data_3CF3 # _model_server_result.job_id 1OYSANaV_m9MxT5RGhSLSA _model_server_result.datetime_utc '2024-11-22 20:47:08' _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 3cf3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":807}' # _entry.id 3CF3 # _exptl.entry_id 3CF3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _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 3CF3 _cell.length_a 163.97 _cell.length_b 178.93 _cell.length_c 320.64 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3CF3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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,I _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_665 -x+1,-y+1,z -1 0 0 0 -1 0 0 0 1 163.97 178.93 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 D N N ? 2 E N N ? 2 F N N ? 2 G N N ? 2 H N N ? 2 I N N # _chem_comp.formula 'C10 H15 N5 O10 P2' _chem_comp.formula_weight 427.201 _chem_comp.id ADP _chem_comp.mon_nstd_flag n _chem_comp.name "ADENOSINE-5'-DIPHOSPHATE" _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 PB O1B ADP doub 1 n n PB O2B ADP sing 2 n n PB O3B ADP sing 3 n n PB O3A ADP sing 4 n n O2B HOB2 ADP sing 5 n n O3B HOB3 ADP sing 6 n n PA O1A ADP doub 7 n n PA O2A ADP sing 8 n n PA O3A ADP sing 9 n n PA O5' ADP sing 10 n n O2A HOA2 ADP sing 11 n n O5' C5' ADP sing 12 n n C5' C4' ADP sing 13 n n C5' "H5'1" ADP sing 14 n n C5' "H5'2" ADP sing 15 n n C4' O4' ADP sing 16 n n C4' C3' ADP sing 17 n n C4' H4' ADP sing 18 n n O4' C1' ADP sing 19 n n C3' O3' ADP sing 20 n n C3' C2' ADP sing 21 n n C3' H3' ADP sing 22 n n O3' HO3' ADP sing 23 n n C2' O2' ADP sing 24 n n C2' C1' ADP sing 25 n n C2' H2' ADP sing 26 n n O2' HO2' ADP sing 27 n n C1' N9 ADP sing 28 n n C1' H1' ADP sing 29 n n N9 C8 ADP sing 30 n y N9 C4 ADP sing 31 n y C8 N7 ADP doub 32 n y C8 H8 ADP sing 33 n n N7 C5 ADP sing 34 n y C5 C6 ADP sing 35 n y C5 C4 ADP doub 36 n y C6 N6 ADP sing 37 n n C6 N1 ADP doub 38 n y N6 HN61 ADP sing 39 n n N6 HN62 ADP sing 40 n n N1 C2 ADP sing 41 n y C2 N3 ADP doub 42 n y C2 H2 ADP sing 43 n n N3 C4 ADP sing 44 n y # _atom_sites.entry_id 3CF3 _atom_sites.fract_transf_matrix[1][1] 0.006099 _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] 0.005589 _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] 0.003119 _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 D 2 ADP A 1 807 807 ADP ADP . E 2 ADP A 1 900 900 ADP ADP . F 2 ADP B 1 807 807 ADP ADP . G 2 ADP B 1 900 900 ADP ADP . H 2 ADP C 1 807 807 ADP ADP . I 2 ADP C 1 900 900 ADP ADP . # 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 PB ADP . . . F 2 112.296 101.355 263.797 1 184.01 ? PB ADP 807 B 1 HETATM 2 O O1B ADP . . . F 2 112.639 99.993 263.342 1 157.64 ? O1B ADP 807 B 1 HETATM 3 O O2B ADP . . . F 2 111.864 101.278 265.35 1 180.7 ? O2B ADP 807 B 1 HETATM 4 O O3B ADP . . . F 2 111.162 101.88 263.007 1 189 ? O3B ADP 807 B 1 HETATM 5 P PA ADP . . . F 2 114.306 102.767 262.343 1 144.59 ? PA ADP 807 B 1 HETATM 6 O O1A ADP . . . F 2 115.34 101.783 261.974 1 160.29 ? O1A ADP 807 B 1 HETATM 7 O O2A ADP . . . F 2 113.404 102.929 261.209 1 268.11 ? O2A ADP 807 B 1 HETATM 8 O O3A ADP . . . F 2 113.51 102.325 263.608 1 155.09 ? O3A ADP 807 B 1 HETATM 9 O O5' ADP . . . F 2 114.845 104.211 262.584 1 162.61 ? O5' ADP 807 B 1 HETATM 10 C C5' ADP . . . F 2 114.64 105.048 263.719 1 184.1 ? C5' ADP 807 B 1 HETATM 11 C C4' ADP . . . F 2 115.446 106.315 263.27 1 185.54 ? C4' ADP 807 B 1 HETATM 12 O O4' ADP . . . F 2 115.918 106.894 264.486 1 163.94 ? O4' ADP 807 B 1 HETATM 13 C C3' ADP . . . F 2 116.728 105.977 262.459 1 207.05 ? C3' ADP 807 B 1 HETATM 14 O O3' ADP . . . F 2 116.687 106.334 261.052 1 243.82 ? O3' ADP 807 B 1 HETATM 15 C C2' ADP . . . F 2 117.88 106.645 263.152 1 179.43 ? C2' ADP 807 B 1 HETATM 16 O O2' ADP . . . F 2 118.412 107.77 262.465 1 152.82 ? O2' ADP 807 B 1 HETATM 17 C C1' ADP . . . F 2 117.374 106.93 264.539 1 174.55 ? C1' ADP 807 B 1 HETATM 18 N N9 ADP . . . F 2 117.851 105.888 265.563 1 139.72 ? N9 ADP 807 B 1 HETATM 19 C C8 ADP . . . F 2 117.057 105.08 266.292 1 218.16 ? C8 ADP 807 B 1 HETATM 20 N N7 ADP . . . F 2 117.789 104.296 267.072 1 202.47 ? N7 ADP 807 B 1 HETATM 21 C C5 ADP . . . F 2 119.048 104.572 266.86 1 160.18 ? C5 ADP 807 B 1 HETATM 22 C C6 ADP . . . F 2 120.279 104.075 267.378 1 146.34 ? C6 ADP 807 B 1 HETATM 23 N N6 ADP . . . F 2 120.282 103.111 268.28 1 142.83 ? N6 ADP 807 B 1 HETATM 24 N N1 ADP . . . F 2 121.501 104.603 266.916 1 160.97 ? N1 ADP 807 B 1 HETATM 25 C C2 ADP . . . F 2 121.552 105.604 265.979 1 185.17 ? C2 ADP 807 B 1 HETATM 26 N N3 ADP . . . F 2 120.35 106.081 265.49 1 180.86 ? N3 ADP 807 B 1 HETATM 27 C C4 ADP . . . F 2 119.115 105.607 265.892 1 160.87 ? C4 ADP 807 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 241 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #