data_4D8V # _model_server_result.job_id RrYei9l79kmedw5nMEagPQ _model_server_result.datetime_utc '2024-11-24 13:37:49' _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 4d8v # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":303}' # _entry.id 4D8V # _exptl.entry_id 4D8V _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 135.127 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description ADENINE _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 4D8V _cell.length_a 136.827 _cell.length_b 136.827 _cell.length_c 57.108 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4D8V _symmetry.cell_setting ? _symmetry.Int_Tables_number 150 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 3 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # 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_455 -y-1,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 -136.827 0 0 3 'crystal symmetry operation' 3_445 -x+y-1,-x-1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -68.4135 -118.495658 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 E N N ? 3 H N N # _chem_comp.formula 'C5 H5 N5' _chem_comp.formula_weight 135.127 _chem_comp.id ADE _chem_comp.mon_nstd_flag . _chem_comp.name ADENINE _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 N9 C8 ADE sing 1 n y N9 C4 ADE sing 2 n y N9 HN9 ADE sing 3 n n C8 N7 ADE doub 4 n y C8 H8 ADE sing 5 n n N7 C5 ADE sing 6 n y C5 C6 ADE sing 7 n y C5 C4 ADE doub 8 n y C6 N6 ADE sing 9 n n C6 N1 ADE doub 10 n y N6 HN61 ADE sing 11 n n N6 HN62 ADE sing 12 n n N1 C2 ADE sing 13 n y C2 N3 ADE doub 14 n y C2 H2 ADE sing 15 n n N3 C4 ADE sing 16 n y # _atom_sites.entry_id 4D8V _atom_sites.fract_transf_matrix[1][1] 0.007308 _atom_sites.fract_transf_matrix[1][2] 0.00422 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008439 _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] 0.017511 _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 4 SO4 SO4 . E 3 ADE A 1 303 5 ADE A . F 2 SO4 B 1 301 1 SO4 SO4 . G 2 SO4 B 1 302 3 SO4 SO4 . H 3 ADE B 1 303 6 ADE A . I 4 HOH A 1 401 9 HOH HOH . I 4 HOH A 2 402 11 HOH HOH . I 4 HOH A 3 403 12 HOH HOH . I 4 HOH A 4 404 14 HOH HOH . I 4 HOH A 5 405 16 HOH HOH . I 4 HOH A 6 406 19 HOH HOH . I 4 HOH A 7 407 20 HOH HOH . I 4 HOH A 8 408 21 HOH HOH . I 4 HOH A 9 409 24 HOH HOH . I 4 HOH A 10 410 27 HOH HOH . I 4 HOH A 11 411 29 HOH HOH . I 4 HOH A 12 412 30 HOH HOH . I 4 HOH A 13 413 31 HOH HOH . I 4 HOH A 14 414 33 HOH HOH . I 4 HOH A 15 415 34 HOH HOH . I 4 HOH A 16 416 35 HOH HOH . I 4 HOH A 17 417 36 HOH HOH . I 4 HOH A 18 418 41 HOH HOH . I 4 HOH A 19 419 42 HOH HOH . I 4 HOH A 20 420 44 HOH HOH . I 4 HOH A 21 421 46 HOH HOH . I 4 HOH A 22 422 48 HOH HOH . I 4 HOH A 23 423 52 HOH HOH . I 4 HOH A 24 424 54 HOH HOH . I 4 HOH A 25 425 55 HOH HOH . I 4 HOH A 26 426 57 HOH HOH . I 4 HOH A 27 427 63 HOH HOH . I 4 HOH A 28 428 68 HOH HOH . I 4 HOH A 29 429 69 HOH HOH . I 4 HOH A 30 430 70 HOH HOH . I 4 HOH A 31 