data_1A6E # _model_server_result.job_id jwAoe_s16XahlbNgkv1EjQ _model_server_result.datetime_utc '2024-11-21 22:42:10' _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 1a6e # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":898}' # _entry.id 1A6E # _exptl.entry_id 1A6E _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _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 1A6E _cell.length_a 167.8 _cell.length_b 167.8 _cell.length_c 202.3 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1A6E _symmetry.cell_setting ? _symmetry.Int_Tables_number 97 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 4 2 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PQS hexadecameric 16 author_and_software_defined_assembly 1 PISA octameric 8 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H,I,J 1 1,2,3,4,5,6,7,8 A,B,C,D,E,F,G,H,I,J 2 1,2,3,4 # 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_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -y,x,z 0 -1 0 1 0 0 0 0 1 0 0 0 4 'crystal symmetry operation' 4_555 y,-x,z 0 1 0 -1 0 0 0 0 1 0 0 0 5 'crystal symmetry operation' 5_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 6 'crystal symmetry operation' 6_555 x,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 7 'crystal symmetry operation' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 0 8 'crystal symmetry operation' 8_555 -y,-x,-z 0 -1 0 -1 0 0 0 0 -1 0 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 D N N ? 4 G N 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 94 A ASP 94 1_555 C MG MG . A MG 897 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.164 ? metalc ? metalc2 A OD2 ASP 94 A ASP 94 1_555 C MG MG . A MG 897 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.13 ? metalc ? metalc3 C MG MG . A MG 897 1_555 D O1A ADP . A ADP 898 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? metalc ? metalc4 C MG MG . A MG 897 1_555 D O2B ADP . A ADP 898 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.472 ? metalc ? metalc5 C MG MG . A MG 897 1_555 E F1 AF3 . A AF3 899 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.153 ? metalc ? metalc6 D O1B ADP . A ADP 898 1_555 E AL AF3 . A AF3 899 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.975 ? metalc ? metalc7 D O2B ADP . A ADP 898 1_555 E AL AF3 . A AF3 899 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.666 ? metalc ? metalc8 D O3A ADP . A ADP 898 1_555 E AL AF3 . A AF3 899 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.585 ? metalc ? metalc9 E AL AF3 . A AF3 899 1_555 I O HOH . A HOH 950 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.987 ? metalc ? metalc10 B OD1 ASP 93 B ASP 93 1_555 F MG MG . B MG 997 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.346 ? metalc ? metalc11 J O HOH . B HOH 951 1_555 H AL AF3 . B AF3 999 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.992 ? metalc ? metalc12 F MG MG . B MG 997 1_555 G O1A ADP . B ADP 998 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.319 ? metalc ? metalc13 F MG MG . B MG 997 1_555 G O2B ADP . B ADP 998 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.445 ? metalc ? metalc14 F MG MG . B MG 997 1_555 H F1 AF3 . B AF3 999 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.171 ? metalc ? metalc15 G O1B ADP . B ADP 998 1_555 H AL AF3 . B AF3 999 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.005 ? metalc ? metalc16 G O2B ADP . B ADP 998 1_555 H AL AF3 . B AF3 999 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.563 ? # _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 1A6E _atom_sites.fract_transf_matrix[1][1] 0.005959 _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] 0.005959 _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] 0.004943 _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 MG A 1 897 897 MG MG . D 4 ADP A 1 898 898 ADP ADP . E 5 AF3 A 1 899 899 AF3 AF3 . F 3 MG B 1 997 997 MG MG . G 4 ADP B 1 998 998 ADP ADP . H 5 AF3 B 1 999 999 AF3 AF3 . I 6 HOH A 1 950 950 HOH HOH . J 6 HOH B 1 951 951 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 . . . D 4 13.824 51.844 -21.259 1 32.95 ? PB ADP 898 A 1 HETATM 2 O O1B ADP . . . D 4 13.545 50.49 -21.809 1 33.51 ? O1B ADP 898 A 1 HETATM 3 O O2B ADP . . . D 4 14.426 52.86 -22.409 1 32.87 ? O2B ADP 898 A 1 HETATM 4 O O3B ADP . . . D 4 12.596 52.401 -20.635 1 32.78 ? O3B ADP 898 A 1 HETATM 5 P PA ADP . . . D 4 16.474 52.297 -20.121 1 31.4 ? PA ADP 898 A 1 HETATM 6 O O1A ADP . . . D 4 16.883 52.733 -21.467 1 40.8 ? O1A ADP 898 A 1 HETATM 7 O O2A ADP . . . D 4 17.363 51.263 -19.574 1 28.42 ? O2A ADP 898 A 1 HETATM 8 O O3A ADP . . . D 4 14.992 51.747 -20.212 1 33.88 ? O3A ADP 898 A 1 HETATM 9 O O5' ADP . . . D 4 16.344 53.541 -19.136 1 33.06 ? O5' ADP 898 A 1 HETATM 10 C C5' ADP . . . D 4 15.524 54.668 -19.526 1 30.31 ? C5' ADP 898 A 1 HETATM 11 C C4' ADP . . . D 4 15.662 55.808 -18.494 1 27.35 ? C4' ADP 898 A 1 HETATM 12 O O4' ADP . . . D 4 17.049 55.977 -18.1 1 28.51 ? O4' ADP 898 A 1 HETATM 13 C C3' ADP . . . D 4 15.254 57.155 -19.1 1 20.39 ? C3' ADP 898 A 1 HETATM 14 O O3' ADP . . . D 4 14.628 58.064 -18.183 1 28.88 ? O3' ADP 898 A 1 HETATM 15 C C2' ADP . . . D 4 16.565 57.722 -19.555 1 21.67 ? C2' ADP 898 A 1 HETATM 16 O O2' ADP . . . D 4 16.574 59.117 -19.833 1 12.4 ? O2' ADP 898 A 1 HETATM 17 C C1' ADP . . . D 4 17.429 57.329 -18.41 1 28.67 ? C1' ADP 898 A 1 HETATM 18 N N9 ADP . . . D 4 18.845 57.498 -18.81 1 33.88 ? N9 ADP 898 A 1 HETATM 19 C C8 ADP . . . D 4 19.434 56.878 -19.83 1 34.77 ? C8 ADP 898 A 1 HETATM 20 N N7 ADP . . . D 4 20.702 57.282 -19.904 1 37.66 ? N7 ADP 898 A 1 HETATM 21 C C5 ADP . . . D 4 20.927 58.151 -18.954 1 35.92 ? C5 ADP 898 A 1 HETATM 22 C C6 ADP . . . D 4 22.014 58.903 -18.541 1 36.31 ? C6 ADP 898 A 1 HETATM 23 N N6 ADP . . . D 4 23.178 58.824 -19.199 1 35.68 ? N6 ADP 898 A 1 HETATM 24 N N1 ADP . . . D 4 21.897 59.727 -17.476 1 37.55 ? N1 ADP 898 A 1 HETATM 25 C C2 ADP . . . D 4 20.739 59.834 -16.802 1 36.57 ? C2 ADP 898 A 1 HETATM 26 N N3 ADP . . . D 4 19.679 59.123 -17.189 1 31.73 ? N3 ADP 898 A 1 HETATM 27 C C4 ADP . . . D 4 19.725 58.285 -18.237 1 35.24 ? C4 ADP 898 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 27 #