data_3LY6 # _model_server_result.job_id mqU3tXC47mqE5oMxQ1NOKQ _model_server_result.datetime_utc '2024-11-04 20:34:14' _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 3ly6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":700}' # _entry.id 3LY6 # _exptl.entry_id 3LY6 _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 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 3LY6 _cell.length_a 134.175 _cell.length_b 215.759 _cell.length_c 165.956 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3LY6 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 PISA monomeric 1 author_and_software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,D 1 1 B,E 2 1 C,F 3 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 ? 2 D N N ? 2 E N N ? 2 F 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 230 A CYS 230 1_555 A SG CYS 370 A CYS 370 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf2 B SG CYS 230 B CYS 230 1_555 B SG CYS 370 B CYS 370 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf3 C SG CYS 230 C CYS 230 1_555 C SG CYS 370 C CYS 370 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? # _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 3LY6 _atom_sites.fract_transf_matrix[1][1] 0.007453 _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] 0.004635 _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] 0.006026 _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 ATP A 1 700 700 ATP ATP . E 2 ATP B 1 701 701 ATP ATP . F 2 ATP C 1 702 702 ATP ATP . # 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 . . . D 2 86.703 -0.801 3.048 1 72.17 ? PG ATP 700 A 1 HETATM 2 O O1G ATP . . . D 2 87.145 -0.39 4.54 1 72.17 ? O1G ATP 700 A 1 HETATM 3 O O2G ATP . . . D 2 85.592 0.017 2.506 1 72.17 ? O2G ATP 700 A 1 HETATM 4 O O3G ATP . . . D 2 88.023 -0.694 2.133 1 72.17 ? O3G ATP 700 A 1 HETATM 5 P PB ATP . . . D 2 85.356 -2.946 2.003 1 72.17 ? PB ATP 700 A 1 HETATM 6 O O1B ATP . . . D 2 85.226 -1.778 0.9 1 72.17 ? O1B ATP 700 A 1 HETATM 7 O O2B ATP . . . D 2 85.832 -4.227 1.434 1 72.17 ? O2B ATP 700 A 1 HETATM 8 O O3B ATP . . . D 2 86.355 -2.369 3.12 1 72.17 ? O3B ATP 700 A 1 HETATM 9 P PA ATP . . . D 2 82.796 -1.948 2.67 1 72.17 ? PA ATP 700 A 1 HETATM 10 O O1A ATP . . . D 2 82.239 -1.795 4.027 1 72.17 ? O1A ATP 700 A 1 HETATM 11 O O2A ATP . . . D 2 83.339 -0.748 1.982 1 72.17 ? O2A ATP 700 A 1 HETATM 12 O O3A ATP . . . D 2 83.939 -3.079 2.755 1 72.17 ? O3A ATP 700 A 1 HETATM 13 O O5' ATP . . . D 2 81.708 -2.647 1.712 1 72.17 ? O5' ATP 700 A 1 HETATM 14 C C5' ATP . . . D 2 81.956 -2.707 0.306 1 72.17 ? C5' ATP 700 A 1 HETATM 15 C C4' ATP . . . D 2 81.122 -3.799 -0.366 1 72.17 ? C4' ATP 700 A 1 HETATM 16 O O4' ATP . . . D 2 81.276 -4.993 0.424 1 72.17 ? O4' ATP 700 A 1 HETATM 17 C C3' ATP . . . D 2 79.638 -3.434 -0.294 1 72.17 ? C3' ATP 700 A 1 HETATM 18 O O3' ATP . . . D 2 78.912 -4.182 -1.274 1 72.17 ? O3' ATP 700 A 1 HETATM 19 C C2' ATP . . . D 2 79.3 -3.957 1.099 1 72.17 ? C2' ATP 700 A 1 HETATM 20 O O2' ATP . . . D 2 77.889 -4.162 1.198 1 72.17 ? O2' ATP 700 A 1 HETATM 21 C C1' ATP . . . D 2 79.986 -5.315 0.972 1 72.17 ? C1' ATP 700 A 1 HETATM 22 N N9 ATP . . . D 2 80.089 -5.986 2.289 1 72.17 ? N9 ATP 700 A 1 HETATM 23 C C8 ATP . . . D 2 80.779 -5.554 3.339 1 72.17 ? C8 ATP 700 A 1 HETATM 24 N N7 ATP . . . D 2 80.657 -6.421 4.344 1 72.17 ? N7 ATP 700 A 1 HETATM 25 C C5 ATP . . . D 2 79.881 -7.414 3.923 1 72.17 ? C5 ATP 700 A 1 HETATM 26 C C6 ATP . . . D 2 79.41 -8.588 4.507 1 72.17 ? C6 ATP 700 A 1 HETATM 27 N N6 ATP . . . D 2 79.773 -8.912 5.743 1 72.17 ? N6 ATP 700 A 1 HETATM 28 N N1 ATP . . . D 2 78.62 -9.4 3.788 1 72.17 ? N1 ATP 700 A 1 HETATM 29 C C2 ATP . . . D 2 78.289 -9.106 2.548 1 72.17 ? C2 ATP 700 A 1 HETATM 30 N N3 ATP . . . D 2 78.725 -7.999 1.958 1 72.17 ? N3 ATP 700 A 1 HETATM 31 C C4 ATP . . . D 2 79.514 -7.144 2.616 1 72.17 ? C4 ATP 700 A 1 # _model_server_stats.io_time_ms 66 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 278 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 31 #