431 71 HOH HOH . I 4 HOH A 32 432 72 HOH HOH . I 4 HOH A 33 433 80 HOH HOH . I 4 HOH A 34 434 81 HOH HOH . I 4 HOH A 35 435 82 HOH HOH . I 4 HOH A 36 436 83 HOH HOH . I 4 HOH A 37 437 84 HOH HOH . I 4 HOH A 38 438 85 HOH HOH . I 4 HOH A 39 439 88 HOH HOH . I 4 HOH A 40 440 89 HOH HOH . I 4 HOH A 41 441 90 HOH HOH . I 4 HOH A 42 442 91 HOH HOH . I 4 HOH A 43 443 101 HOH HOH . I 4 HOH A 44 444 102 HOH HOH . I 4 HOH A 45 445 103 HOH HOH . I 4 HOH A 46 446 104 HOH HOH . I 4 HOH A 47 447 105 HOH HOH . I 4 HOH A 48 448 106 HOH HOH . J 4 HOH B 1 401 7 HOH HOH . J 4 HOH B 2 402 8 HOH HOH . J 4 HOH B 3 403 10 HOH HOH . J 4 HOH B 4 404 13 HOH HOH . J 4 HOH B 5 405 15 HOH HOH . J 4 HOH B 6 406 17 HOH HOH . J 4 HOH B 7 407 18 HOH HOH . J 4 HOH B 8 408 22 HOH HOH . J 4 HOH B 9 409 23 HOH HOH . J 4 HOH B 10 410 25 HOH HOH . J 4 HOH B 11 411 26 HOH HOH . J 4 HOH B 12 412 28 HOH HOH . J 4 HOH B 13 413 32 HOH HOH . J 4 HOH B 14 414 37 HOH HOH . J 4 HOH B 15 415 38 HOH HOH . J 4 HOH B 16 416 39 HOH HOH . J 4 HOH B 17 417 40 HOH HOH . J 4 HOH B 18 418 43 HOH HOH . J 4 HOH B 19 419 45 HOH HOH . J 4 HOH B 20 420 47 HOH HOH . J 4 HOH B 21 421 49 HOH HOH . J 4 HOH B 22 422 50 HOH HOH . J 4 HOH B 23 423 51 HOH HOH . J 4 HOH B 24 424 53 HOH HOH . J 4 HOH B 25 425 56 HOH HOH . J 4 HOH B 26 426 58 HOH HOH . J 4 HOH B 27 427 59 HOH HOH . J 4 HOH B 28 428 60 HOH HOH . J 4 HOH B 29 429 61 HOH HOH . J 4 HOH B 30 430 62 HOH HOH . J 4 HOH B 31 431 64 HOH HOH . J 4 HOH B 32 432 65 HOH HOH . J 4 HOH B 33 433 66 HOH HOH . J 4 HOH B 34 434 67 HOH HOH . J 4 HOH B 35 435 73 HOH HOH . J 4 HOH B 36 436 74 HOH HOH . J 4 HOH B 37 437 75 HOH HOH . J 4 HOH B 38 438 76 HOH HOH . J 4 HOH B 39 439 77 HOH HOH . J 4 HOH B 40 440 78 HOH HOH . J 4 HOH B 41 441 79 HOH HOH . J 4 HOH B 42 442 86 HOH HOH . J 4 HOH B 43 443 87 HOH HOH . J 4 HOH B 44 444 92 HOH HOH . J 4 HOH B 45 445 93 HOH HOH . J 4 HOH B 46 446 94 HOH HOH . J 4 HOH B 47 447 95 HOH HOH . J 4 HOH B 48 448 96 HOH HOH . J 4 HOH B 49 449 97 HOH HOH . J 4 HOH B 50 450 98 HOH HOH . J 4 HOH B 51 451 99 HOH HOH . J 4 HOH B 52 452 100 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 N N9 ADE . . . H 3 -52.972 -20.914 -23.538 0.5 40.69 ? N9 ADE 303 B 1 HETATM 2 C C8 ADE . . . H 3 -52.687 -20.034 -24.555 0.5 41.71 ? C8 ADE 303 B 1 HETATM 3 N N7 ADE . . . H 3 -53.002 -20.473 -25.754 0.5 40.9 ? N7 ADE 303 B 1 HETATM 4 C C5 ADE . . . H 3 -53.536 -21.728 -25.518 0.5 41 ? C5 ADE 303 B 1 HETATM 5 C C6 ADE . . . H 3 -54.057 -22.712 -26.38 0.5 43.61 ? C6 ADE 303 B 1 HETATM 6 N N6 ADE . . . H 3 -54.12 -22.563 -27.707 0.5 45.88 ? N6 ADE 303 B 1 HETATM 7 N N1 ADE . . . H 3 -54.505 -23.866 -25.844 0.5 43.65 ? N1 ADE 303 B 1 HETATM 8 C C2 ADE . . . H 3 -54.42 -23.99 -24.511 0.5 43.59 ? C2 ADE 303 B 1 HETATM 9 N N3 ADE . . . H 3 -53.97 -23.13 -23.596 0.5 41.05 ? N3 ADE 303 B 1 HETATM 10 C C4 ADE . . . H 3 -53.533 -22.009 -24.168 0.5 40.72 ? C4 ADE 303 B 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 10 #