data_4D8Z # _model_server_result.job_id -J4Oe9VQoF6FC4S1E2U0Hw _model_server_result.datetime_utc '2024-11-08 03:49:45' _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 4d8z # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":305}' # _entry.id 4D8Z # _exptl.entry_id 4D8Z _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 265.225 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(3R)-3-(7-amino-4,5-dioxo-1,4,5,6-tetrahydropyrimido[4,5-c]pyridazin-3-yl)butanoic acid' _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 4D8Z _cell.length_a 98.732 _cell.length_b 98.732 _cell.length_c 263.137 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4D8Z _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 -49.366 85.50442 0 3 'crystal symmetry operation' 4_455 -x-1,-y,z -1 0 0 0 -1 0 0 0 1 -98.732 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 -98.732 0 87.712333 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 87.712333 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 G N N ? 3 M N N # _chem_comp.formula 'C10 H11 N5 O4' _chem_comp.formula_weight 265.225 _chem_comp.id 0J2 _chem_comp.mon_nstd_flag . _chem_comp.name '(3R)-3-(7-amino-4,5-dioxo-1,4,5,6-tetrahydropyrimido[4,5-c]pyridazin-3-yl)butanoic acid' _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 O2 C3 0J2 doub 1 n n C3 O1 0J2 sing 2 n n C3 C1 0J2 sing 3 n n C1 C4 0J2 sing 4 n n C4 C2 0J2 sing 5 n n C4 C8 0J2 sing 6 n n N1 C8 0J2 doub 7 n n N1 N2 0J2 sing 8 n n C8 C9 0J2 sing 9 n n N2 C7 0J2 sing 10 n n C9 O4 0J2 doub 11 n n C9 C6 0J2 sing 12 n n C7 C6 0J2 doub 13 n n C7 N5 0J2 sing 14 n n C6 C5 0J2 sing 15 n n N5 C10 0J2 doub 16 n n C5 O3 0J2 doub 17 n n C5 N4 0J2 sing 18 n n C10 N4 0J2 sing 19 n n C10 N3 0J2 sing 20 n n C1 H1 0J2 sing 21 n n C1 H2 0J2 sing 22 n n C2 H3 0J2 sing 23 n n C2 H4 0J2 sing 24 n n C2 H5 0J2 sing 25 n n O1 H6 0J2 sing 26 n n C4 H7 0J2 sing 27 n n N3 H8 0J2 sing 28 n n N3 H9 0J2 sing 29 n n N4 H10 0J2 sing 30 n n N2 H11 0J2 sing 31 n n # _atom_sites.entry_id 4D8Z _atom_sites.fract_transf_matrix[1][1] 0.010128 _atom_sites.fract_transf_matrix[1][2] 0.005848 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011695 _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] 0.0038 _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 SO4 A 1 301 2 SO4 SO4 . D 2 SO4 A 1 302 6 SO4 SO4 . E 2 SO4 A 1 303 1 SO4 SO4 . F 2 SO4 A 1 304 3 SO4 SO4 . G 3 0J2 A 1 305 1 0J2 0J2 . H 2 SO4 B 1 301 1 SO4 SO4 . I 2 SO4 B 1 302 3 SO4 SO4 . J 2 SO4 B 1 303 5 SO4 SO4 . K 2 SO4 B 1 304 2 SO4 SO4 . L 2 SO4 B 1 305 4 SO4 SO4 . M 3 0J2 B 1 306 1 0J2 0J2 . N 4 HOH A 1 401 1 HOH HOH . N 4 HOH A 2 402 4 HOH HOH . N 4 HOH A 3 403 6 HOH HOH . N 4 HOH A 4 404 7 HOH HOH . N 4 HOH A 5 405 12 HOH HOH . N 4 HOH A 6 406 13 HOH HOH . N 4 HOH A 7 407 14 HOH HOH . N 4 HOH A 8 408 22 HOH HOH . N 4 HOH A 9 409 27 HOH HOH . N 4 HOH A 10 410 31 HOH HOH . N 4 HOH A 11 411 33 HOH HOH . N 4 HOH A 12 412 34 HOH HOH . N 4 HOH A 13 413 39 HOH HOH . N 4 HOH