data_2P9P # _model_server_result.job_id VOBEuK_xZgZ1j3vqUezqzQ _model_server_result.datetime_utc '2024-10-18 15:31:36' _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 2p9p # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":395}' # _entry.id 2P9P # _exptl.entry_id 2P9P _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 9 _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 2P9P _cell.length_a 110.966 _cell.length_b 128.926 _cell.length_c 202.288 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2P9P _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details heptameric _pdbx_struct_assembly.oligomeric_count 7 _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 9 I N N ? 9 J N N # _struct_conn.conn_type_id metalc _struct_conn.details ? _struct_conn.id metalc1 _struct_conn.ptnr1_label_asym_id H _struct_conn.ptnr1_label_atom_id CA _struct_conn.ptnr1_label_comp_id CA _struct_conn.ptnr1_label_seq_id . _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CA _struct_conn.ptnr1_auth_seq_id 500 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id I _struct_conn.ptnr2_label_atom_id O1B _struct_conn.ptnr2_label_comp_id ADP _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id ADP _struct_conn.ptnr2_auth_seq_id 501 _struct_conn.ptnr2_symmetry 1_555 _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 3.052 _struct_conn.pdbx_value_order ? # _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 2P9P _atom_sites.fract_transf_matrix[1][1] 0.009012 _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] 0.007756 _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 H 8 CA A 1 500 500 CA CA . I 9 ADP A 1 501 1 ADP ADP . J 9 ADP B 1 395 2 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 . . . J 9 -20.721 27.943 25.524 1 78.62 ? PB ADP 395 B 1 HETATM 2 O O1B ADP . . . J 9 -22.073 27.596 24.727 1 78.87 ? O1B ADP 395 B 1 HETATM 3 O O2B ADP . . . J 9 -19.637 26.852 25.058 1 77.21 ? O2B ADP 395 B 1 HETATM 4 O O3B ADP . . . J 9 -20.266 29.33 25.286 1 76.78 ? O3B ADP 395 B 1 HETATM 5 P PA ADP . . . J 9 -21.773 26.349 27.599 1 74.2 ? PA ADP 395 B 1 HETATM 6 O O1A ADP . . . J 9 -23.218 26.658 27.619 1 73.13 ? O1A ADP 395 B 1 HETATM 7 O O2A ADP . . . J 9 -21.316 25.162 26.841 1 70.28 ? O2A ADP 395 B 1 HETATM 8 O O3A ADP . . . J 9 -21.008 27.661 27.077 1 76.66 ? O3A ADP 395 B 1 HETATM 9 O O5' ADP . . . J 9 -21.182 26.299 29.095 1 74.55 ? O5' ADP 395 B 1 HETATM 10 C C5' ADP . . . J 9 -19.827 25.887 29.303 1 71.33 ? C5' ADP 395 B 1 HETATM 11 C C4' ADP . . . J 9 -19.174 26.627 30.477 1 66.95 ? C4' ADP 395 B 1 HETATM 12 O O4' ADP . . . J 9 -19.838 26.251 31.701 1 66.46 ? O4' ADP 395 B 1 HETATM 13 C C3' ADP . . . J 9 -17.711 26.216 30.669 1 65.19 ? C3' ADP 395 B 1 HETATM 14 O O3' ADP . . . J 9 -17.035 27.207 31.449 1 62.15 ? O3' ADP 395 B 1 HETATM 15 C C2' ADP . . . J 9 -17.894 24.943 31.492 1 64.54 ? C2' ADP 395 B 1 HETATM 16 O O2' ADP . . . J 9 -16.682 24.637 32.186 1 66.3 ? O2' ADP 395 B 1 HETATM 17 C C1' ADP . . . J 9 -18.928 25.463 32.491 1 63.72 ? C1' ADP 395 B 1 HETATM 18 N N9 ADP . . . J 9 -19.615 24.364 33.207 1 61.94 ? N9 ADP 395 B 1 HETATM 19 C C8 ADP . . . J 9 -20.037 23.22 32.672 1 61.21 ? C8 ADP 395 B 1 HETATM 20 N N7 ADP . . . J 9 -20.611 22.469 33.605 1 61.92 ? N7 ADP 395 B 1 HETATM 21 C C5 ADP . . . J 9 -20.551 23.136 34.759 1 61.9 ? C5 ADP 395 B 1 HETATM 22 C C6 ADP . . . J 9 -21.011 22.866 36.036 1 62.69 ? C6 ADP 395 B 1 HETATM 23 N N6 ADP . . . J 9 -21.651 21.729 36.308 1 62.96 ? N6 ADP 395 B 1 HETATM 24 N N1 ADP . . . J 9 -20.818 23.828 37.034 1 62.92 ? N1 ADP 395 B 1 HETATM 25 C C2 ADP . . . J 9 -20.163 25.027 36.714 1 61.41 ? C2 ADP 395 B 1 HETATM 26 N N3 ADP . . . J 9 -19.749 25.246 35.483 1 59.92 ? N3 ADP 395 B 1 HETATM 27 C C4 ADP . . . J 9 -19.921 24.344 34.5 1 61.27 ? C4 ADP 395 B 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 26 _model_server_stats.query_time_ms 374 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 27 #