data_3WV9 # _model_server_result.job_id dJfWJq3PIrUpVLQmqj_qiA _model_server_result.datetime_utc '2024-11-07 01:35:00' _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 3wv9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":301}' # _entry.id 3WV9 # _exptl.entry_id 3WV9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 507.181 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 4 _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 120 _cell.entry_id 3WV9 _cell.length_a 85 _cell.length_b 85 _cell.length_c 120.78 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3WV9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 143 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 3' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 ? monomeric 1 author_defined_assembly 3 ? monomeric 1 author_defined_assembly 4 PISA trimeric 3 software_defined_assembly 5 PISA trimeric 3 software_defined_assembly 6 PISA trimeric 3 software_defined_assembly 7 PISA trimeric 3 software_defined_assembly 8 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,E,F,G,H,I,U 1 1 B,J,K,L,V 2 1 C,M,N,O,P,Q,R,W 3 1 D,S,T,X 4 1 A,E,F,G,H,I,U 5 1,2,3 B,J,K,L,V 6 1,2,3 C,M,N,O,P,Q,R,W 7 1,4,5 D,S,T,X 8 1,6,7 # 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_655 -y+1,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 85 0 0 3 'crystal symmetry operation' 3_665 -x+y+1,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 42.5 73.612159 0 4 'crystal symmetry operation' 2_555 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 5 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 0 0 6 'crystal symmetry operation' 2_545 -y,x-y-1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 42.5 -73.612159 0 7 'crystal symmetry operation' 3_655 -x+y+1,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 85 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 E N N ? 2 J N N ? 2 M N N ? 2 S N N # _chem_comp.formula 'C10 H16 N5 O13 P3' _chem_comp.formula_weight 507.181 _chem_comp.id ATP _chem_comp.mon_nstd_flag . _chem_comp.name "ADENOSINE-5'-TRIPHOSPHATE" _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 PG O1G ATP doub 70 n n PG O2G ATP sing 71 n n PG O3G ATP sing 72 n n PG O3B ATP sing 73 n n O2G HOG2 ATP sing 74 n n O3G HOG3 ATP sing 75 n n PB O1B ATP doub 76 n n PB O2B ATP sing 77 n n PB O3B ATP sing 78 n n PB O3A ATP sing 79 n n O2B HOB2 ATP sing 80 n n PA O1A ATP doub 81 n n PA O2A ATP sing 82 n n PA O3A ATP sing 83 n n PA O5' ATP sing 84 n n O2A HOA2 ATP sing 85 n n O5' C5' ATP sing 86 n n C5' C4' ATP sing 87 n n C5' "H5'1" ATP sing 88 n n C5' "H5'2" ATP sing 89 n n C4' O4' ATP sing 90 n n C4' C3' ATP sing 91 n n C4' H4' ATP sing 92 n n O4' C1' ATP sing 93 n n C3' O3' ATP sing 94 n n C3' C2' ATP sing 95 n n C3' H3' ATP sing 96 n n O3' HO3' ATP sing 97 n n C2' O2' ATP sing 98 n n C2' C1' ATP sing 99 n n C2' H2' ATP sing 100 n n O2' HO2' ATP sing 101 n n C1' N9 ATP sing 102 n n C1' H1' ATP sing 103 n n N9 C8 ATP sing 104 n y N9 C4 ATP sing 105 n y C8 N7 ATP doub 106 n y C8 H8 ATP sing 107 n n N7 C5 ATP sing 108 n y C5 C6 ATP sing 109 n y C5 C4 ATP doub 110 n y C6 N6 ATP sing 111 n n C6 N1 ATP doub 112 n y N6 HN61 ATP sing 113 n n N6 HN62 ATP sing 114 n n N1 C2 ATP sing 115 n y C2 N3 ATP doub 116 n y C2 H2 ATP sing 117 n n N3 C4 ATP sing 118 n y # _atom_sites.entry_id 3WV9 _atom_sites.fract_transf_matrix[1][1] 0.011765 _atom_sites.fract_transf_matrix[1][2] 0.006792 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013585 _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] 0.00828 _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 ATP A 1 301 301 ATP ATP . F 3 FEG A 1 302 302 FEG FEG . G 4 SO4 A 1 303 303 SO4 SO4 . H 4 SO4 A 1 304 305 SO4 SO4 . I 4 SO4 A 1 305 306 SO4 SO4 . J 2 ATP B 1 301 301 ATP ATP . K 3 FEG B 1 302 302 FEG FEG . L 4 SO4 B 1 303 303 SO4 SO4 . M 2 ATP C 1 302 301 ATP ATP . N 3 FEG C 1 303 302 FEG FEG . O 4 SO4 C 1 304 303 SO4 SO4 . P 4 SO4 C 1 301 304 SO4 SO4 . Q 4 SO4 C 1 305 304 SO4 SO4 . R 4 SO4 C 1 306 305 SO4 SO4 . S 2 ATP D 1 301 301 ATP ATP . T 4 SO4 D 1 302 302 SO4 SO4 . U 5 HOH A 1 401 401 HOH HOH . U 5 HOH A 2 402 402 HOH HOH . U 5 HOH A 3 403 403 HOH HOH . V 5 HOH B 1 401 401 HOH HOH . V 5 HOH B 2 402 402 HOH HOH . V 5 HOH B 3 403 403 HOH HOH . V 5 HOH B 4 404 404 HOH HOH . V 5 HOH B 5 405 405 HOH HOH . W 5 HOH C 1 401 401 HOH HOH . W 5 HOH C 2 402 402 HOH HOH . W 5 HOH C 3 403 403 HOH HOH . X 5 HOH D 1 401 401 HOH HOH . X 5 HOH D 2 402 402 HOH HOH . X 5 HOH D 3 403 403 HOH HOH . X 5 HOH D 4 404 404 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 PG ATP . . . E 2 46.13 1.191 -35.013 1 90.51 ? PG ATP 301 A 1 HETATM 2 O O1G ATP . . . E 2 46.554 0.938 -36.42 1 77.33 ? O1G ATP 301 A 1 HETATM 3 O O2G ATP . . . E 2 47.219 1.114 -33.954 1 97.29 ? O2G ATP 301 A 1 HETATM 4 O O3G ATP . . . E 2 44.884 0.446 -34.633 1 86.5 ? O3G ATP 301 A 1 HETATM 5 P PB ATP . . . E 2 46.596 4.011 -35.572 1 87.99 ? PB ATP 301 A 1 HETATM 6 O O1B ATP . . . E 2 47.398 3.534 -36.784 1 88.1 ? O1B ATP 301 A 1 HETATM 7 O O2B ATP . . . E 2 47.282 4.609 -34.352 1 74.13 ? O2B ATP 301 A 1 HETATM 8 O O3B ATP . . . E 2 45.726 2.758 -35.009 1 90.08 ? O3B ATP 301 A 1 HETATM 9 P PA ATP . . . E 2 45.515 5.96 -37.453 1 54.5 ? PA ATP 301 A 1 HETATM 10 O O1A ATP . . . E 2 46.417 5.323 -38.515 1 54.59 ? O1A ATP 301 A 1 HETATM 11 O O2A ATP . . . E 2 45.683 7.413 -37.117 1 51.88 ? O2A ATP 301 A 1 HETATM 12 O O3A ATP . . . E 2 45.522 5.12 -36.054 1 62.24 ? O3A ATP 301 A 1 HETATM 13 O O5' ATP . . . E 2 43.993 5.728 -37.868 1 49.87 ? O5' ATP 301 A 1 HETATM 14 C C5' ATP . . . E 2 43.46 4.392 -37.931 1 48.11 ? C5' ATP 301 A 1 HETATM 15 C C4' ATP . . . E 2 42.342 4.242 -36.919 1 44.14 ? C4' ATP 301 A 1 HETATM 16 O O4' ATP . . . E 2 41.524 3.139 -37.315 1 51.39 ? O4' ATP 301 A 1 HETATM 17 C C3' ATP . . . E 2 42.833 3.916 -35.516 1 48.69 ? C3' ATP 301 A 1 HETATM 18 O O3' ATP . . . E 2 42.325 4.79 -34.509 1 44.79 ? O3' ATP 301 A 1 HETATM 19 C C2' ATP . . . E 2 42.351 2.515 -35.225 1 48.98 ? C2' ATP 301 A 1 HETATM 20 O O2' ATP . . . E 2 41.981 2.296 -33.881 1 58.3 ? O2' ATP 301 A 1 HETATM 21 C C1' ATP . . . E 2 41.148 2.408 -36.145 1 55.34 ? C1' ATP 301 A 1 HETATM 22 N N9 ATP . . . E 2 40.863 0.989 -36.4 1 56.66 ? N9 ATP 301 A 1 HETATM 23 C C8 ATP . . . E 2 41.78 0.058 -36.703 1 53.73 ? C8 ATP 301 A 1 HETATM 24 N N7 ATP . . . E 2 41.208 -1.146 -36.847 1 55.34 ? N7 ATP 301 A 1 HETATM 25 C C5 ATP . . . E 2 39.907 -0.994 -36.627 1 53.23 ? C5 ATP 301 A 1 HETATM 26 C C6 ATP . . . E 2 38.739 -1.884 -36.648 1 56.31 ? C6 ATP 301 A 1 HETATM 27 N N6 ATP . . . E 2 38.885 -3.196 -36.91 1 53.44 ? N6 ATP 301 A 1 HETATM 28 N N1 ATP . . . E 2 37.522 -1.343 -36.373 1 65.17 ? N1 ATP 301 A 1 HETATM 29 C C2 ATP . . . E 2 37.382 -0.025 -36.095 1 60.44 ? C2 ATP 301 A 1 HETATM 30 N N3 ATP . . . E 2 38.423 0.847 -36.077 1 53.2 ? N3 ATP 301 A 1 HETATM 31 C C4 ATP . . . E 2 39.677 0.423 -36.323 1 53.61 ? C4 ATP 301 A 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 50 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 307 _model_server_stats.encode_time_ms 14 _model_server_stats.element_count 31 #