data_2ECK # _model_server_result.job_id XH0YQvwRaArRpui78leJCg _model_server_result.datetime_utc '2024-12-21 16:11:39' _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 2eck # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":216}' # _entry.id 2ECK # _exptl.entry_id 2ECK _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 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 2ECK _cell.length_a 73.5 _cell.length_b 84.8 _cell.length_c 80.3 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2ECK _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 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 ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,G 1 1 B,E,F,H 2 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 ? 3 D N N ? 3 F N N # _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 2ECK _atom_sites.fract_transf_matrix[1][1] 0.013605 _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] 0.011792 _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] 0.012453 _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 2 AMP A 1 215 215 AMP AMP . D 3 ADP A 1 216 216 ADP ADP . E 2 AMP B 1 215 215 AMP AMP . F 3 ADP B 1 216 216 ADP ADP . G 4 HOH A 1 217 1 HOH HOH . G 4 HOH A 2 218 2 HOH HOH . G 4 HOH A 3 219 4 HOH HOH . G 4 HOH A 4 220 5 HOH HOH . G 4 HOH A 5 221 6 HOH HOH . G 4 HOH A 6 222 8 HOH HOH . G 4 HOH A 7 223 11 HOH HOH . G 4 HOH A 8 224 12 HOH HOH . G 4 HOH A 9 225 14 HOH HOH . G 4 HOH A 10 226 15 HOH HOH . G 4 HOH A 11 227 16 HOH HOH . G 4 HOH A 12 228 20 HOH HOH . G 4 HOH A 13 229 22 HOH HOH . G 4 HOH A 14 230 23 HOH HOH . G 4 HOH A 15 231 25 HOH HOH . G 4 HOH A 16 232 26 HOH HOH . G 4 HOH A 17 233 27 HOH HOH . G 4 HOH A 18 234 28 HOH HOH . G 4 HOH A 19 235 29 HOH HOH . G 4 HOH A 20 236 30 HOH HOH . G 4 HOH A 21 237 32 HOH HOH . G 4 HOH A 22 238 34 HOH HOH . G 4 HOH A 23 239 35 HOH HOH . G 4 HOH A 24 240 36 HOH HOH . G 4 HOH A 25 241 39 HOH HOH . G 4 HOH A 26 242 40 HOH HOH . G 4 HOH A 27 243 41 HOH HOH . G 4 HOH A 28 244 42 HOH HOH . G 4 HOH A 29 245 43 HOH HOH . G 4 HOH A 30 246 44 HOH HOH . G 4 HOH A 31 247 45 HOH HOH . G 4 HOH A 32 248 46 HOH HOH . G 4 HOH A 33 249 47 HOH HOH . G 4 HOH A 34 250 48 HOH HOH . G 4 HOH A 35 251 49 HOH HOH . G 4 HOH A 36 252 50 HOH HOH . G 4 HOH A 37 253 53 HOH HOH . G 4 HOH A 38 254 54 HOH HOH . G 4 HOH A 39 255 55 HOH HOH . G 4 HOH A 40 256 56 HOH HOH . G 4 HOH A 41 257 57 HOH HOH . G 4 HOH A 42 258 58 HOH HOH . H 4 HOH B 1 217 3 HOH HOH . H 4 HOH B 2 218 7 HOH HOH . H 4 HOH B 3 219 9 HOH HOH . H 4 HOH B 4 220 10 HOH HOH . H 4 HOH B 5 221 13 HOH HOH . H 4 HOH B 6 222 17 HOH HOH . H 4 HOH B 7 223 18 HOH HOH . H 4 HOH B 8 224 19 HOH HOH . H 4 HOH B 9 225 21 HOH HOH . H 4 HOH B 10 226 24 HOH HOH . H 4 HOH B 11 227 31 HOH HOH . H 4 HOH B 12 228 33 HOH HOH . H 4 HOH B 13 229 37 HOH HOH . H 4 HOH B 14 230 38 HOH HOH . H 4 HOH B 15 231 51 HOH HOH . H 4 HOH B 16 232 52 HOH HOH . H 4 HOH B 17 233 59 HOH HOH . H 4 HOH B 18 234 60 HOH HOH . H 4 HOH B 19 235 61 HOH HOH . H 4 HOH B 20 236 62 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 . . . F 3 52.717 65.929 76.394 1 15.1 ? PB ADP 216 B 1 HETATM 2 O O1B ADP . . . F 3 52.456 66.75 77.58 1 23.4 ? O1B ADP 216 B 1 HETATM 3 O O2B ADP . . . F 3 53.586 66.662 75.458 1 29.5 ? O2B ADP 216 B 1 HETATM 4 O O3B ADP . . . F 3 53.012 64.482 76.563 1 0.4 ? O3B ADP 216 B 1 HETATM 5 P PA ADP . . . F 3 50.722 65.569 74.182 1 20.4 ? PA ADP 216 B 1 HETATM 6 O O1A ADP . . . F 3 50.419 66.84 73.478 1 0.6 ? O1A ADP 216 B 1 HETATM 7 O O2A ADP . . . F 3 51.605 64.522 73.583 1 8.9 ? O2A ADP 216 B 1 HETATM 8 O O3A ADP . . . F 3 51.308 65.961 75.635 1 22.1 ? O3A ADP 216 B 1 HETATM 9 O O5' ADP . . . F 3 49.324 64.836 74.469 1 9 ? O5' ADP 216 B 1 HETATM 10 C C5' ADP . . . F 3 49.252 63.417 74.489 1 11.2 ? C5' ADP 216 B 1 HETATM 11 C C4' ADP . . . F 3 48.128 62.938 73.574 1 23.5 ? C4' ADP 216 B 1 HETATM 12 O O4' ADP . . . F 3 46.95 63.676 73.93 1 14 ? O4' ADP 216 B 1 HETATM 13 C C3' ADP . . . F 3 48.298 63.226 72.11 1 20.8 ? C3' ADP 216 B 1 HETATM 14 O O3' ADP . . . F 3 47.812 62.083 71.438 1 3.7 ? O3' ADP 216 B 1 HETATM 15 C C2' ADP . . . F 3 47.472 64.495 71.859 1 21 ? C2' ADP 216 B 1 HETATM 16 O O2' ADP . . . F 3 47.041 64.656 70.5 1 32.4 ? O2' ADP 216 B 1 HETATM 17 C C1' ADP . . . F 3 46.335 64.34 72.838 1 10.2 ? C1' ADP 216 B 1 HETATM 18 N N9 ADP . . . F 3 45.895 65.621 73.453 1 13.6 ? N9 ADP 216 B 1 HETATM 19 C C8 ADP . . . F 3 46.586 66.764 73.629 1 14.2 ? C8 ADP 216 B 1 HETATM 20 N N7 ADP . . . F 3 45.861 67.771 74.157 1 6.3 ? N7 ADP 216 B 1 HETATM 21 C C5 ADP . . . F 3 44.684 67.18 74.341 1 25.3 ? C5 ADP 216 B 1 HETATM 22 C C6 ADP . . . F 3 43.571 67.778 74.881 1 17.2 ? C6 ADP 216 B 1 HETATM 23 N N6 ADP . . . F 3 43.667 69.031 75.274 1 37.4 ? N6 ADP 216 B 1 HETATM 24 N N1 ADP . . . F 3 42.431 67.044 74.95 1 23.1 ? N1 ADP 216 B 1 HETATM 25 C C2 ADP . . . F 3 42.415 65.779 74.544 1 17.7 ? C2 ADP 216 B 1 HETATM 26 N N3 ADP . . . F 3 43.49 65.206 74.037 1 24.9 ? N3 ADP 216 B 1 HETATM 27 C C4 ADP . . . F 3 44.657 65.875 73.904 1 23.8 ? C4 ADP 216 B 1 HETATM 28 H HO3' ADP . . . F 3 47.878 62.24 70.456 1 0 ? HO3' ADP 216 B 1 HETATM 29 H HO2' ADP . . . F 3 47.84 64.744 69.904 1 0 ? HO2' ADP 216 B 1 HETATM 30 H HN61 ADP . . . F 3 44.527 69.528 75.193 1 0 ? HN61 ADP 216 B 1 HETATM 31 H HN62 ADP . . . F 3 42.922 69.547 75.69 1 0 ? HN62 ADP 216 B 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 273 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 31 #