data_3W8R # _model_server_result.job_id KI-tlIK2BB3jxrAld3AFaQ _model_server_result.datetime_utc '2024-12-26 20:10:02' _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 3w8r # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":302}' # _entry.id 3W8R # _exptl.entry_id 3W8R _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 505.208 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER' _entity.pdbx_number_of_molecules 2 _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 3W8R _cell.length_a 68.3 _cell.length_b 124.1 _cell.length_c 60.7 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3W8R _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 D N N ? 3 F N 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 3W8R _atom_sites.fract_transf_matrix[1][1] 0.014641 _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] 0.008058 _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] 0.016474 _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 2 CTN A 1 301 1 CTN CTN . D 3 ACP A 1 302 2 ACP ACP . E 2 CTN B 1 301 3 CTN CTN . F 3 ACP B 1 302 4 ACP ACP . G 4 HOH A 1 401 2 HOH HOH . G 4 HOH A 2 402 4 HOH HOH . G 4 HOH A 3 403 5 HOH HOH . G 4 HOH A 4 404 6 HOH HOH . G 4 HOH A 5 405 8 HOH HOH . G 4 HOH A 6 406 9 HOH HOH . G 4 HOH A 7 407 10 HOH HOH . G 4 HOH A 8 408 11 HOH HOH . G 4 HOH A 9 409 12 HOH HOH . G 4 HOH A 10 410 14 HOH HOH . G 4 HOH A 11 411 15 HOH HOH . G 4 HOH A 12 412 16 HOH HOH . G 4 HOH A 13 413 17 HOH HOH . G 4 HOH A 14 414 18 HOH HOH . G 4 HOH A 15 415 19 HOH HOH . G 4 HOH A 16 416 20 HOH HOH . G 4 HOH A 17 417 22 HOH HOH . G 4 HOH A 18 418 31 HOH HOH . G 4 HOH A 19 419 33 HOH HOH . G 4 HOH A 20 420 34 HOH HOH . G 4 HOH A 21 421 35 HOH HOH . G 4 HOH A 22 422 36 HOH HOH . H 4 HOH B 1 401 1 HOH HOH . H 4 HOH B 2 402 23 HOH HOH . H 4 HOH B 3 403 26 HOH HOH . H 4 HOH B 4 404 27 HOH HOH . H 4 HOH B 5 405 28 HOH HOH . H 4 HOH B 6 406 29 HOH HOH . H 4 HOH B 7 407 30 HOH HOH . H 4 HOH B 8 408 32 HOH HOH . # 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 . . . D 3 32.502 -15.028 0.324 1 71.25 ? PG ACP 302 A 1 HETATM 2 O O1G ACP . . . D 3 33.064 -15.244 -1.093 1 71.57 ? O1G ACP 302 A 1 HETATM 3 O O2G ACP . . . D 3 31.23 -14.717 -0.549 1 70.2 ? O2G ACP 302 A 1 HETATM 4 O O3G ACP . . . D 3 31.543 -16.28 0.723 0 72.58 ? O3G ACP 302 A 1 HETATM 5 P PB ACP . . . D 3 34.954 -15.188 1.306 1 82.62 ? PB ACP 302 A 1 HETATM 6 O O1B ACP . . . D 3 34.462 -16.65 1.439 1 84.19 ? O1B ACP 302 A 1 HETATM 7 O O2B ACP . . . D 3 35.569 -14.691 2.606 1 84.24 ? O2B ACP 302 A 1 HETATM 8 C C3B ACP . . . D 3 33.393 -14.227 1.224 1 78.82 ? C3B ACP 302 A 1 HETATM 9 P PA ACP . . . D 3 36.876 -15.695 -1.042 1 90.14 ? PA ACP 302 A 1 HETATM 10 O O1A ACP . . . D 3 35.875 -16.12 -2.109 1 91.87 ? O1A ACP 302 A 1 HETATM 11 O O2A ACP . . . D 3 37.736 -16.72 -0.347 1 89.79 ? O2A ACP 302 A 1 HETATM 12 O O3A ACP . . . D 3 35.971 -14.84 0.051 1 86.86 ? O3A ACP 302 A 1 HETATM 13 O O5' ACP . . . D 3 37.929 -14.627 -1.64 1 92.36 ? O5' ACP 302 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 122 _model_server_stats.query_time_ms 363 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 13 #