A 14 414 40 HOH HOH . N 4 HOH A 15 415 42 HOH HOH . N 4 HOH A 16 416 45 HOH HOH . N 4 HOH A 17 417 50 HOH HOH . N 4 HOH A 18 418 52 HOH HOH . N 4 HOH A 19 419 53 HOH HOH . N 4 HOH A 20 420 66 HOH HOH . N 4 HOH A 21 421 74 HOH HOH . N 4 HOH A 22 422 77 HOH HOH . N 4 HOH A 23 423 81 HOH HOH . N 4 HOH A 24 424 82 HOH HOH . N 4 HOH A 25 425 1 HOH HOH . O 4 HOH B 1 401 2 HOH HOH . O 4 HOH B 2 402 3 HOH HOH . O 4 HOH B 3 403 5 HOH HOH . O 4 HOH B 4 404 8 HOH HOH . O 4 HOH B 5 405 9 HOH HOH . O 4 HOH B 6 406 10 HOH HOH . O 4 HOH B 7 407 11 HOH HOH . O 4 HOH B 8 408 15 HOH HOH . O 4 HOH B 9 409 16 HOH HOH . O 4 HOH B 10 410 17 HOH HOH . O 4 HOH B 11 411 18 HOH HOH . O 4 HOH B 12 412 20 HOH HOH . O 4 HOH B 13 413 25 HOH HOH . O 4 HOH B 14 414 28 HOH HOH . O 4 HOH B 15 415 32 HOH HOH . O 4 HOH B 16 416 36 HOH HOH . O 4 HOH B 17 417 37 HOH HOH . O 4 HOH B 18 418 41 HOH HOH . O 4 HOH B 19 419 43 HOH HOH . O 4 HOH B 20 420 47 HOH HOH . O 4 HOH B 21 421 48 HOH HOH . O 4 HOH B 22 422 51 HOH HOH . O 4 HOH B 23 423 54 HOH HOH . O 4 HOH B 24 424 61 HOH HOH . O 4 HOH B 25 425 62 HOH HOH . O 4 HOH B 26 426 70 HOH HOH . O 4 HOH B 27 427 71 HOH HOH . O 4 HOH B 28 428 72 HOH HOH . O 4 HOH B 29 429 73 HOH HOH . O 4 HOH B 30 430 75 HOH HOH . O 4 HOH B 31 431 76 HOH HOH . O 4 HOH B 32 432 80 HOH HOH . O 4 HOH B 33 433 1 HOH HOH . O 4 HOH B 34 434 2 HOH HOH . O 4 HOH B 35 435 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 C C1 0J2 . . . G 3 -11.7 25.9 9.531 1 67.68 ? C1 0J2 305 A 1 HETATM 2 C C2 0J2 . . . G 3 -10.049 25.923 7.741 1 54.97 ? C2 0J2 305 A 1 HETATM 3 C C3 0J2 . . . G 3 -13.073 26.324 9.918 1 72.05 ? C3 0J2 305 A 1 HETATM 4 O O1 0J2 . . . G 3 -13.47 27.502 9.67 1 72.94 ? O1 0J2 305 A 1 HETATM 5 O O2 0J2 . . . G 3 -13.878 25.439 10.302 1 71.3 ? O2 0J2 305 A 1 HETATM 6 N N1 0J2 . . . G 3 -12.703 24.397 7.246 1 57.3 ? N1 0J2 305 A 1 HETATM 7 N N2 0J2 . . . G 3 -13.551 23.833 6.337 1 56.89 ? N2 0J2 305 A 1 HETATM 8 O O3 0J2 . . . G 3 -14.281 27.913 3.758 1 62.97 ? O3 0J2 305 A 1 HETATM 9 C C4 0J2 . . . G 3 -11.44 26.311 8.118 1 60.54 ? C4 0J2 305 A 1 HETATM 10 N N3 0J2 . . . G 3 -16.457 23.702 2.49 1 55.51 ? N3 0J2 305 A 1 HETATM 11 C C5 0J2 . . . G 3 -14.534 26.58 3.99 1 62.35 ? C5 0J2 305 A 1 HETATM 12 C C6 0J2 . . . G 3 -13.906 25.885 5.089 1 61.14 ? C6 0J2 305 A 1 HETATM 13 N N4 0J2 . . . G 3 -15.387 25.88 3.128 1 61.91 ? N4 0J2 305 A 1 HETATM 14 C C7 0J2 . . . G 3 -14.164 24.558 5.258 1 60.8 ? C7 0J2 305 A 1 HETATM 15 C C8 0J2 . . . G 3 -12.406 25.673 7.169 1 60.51 ? C8 0J2 305 A 1 HETATM 16 C C9 0J2 . . . G 3 -12.988 26.503 6.078 1 61.51 ? C9 0J2 305 A 1 HETATM 17 N N5 0J2 . . . G 3 -14.989 23.84 4.435 1 67.22 ? N5 0J2 305 A 1 HETATM 18 O O4 0J2 . . . G 3 -12.697 27.847 6.037 1 60.22 ? O4 0J2 305 A 1 HETATM 19 C C10 0J2 . . . G 3 -15.618 24.458 3.349 1 62.33 ? C10 0J2 305 A 1 # _model_server_stats.io_time_ms 29 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 299 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 19 #