data_4D8A # _model_server_result.job_id jJ3YGSS1qnTIzYsa3iSBvQ _model_server_result.datetime_utc '2024-11-08 03:35:52' _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 4d8a # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":306}' # _entry.id 4D8A # _exptl.entry_id 4D8A _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 279.252 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'methyl (3R)-3-(7-amino-4,5-dioxo-1,4,5,6-tetrahydropyrimido[4,5-c]pyridazin-3-yl)butanoate' _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 120 _cell.entry_id 4D8A _cell.length_a 98.177 _cell.length_b 98.177 _cell.length_c 262.867 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4D8A _symmetry.cell_setting ? _symmetry.Int_Tables_number 180 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 62 2 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 PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 PISA tetrameric 4 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,C,D,E,F,G,N 1 1,2 B,H,I,J,K,L,M,O 2 1,3 B,H,I,J,K,L,M,O 3 1,3 A,C,D,E,F,G,N 3 4,5 # 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' 4_565 -x,-y+1,z -1 0 0 0 -1 0 0 0 1 -49.0885 85.023776 0 3 'crystal symmetry operation' 4_455 -x-1,-y,z -1 0 0 0 -1 0 0 0 1 -98.177 0 0 4 'crystal symmetry operation' 3_455 -x+y-1,-x,z+1/3 -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -98.177 0 87.622333 5 'crystal symmetry operation' 6_555 x-y,x,z+1/3 0.5 -0.866025 0 0.866025 0.5 0 0 0 1 0 0 87.622333 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 G N N ? 4 M N N # _chem_comp.formula 'C11 H13 N5 O4' _chem_comp.formula_weight 279.252 _chem_comp.id 0HY _chem_comp.mon_nstd_flag . _chem_comp.name 'methyl (3R)-3-(7-amino-4,5-dioxo-1,4,5,6-tetrahydropyrimido[4,5-c]pyridazin-3-yl)butanoate' _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 N1 C9 0HY sing 1 n n N5 C9 0HY sing 2 n n N5 C2 0HY sing 3 n n C9 N2 0HY doub 4 n n O1 C2 0HY doub 5 n n C2 C1 0HY sing 6 n n N2 C6 0HY sing 7 n n C1 C6 0HY doub 8 n n C1 C7 0HY sing 9 n n C6 N4 0HY sing 10 n n C7 O4 0HY doub 11 n n C7 C4 0HY sing 12 n n N4 N3 0HY sing 13 n n C4 N3 0HY doub 14 n n C4 C11 0HY sing 15 n n C11 C10 0HY sing 16 n n C11 C8 0HY sing 17 n n C8 C3 0HY sing 18 n n C3 O3 0HY sing 19 n n C3 O2 0HY doub 20 n n O3 C5 0HY sing 21 n n N1 H1 0HY sing 22 n n N1 H2 0HY sing 23 n n C5 H3 0HY sing 24 n n C5 H4 0HY sing 25 n n C5 H5 0HY sing 26 n n C8 H6 0HY sing 27 n n C8 H7 0HY sing 28 n n C10 H8 0HY sing 29 n n C10 H9 0HY sing 30 n n C10 H10 0HY sing 31 n n N5 H11 0HY sing 32 n n C11 H12 0HY sing 33 n n N4 H14 0HY sing 34 n n # _atom_sites.entry_id 4D8A _atom_sites.fract_transf_matrix[1][1] 0.010186 _atom_sites.fract_transf_matrix[1][2] 0.005881 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011761 _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] 0.003804 _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 LYS A 1 301 274 LYS LYS . D 3 SO4 A 1 302 1 SO4 SO4 . E 3 SO4 A 1 303 3 SO4 SO4 . F 3 SO4 A 1 304 2 SO4 SO4 . G 4 0HY A 1 305 1 0HY LIG . H 3 SO4 B 1 301 2 SO4 SO4 . I 3 SO4 B 1 302 4 SO4 SO4 . J 3 SO4 B 1 303 5 SO4 SO4 . K 3 SO4 B 1 304 1 SO4 SO4 . L 3 SO4 B 1 305 1 SO4 SO4 . M 4 0HY B 1 306 1 0HY LIG . N 5 HOH A 1 401 4 HOH HOH . N 5 HOH A 2 402 7 HOH HOH . N 5 HOH A 3 403 9 HOH HOH . N 5 HOH A 4 404 10 HOH HOH . N 5 HOH A 5 405 11 HOH HOH . N 5 HOH A 6 406 12 HOH HOH . N 5 HOH A 7 407 13 HOH HOH . N 5 HOH A 8 408 14 HOH HOH . N 5 HOH A 9 409 15 HOH HOH . N 5 HOH A 10 410 18 HOH HOH . N 5 HOH A 11 411 20 HOH HOH . N 5 HOH A 12 412 25 HOH HOH . O 5 HOH B 1 401 5 HOH HOH . O 5 HOH B 2 402 6 HOH HOH . O 5 HOH B 3 403 8 HOH HOH . O 5 HOH B 4 404 16 HOH HOH . O 5 HOH B 5 405 17 HOH HOH . O 5 HOH B 6 406 19 HOH HOH . O 5 HOH B 7 407 21 HOH HOH . O 5 HOH B 8 408 22 HOH HOH . O 5 HOH B 9 409 24 HOH HOH . O 5 HOH B 10 410 1 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 O O1 0HY . . . M 4 -31.04 -1.322 50.529 1 49.55 ? O1 0HY 306 B 1 HETATM 2 N N1 0HY . . . M 4 -28.588 2.677 51.964 1 52.55 ? N1 0HY 306 B 1 HETATM 3 C C1 0HY . . . M 4 -29.077 -0.576 49.239 1 60.2 ? C1 0HY 306 B 1 HETATM 4 C C2 0HY . . . M 4 -30.024 -0.415 50.32 1 52.13 ? C2 0HY 306 B 1 HETATM 5 N N2 0HY . . . M 4 -27.887 1.388 49.993 1 64.31 ? N2 0HY 306 B 1 HETATM 6 C C3 0HY . . . M 4 -28.768 -1.285 44.237 1 84.25 ? C3 0HY 306 B 1 HETATM 7 N N3 0HY . . . M 4 -27.133 -0.811 47.145 1 54.84 ? N3 0HY 306 B 1 HETATM 8 C C4 0HY . . . M 4 -28.065 -1.706 47.145 1 58.26 ? C4 0HY 306 B 1 HETATM 9 C C5 0HY . . . M 4 -30.851 -2.237 44.67 1 82.89 ? C5 0HY 306 B 1 HETATM 10 C C6 0HY . . . M 4 -28.063 0.341 49.14 1 60.51 ? C6 0HY 306 B 1 HETATM 11 C C7 0HY . . . M 4 -29.105 -1.665 48.195 1 57.59 ? C7 0HY 306 B 1 HETATM 12 C C8 0HY . . . M 4 -28.066 -2.537 44.679 1 78.32 ? C8 0HY 306 B 1 HETATM 13 N N4 0HY . . . M 4 -27.131 0.16 48.076 1 55.46 ? N4 0HY 306 B 1 HETATM 14 C C9 0HY . . . M 4 -28.767 1.595 51.064 1 57.45 ? C9 0HY 306 B 1 HETATM 15 C C10 0HY . . . M 4 -26.882 -3.736 46.415 1 59.16 ? C10 0HY 306 B 1 HETATM 16 N N5 0HY . . . M 4 -29.878 0.658 51.219 1 54.49 ? N5 0HY 306 B 1 HETATM 17 O O2 0HY . . . M 4 -28.093 -0.466 43.545 1 86.95 ? O2 0HY 306 B 1 HETATM 18 O O3 0HY . . . M 4 -30.029 -1.269 44.112 1 84.96 ? O3 0HY 306 B 1 HETATM 19 C C11 0HY . . . M 4 -28.074 -2.864 46.154 1 64.53 ? C11 0HY 306 B 1 HETATM 20 O O4 0HY . . . M 4 -30.123 -2.58 48.151 1 55.99 ? O4 0HY 306 B 1 # _model_server_stats.io_time_ms 23 _model_server_stats.parse_time_ms 23 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 262 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 20 #