data_4WW0 # _model_server_result.job_id 0DeDm1AjSnntmlQk1KwW9w _model_server_result.datetime_utc '2024-11-04 23:13:52' _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 4ww0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":702}' # _entry.id 4WW0 # _exptl.entry_id 4WW0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 3 _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 4WW0 _cell.length_a 138.23 _cell.length_b 162.26 _cell.length_c 170.17 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4WW0 _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,J,K,L _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_555 -x,-y,z -1 0 0 0 -1 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 ? 3 E N N ? 3 G N N ? 3 I 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 disulf ? disulf1 A SG CYS 451 A CYS 588 1_555 A SG CYS 469 A CYS 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? disulf ? disulf2 B SG CYS 451 B CYS 588 1_555 B SG CYS 469 B CYS 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? disulf ? disulf3 C SG CYS 451 C CYS 588 1_555 C SG CYS 469 C CYS 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? metalc ? metalc1 A NE2 HIS 281 A HIS 418 1_555 D ZN ZN . A ZN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? metalc ? metalc2 A NE2 HIS 285 A HIS 422 1_555 D ZN ZN . A ZN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.124 ? metalc ? metalc3 A OD2 ASP 359 A ASP 496 1_555 D ZN ZN . A ZN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? metalc ? metalc4 D ZN ZN . A ZN 701 1_555 J O HOH . A HOH 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? metalc ? metalc5 B NE2 HIS 281 B HIS 418 1_555 F ZN ZN . B ZN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.105 ? metalc ? metalc6 B NE2 HIS 285 B HIS 422 1_555 F ZN ZN . B ZN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? metalc ? metalc7 B OD2 ASP 359 B ASP 496 1_555 F ZN ZN . B ZN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? metalc ? metalc8 F ZN ZN . B ZN 701 1_555 K O HOH . B HOH 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? metalc ? metalc9 C NE2 HIS 281 C HIS 418 1_555 H ZN ZN . C ZN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? metalc ? metalc10 C NE2 HIS 285 C HIS 422 1_555 H ZN ZN . C ZN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.111 ? metalc ? metalc11 C OD1 ASP 359 C ASP 496 1_555 H ZN ZN . C ZN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.675 ? metalc ? metalc12 C OD2 ASP 359 C ASP 496 1_555 H ZN ZN . C ZN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? metalc ? metalc13 H ZN ZN . C ZN 701 1_555 L O HOH . C HOH 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.003 ? # _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 4WW0 _atom_sites.fract_transf_matrix[1][1] 0.007234 _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] 0.006163 _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] 0.005876 _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 ZN A 1 701 900 ZN ZN . E 3 ADP A 1 702 999 ADP ADP . F 2 ZN B 1 701 900 ZN ZN . G 3 ADP B 1 702 999 ADP ADP . H 2 ZN C 1 701 900 ZN ZN . I 3 ADP C 1 702 999 ADP ADP . J 4 HOH A 1 901 901 HOH HOH . K 4 HOH B 1 901 901 HOH HOH . L 4 HOH C 1 901 901 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 3 -36.354 14.274 17.035 1 81.96 ? PB ADP 702 A 1 HETATM 2 O O1B ADP . . . E 3 -35.695 14.723 15.749 1 83.91 ? O1B ADP 702 A 1 HETATM 3 O O2B ADP . . . E 3 -35.862 12.848 17.304 1 83.39 ? O2B ADP 702 A 1 HETATM 4 O O3B ADP . . . E 3 -36.035 15.176 18.175 1 81.58 ? O3B ADP 702 A 1 HETATM 5 P PA ADP . . . E 3 -38.712 14.974 15.535 1 82.52 ? PA ADP 702 A 1 HETATM 6 O O1A ADP . . . E 3 -38.504 14.117 14.27 1 86.76 ? O1A ADP 702 A 1 HETATM 7 O O2A ADP . . . E 3 -38.109 16.299 15.281 1 83 ? O2A ADP 702 A 1 HETATM 8 O O3A ADP . . . E 3 -37.913 14.246 16.705 1 80.39 ? O3A ADP 702 A 1 HETATM 9 O O5' ADP . . . E 3 -40.269 15.034 15.844 1 79.64 ? O5' ADP 702 A 1 HETATM 10 C C5' ADP . . . E 3 -41.082 13.849 15.803 1 81.79 ? C5' ADP 702 A 1 HETATM 11 C C4' ADP . . . E 3 -42.545 14.21 15.757 1 86.03 ? C4' ADP 702 A 1 HETATM 12 O O4' ADP . . . E 3 -42.978 14.681 17.048 1 86.06 ? O4' ADP 702 A 1 HETATM 13 C C3' ADP . . . E 3 -42.96 15.26 14.728 1 92.4 ? C3' ADP 702 A 1 HETATM 14 O O3' ADP . . . E 3 -44.046 14.838 13.91 1 98.49 ? O3' ADP 702 A 1 HETATM 15 C C2' ADP . . . E 3 -43.256 16.51 15.567 1 90.38 ? C2' ADP 702 A 1 HETATM 16 O O2' ADP . . . E 3 -44.33 17.283 15.042 1 91.46 ? O2' ADP 702 A 1 HETATM 17 C C1' ADP . . . E 3 -43.619 15.935 16.939 1 86.45 ? C1' ADP 702 A 1 HETATM 18 N N9 ADP . . . E 3 -43.155 16.776 18.04 1 82.36 ? N9 ADP 702 A 1 HETATM 19 C C8 ADP . . . E 3 -42.04 16.577 18.813 1 80.44 ? C8 ADP 702 A 1 HETATM 20 N N7 ADP . . . E 3 -41.789 17.555 19.65 1 79.48 ? N7 ADP 702 A 1 HETATM 21 C C5 ADP . . . E 3 -42.813 18.46 19.416 1 78.16 ? C5 ADP 702 A 1 HETATM 22 C C6 ADP . . . E 3 -43.099 19.734 19.956 1 77.64 ? C6 ADP 702 A 1 HETATM 23 N N6 ADP . . . E 3 -42.367 20.319 20.908 1 76.99 ? N6 ADP 702 A 1 HETATM 24 N N1 ADP . . . E 3 -44.173 20.398 19.465 1 78.47 ? N1 ADP 702 A 1 HETATM 25 C C2 ADP . . . E 3 -44.907 19.818 18.508 1 79.15 ? C2 ADP 702 A 1 HETATM 26 N N3 ADP . . . E 3 -44.739 18.623 17.93 1 77.74 ? N3 ADP 702 A 1 HETATM 27 C C4 ADP . . . E 3 -43.667 17.991 18.43 1 78.73 ? C4 ADP 702 A 1 # _model_server_stats.io_time_ms 24 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 27 _model_server_stats.query_time_ms 287 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 27 #