C C4' ACP . . . B 2 5.577 28.518 2.21 1 101.37 ? C4' ACP 1389 A 1 HETATM 16 O O4' ACP . . . B 2 4.307 28.694 2.847 1 110.98 ? O4' ACP 1389 A 1 HETATM 17 C C3' ACP . . . B 2 6.432 29.668 2.701 1 97.36 ? C3' ACP 1389 A 1 HETATM 18 O O3' ACP . . . B 2 7.422 30.103 1.772 1 105.31 ? O3' ACP 1389 A 1 HETATM 19 C C2' ACP . . . B 2 5.4 30.755 2.857 1 104.32 ? C2' ACP 1389 A 1 HETATM 20 O O2' ACP . . . B 2 5.057 31.319 1.585 1 100.5 ? O2' ACP 1389 A 1 HETATM 21 C C1' ACP . . . B 2 4.214 30.011 3.415 1 105.89 ? C1' ACP 1389 A 1 HETATM 22 N N9 ACP . . . B 2 4.267 29.97 4.906 1 98.62 ? N9 ACP 1389 A 1 HETATM 23 C C8 ACP . . . B 2 4.923 29.036 5.622 1 98.16 ? C8 ACP 1389 A 1 HETATM 24 N N7 ACP . . . B 2 4.795 29.234 6.954 1 95.43 ? N7 ACP 1389 A 1 HETATM 25 C C5 ACP . . . B 2 4.03 30.319 7.105 1 97.1 ? C5 ACP 1389 A 1 HETATM 26 C C6 ACP . . . B 2 3.514 31.062 8.259 1 88.6 ? C6 ACP 1389 A 1 HETATM 27 N N6 ACP . . . B 2 3.846 30.615 9.474 1 88.06 ? N6 ACP 1389 A 1 HETATM 28 N N1 ACP . . . B 2 2.747 32.157 8.054 1 88.04 ? N1 ACP 1389 A 1 HETATM 29 C C2 ACP . . . B 2 2.456 32.568 6.801 1 97.28 ? C2 ACP 1389 A 1 HETATM 30 N N3 ACP . . . B 2 2.896 31.923 5.693 1 98.45 ? N3 ACP 1389 A 1 HETATM 31 C C4 ACP . . . B 2 3.679 30.813 5.767 1 95.88 ? C4 ACP 1389 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 480 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 31 #