data_5EAN # _model_server_result.job_id n6Z02wUZWmuhukEABqBxSw _model_server_result.datetime_utc '2024-12-26 17:46:53' _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 5ean # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":1103}' # _entry.id 5EAN # _exptl.entry_id 5EAN _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 5 _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 90 _cell.angle_gamma 90 _cell.entry_id 5EAN _cell.length_a 87.153 _cell.length_b 118.488 _cell.length_c 149.26 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5EAN _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 2 21 21' # _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 _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_565 x,-y+1,-z 1 0 0 0 -1 0 0 0 -1 0 118.488 0 # _struct_asym.details ? _struct_asym.entity_id 5 _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 SG CYS 140 A CYS 137 1_555 C FE1 SF4 . A SF4 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.293 ? metalc ? metalc2 A OD2 ASP 281 A ASP 278 1_555 D CA CA . A CA 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.306 ? metalc ? metalc3 A OE1 GLU 302 A GLU 299 1_555 D CA CA . A CA 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc4 A O LEU 303 A LEU 300 1_555 D CA CA . A CA 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.298 ? metalc ? metalc5 A SG CYS 397 A CYS 394 1_555 C FE4 SF4 . A SF4 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.311 ? metalc ? metalc6 A SG CYS 400 A CYS 397 1_555 C FE3 SF4 . A SF4 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.302 ? metalc ? metalc7 A SG CYS 406 A CYS 403 1_555 C FE2 SF4 . A SF4 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc8 D CA CA . A CA 1102 1_555 B OP2 DA 12 B DA 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.102 ? metalc ? metalc9 D CA CA . A CA 1102 1_555 H O HOH . B HOH 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.195 ? metalc ? metalc10 G O HOH . A HOH 1202 1_555 F CA CA . B CA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.196 ? metalc ? metalc11 B O3' DG 11 B DG 11 1_555 F CA CA . B CA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.302 ? metalc ? metalc12 F CA CA . B CA 101 1_555 H O HOH . B HOH 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.186 ? metalc ? metalc13 F CA CA . B CA 101 1_555 H O HOH . B HOH 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.198 ? # _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 5EAN _atom_sites.fract_transf_matrix[1][1] 0.011474 _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] 0.00844 _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] 0.0067 _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 SF4 A 1 1101 600 SF4 SF4 . D 4 CA A 1 1102 1 CA CA . E 5 ADP A 1 1103 502 ADP ADP . F 4 CA B 1 101 2 CA CA . G 6 HOH A 1 1201 5 HOH HOH . G 6 HOH A 2 1202 3 HOH HOH . H 6 HOH B 1 201 1 HOH HOH . H 6 HOH B 2 202 2 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 PB ADP . . . E 5 9.864 45.59 25.775 1 80.04 ? PB ADP 1103 A 1 HETATM 2 O O1B ADP . . . E 5 10.287 45.179 24.385 1 87.35 ? O1B ADP 1103 A 1 HETATM 3 O O2B ADP . . . E 5 8.523 46.286 25.826 1 86.71 ? O2B ADP 1103 A 1 HETATM 4 O O3B ADP . . . E 5 10.061 44.51 26.82 1 85.87 ? O3B ADP 1103 A 1 HETATM 5 P PA ADP . . . E 5 12.186 46.662 27.083 1 60.2 ? PA ADP 1103 A 1 HETATM 6 O O1A ADP . . . E 5 12.917 45.372 26.79 1 65.83 ? O1A ADP 1103 A 1 HETATM 7 O O2A ADP . . . E 5 12.892 47.984 26.937 1 60.9 ? O2A ADP 1103 A 1 HETATM 8 O O3A ADP . . . E 5 10.873 46.788 26.153 1 74.08 ? O3A ADP 1103 A 1 HETATM 9 O O5' ADP . . . E 5 11.555 46.557 28.555 1 67.75 ? O5' ADP 1103 A 1 HETATM 10 C C5' ADP . . . E 5 11.113 47.731 29.213 1 63.73 ? C5' ADP 1103 A 1 HETATM 11 C C4' ADP . . . E 5 9.706 47.577 29.759 1 62.43 ? C4' ADP 1103 A 1 HETATM 12 O O4' ADP . . . E 5 9.578 48.549 30.787 1 58.16 ? O4' ADP 1103 A 1 HETATM 13 C C3' ADP . . . E 5 8.673 47.908 28.696 1 64.7 ? C3' ADP 1103 A 1 HETATM 14 O O3' ADP . . . E 5 7.749 46.821 28.592 1 70.88 ? O3' ADP 1103 A 1 HETATM 15 C C2' ADP . . . E 5 7.991 49.194 29.124 1 65.09 ? C2' ADP 1103 A 1 HETATM 16 O O2' ADP . . . E 5 6.595 48.963 29.359 1 75.26 ? O2' ADP 1103 A 1 HETATM 17 C C1' ADP . . . E 5 8.659 49.586 30.437 1 60.39 ? C1' ADP 1103 A 1 HETATM 18 N N9 ADP . . . E 5 9.377 50.891 30.4 1 54.15 ? N9 ADP 1103 A 1 HETATM 19 C C8 ADP . . . E 5 10.685 51.106 30.116 1 54.37 ? C8 ADP 1103 A 1 HETATM 20 N N7 ADP . . . E 5 11.016 52.424 30.202 1 51.52 ? N7 ADP 1103 A 1 HETATM 21 C C5 ADP . . . E 5 9.892 53.08 30.554 1 54.87 ? C5 ADP 1103 A 1 HETATM 22 C C6 ADP . . . E 5 9.499 54.493 30.821 1 59.43 ? C6 ADP 1103 A 1 HETATM 23 N N6 ADP . . . E 5 10.403 55.498 30.725 1 54.28 ? N6 ADP 1103 A 1 HETATM 24 N N1 ADP . . . E 5 8.202 54.75 31.165 1 60.53 ? N1 ADP 1103 A 1 HETATM 25 C C2 ADP . . . E 5 7.284 53.764 31.273 1 54.49 ? C2 ADP 1103 A 1 HETATM 26 N N3 ADP . . . E 5 7.57 52.464 31.046 1 53.03 ? N3 ADP 1103 A 1 HETATM 27 C C4 ADP . . . E 5 8.82 52.066 30.689 1 53.28 ? C4 ADP 1103 A 1 # _model_server_stats.io_time_ms 32 _model_server_stats.parse_time_ms 38 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 308 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #