data_4HNU # _model_server_result.job_id o8eoPwjeJjIBhmT5UnJwMw _model_server_result.datetime_utc '2024-11-13 18:00:05' _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 4hnu # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":1201}' # _entry.id 4HNU # _exptl.entry_id 4HNU _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 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 109.6 _cell.angle_gamma 90 _cell.entry_id 4HNU _cell.length_a 96.569 _cell.length_b 258.52 _cell.length_c 126.898 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4HNU _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,J _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 E _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 565 A ASP 572 1_555 F MN MN . A MN 1202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.365 ? metalc ? metalc2 A NZ LYS 735 A LYS 741 1_555 F MN MN . A MN 1202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.711 ? metalc ? metalc3 A NE2 HIS 764 A HIS 771 1_555 F MN MN . A MN 1202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.469 ? metalc ? metalc4 A NE2 HIS 766 A HIS 773 1_555 F MN MN . A MN 1202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.541 ? metalc ? metalc5 B OD1 ASP 565 B ASP 572 1_555 G MN MN . B MN 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.379 ? metalc ? metalc6 B NE2 HIS 764 B HIS 771 1_555 G MN MN . B MN 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.49 ? metalc ? metalc7 B NE2 HIS 766 B HIS 773 1_555 G MN MN . B MN 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.436 ? metalc ? metalc8 C OD1 ASP 565 C ASP 572 1_555 H MN MN . C MN 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.498 ? metalc ? metalc9 C NZ LYS 735 C LYS 741 1_555 H MN MN . C MN 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.612 ? metalc ? metalc10 C NE2 HIS 764 C HIS 771 1_555 H MN MN . C MN 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.499 ? metalc ? metalc11 C NE2 HIS 766 C HIS 773 1_555 H MN MN . C MN 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.567 ? metalc ? metalc12 D OD1 ASP 565 D ASP 572 1_555 J MN MN . D MN 1202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.532 ? metalc ? metalc13 D NE2 HIS 764 D HIS 771 1_555 J MN MN . D MN 1202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.439 ? metalc ? metalc14 D NE2 HIS 766 D HIS 773 1_555 J MN MN . D MN 1202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.653 ? # _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 4HNU _atom_sites.fract_transf_matrix[1][1] 0.010355 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003687 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.003868 _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] 0.008365 _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 E 2 ADP A 1 1201 2100 ADP ADP . F 3 MN A 1 1202 2002 MN MN . G 3 MN B 1 1201 2002 MN MN . H 3 MN C 1 1201 2002 MN MN . I 4 BTI D 1 1201 2000 BTI BNK . J 3 MN D 1 1202 2002 MN MN . # 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 . . . E 2 87.35 47.797 2.482 1 145.69 ? PB ADP 1201 A 1 HETATM 2 O O1B ADP . . . E 2 86.305 47.614 1.399 1 146.19 ? O1B ADP 1201 A 1 HETATM 3 O O2B ADP . . . E 2 87.425 49.214 3.023 1 143.94 ? O2B ADP 1201 A 1 HETATM 4 O O3B ADP . . . E 2 87.315 46.723 3.549 1 144.85 ? O3B ADP 1201 A 1 HETATM 5 P PA ADP . . . E 2 89.176 46.351 0.747 1 141.89 ? PA ADP 1201 A 1 HETATM 6 O O1A ADP . . . E 2 87.956 45.897 -0.046 1 140.5 ? O1A ADP 1201 A 1 HETATM 7 O O2A ADP . . . E 2 89.954 45.333 1.559 1 141.69 ? O2A ADP 1201 A 1 HETATM 8 O O3A ADP . . . E 2 88.785 47.581 1.743 1 143.89 ? O3A ADP 1201 A 1 HETATM 9 O O5' ADP . . . E 2 90.25 47.024 -0.263 1 134.01 ? O5' ADP 1201 A 1 HETATM 10 C C5' ADP . . . E 2 90.134 48.366 -0.727 1 123.32 ? C5' ADP 1201 A 1 HETATM 11 C C4' ADP . . . E 2 89.914 48.384 -2.233 1 115.45 ? C4' ADP 1201 A 1 HETATM 12 O O4' ADP . . . E 2 91.156 48.189 -2.892 1 111.85 ? O4' ADP 1201 A 1 HETATM 13 C C3' ADP . . . E 2 88.999 47.268 -2.699 1 112.57 ? C3' ADP 1201 A 1 HETATM 14 O O3' ADP . . . E 2 87.702 47.798 -2.94 1 116.2 ? O3' ADP 1201 A 1 HETATM 15 C C2' ADP . . . E 2 89.604 46.756 -3.984 1 111.25 ? C2' ADP 1201 A 1 HETATM 16 O O2' ADP . . . E 2 89.026 47.404 -5.117 1 108.69 ? O2' ADP 1201 A 1 HETATM 17 C C1' ADP . . . E 2 91.061 47.165 -3.892 1 112.57 ? C1' ADP 1201 A 1 HETATM 18 N N9 ADP . . . E 2 91.889 45.969 -3.528 1 113.76 ? N9 ADP 1201 A 1 HETATM 19 C C8 ADP . . . E 2 91.93 45.356 -2.322 1 113.6 ? C8 ADP 1201 A 1 HETATM 20 N N7 ADP . . . E 2 92.784 44.301 -2.321 1 112.1 ? N7 ADP 1201 A 1 HETATM 21 C C5 ADP . . . E 2 93.315 44.218 -3.555 1 111.6 ? C5 ADP 1201 A 1 HETATM 22 C C6 ADP . . . E 2 94.297 43.339 -4.237 1 110.51 ? C6 ADP 1201 A 1 HETATM 23 N N6 ADP . . . E 2 94.9 42.312 -3.589 1 110.89 ? N6 ADP 1201 A 1 HETATM 24 N N1 ADP . . . E 2 94.584 43.606 -5.525 1 109.71 ? N1 ADP 1201 A 1 HETATM 25 C C2 ADP . . . E 2 93.996 44.621 -6.183 1 110 ? C2 ADP 1201 A 1 HETATM 26 N N3 ADP . . . E 2 93.099 45.456 -5.636 1 109.7 ? N3 ADP 1201 A 1 HETATM 27 C C4 ADP . . . E 2 92.723 45.313 -4.345 1 111.46 ? C4 ADP 1201 A 1 # _model_server_stats.io_time_ms 66 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 51 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 27 #