data_8Z5D # _model_server_result.job_id ikiI52sFpldl8WWFnr5bkQ _model_server_result.datetime_utc '2024-11-23 19:31:18' _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 8z5d # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":101}' # _entry.id 8Z5D # _exptl.entry_id 8Z5D _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 358.348 _entity.id 4 _entity.src_method man _entity.type non-polymer _entity.pdbx_description N~3~-[(2S)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-N-(2-sulfanylethyl)-beta-alaninamide _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 113.33 _cell.angle_gamma 90 _cell.entry_id 8Z5D _cell.length_a 57.318 _cell.length_b 150.888 _cell.length_c 72.269 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8Z5D _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,K,L _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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 ? 4 G N N ? 4 H 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 covale ? covale1 A SG CYS 167 A CYS 167 1_555 E C 6NA . A 6NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.769 ? covale ? covale2 B SG CYS 167 B CYS 167 1_555 F C 6NA . B 6NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.768 ? covale ? covale3 C OG SER 44 C SER 36 1_555 G P PN7 . C PN7 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.582 ? covale ? covale4 D OG SER 44 D SER 36 1_555 H P PN7 . D PN7 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.577 ? # _chem_comp.formula 'C11 H23 N2 O7 P S' _chem_comp.formula_weight 358.348 _chem_comp.id PN7 _chem_comp.mon_nstd_flag . _chem_comp.name N~3~-[(2S)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-N-(2-sulfanylethyl)-beta-alaninamide _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 O3 C3 PN7 sing 279 n n C3 C4 PN7 sing 280 n n C3 C2 PN7 sing 281 n n O4 C4 PN7 doub 282 n n CE2 C2 PN7 sing 283 n n C4 N5 PN7 sing 284 n n C1 C2 PN7 sing 285 n n C1 O3P PN7 sing 286 n n N5 C6 PN7 sing 287 n n C2 CE1 PN7 sing 288 n n C6 C7 PN7 sing 289 n n O2P P PN7 doub 290 n n O1P P PN7 sing 291 n n C7 C8 PN7 sing 292 n n P O3P PN7 sing 293 n n O8 C8 PN7 doub 294 n n C8 N9 PN7 sing 295 n n N9 C10 PN7 sing 296 n n S12 C11 PN7 sing 297 n n C10 C11 PN7 sing 298 n n O3 H1 PN7 sing 299 n n C1 H2 PN7 sing 300 n n C1 H3 PN7 sing 301 n n O1P H4 PN7 sing 302 n n CE1 H5 PN7 sing 303 n n CE1 H6 PN7 sing 304 n n CE1 H7 PN7 sing 305 n n CE2 H8 PN7 sing 306 n n CE2 H9 PN7 sing 307 n n CE2 H10 PN7 sing 308 n n C3 H11 PN7 sing 309 n n N5 H12 PN7 sing 310 n n C6 H13 PN7 sing 311 n n C6 H14 PN7 sing 312 n n C7 H15 PN7 sing 313 n n C7 H16 PN7 sing 314 n n N9 H17 PN7 sing 315 n n C10 H18 PN7 sing 316 n n C10 H19 PN7 sing 317 n n C11 H20 PN7 sing 318 n n C11 H21 PN7 sing 319 n n S12 H22 PN7 sing 320 n n P O4P PN7 sing 321 n n O4P H23 PN7 sing 322 n n # _atom_sites.entry_id 8Z5D _atom_sites.fract_transf_matrix[1][1] 0.017447 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.007524 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006627 _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] 0.015069 _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 E 3 6NA A 1 501 167 6NA C06 . F 3 6NA B 1 501 167 6NA C06 . G 4 PN7 C 1 101 36 PN7 PSR . H 4 PN7 D 1 101 36 PN7 PSR . I 5 HOH A 1 601 92 HOH HOH . I 5 HOH A 2 602 87 HOH HOH . I 5 HOH A 3 603 97 HOH HOH . I 5 HOH A 4 604 22 HOH HOH . I 5 HOH A 5 605 21 HOH HOH . I 5 HOH A 6 606 28 HOH HOH . I 5 HOH A 7 607 63 HOH HOH . I 5 HOH A 8 608 67 HOH HOH . I 5 HOH A 9 609 45 HOH HOH . I 5 HOH A 10 610 31 HOH HOH . I 5 HOH A 11 611 88 HOH HOH . I 5 HOH A 12 612 90 HOH HOH . I 5 HOH A 13 613 85 HOH HOH . I 5 HOH A 14 614 20 HOH HOH . I 5 HOH A 15 615 42 HOH HOH . I 5 HOH A 16 616 7 HOH HOH . I 5 HOH A 17 617 18 HOH HOH . I 5 HOH A 18 618 94 HOH HOH . I 5 HOH A 19 619 86 HOH HOH . I 5 HOH A 20 620 52 HOH HOH . I 5 HOH A 21 621 81 HOH HOH . I 5 HOH A 22 622 89 HOH HOH . J 5 HOH B 1 601 98 HOH HOH . J 5 HOH B 2 602 19 HOH HOH . J 5 HOH B 3 603 100 HOH HOH . J 5 HOH B 4 604 72 HOH HOH . J 5 HOH B 5 605 76 HOH HOH . J 5 HOH B 6 606 96 HOH HOH . J 5 HOH B 7 607 103 HOH HOH . J 5 HOH B 8 608 102 HOH HOH . J 5 HOH B 9 609 54 HOH HOH . J 5 HOH B 10 610 73 HOH HOH . J 5 HOH B 11 611 35 HOH HOH . J 5 HOH B 12 612 46 HOH HOH . J 5 HOH B 13 613 57 HOH HOH . J 5 HOH B 14 614 13 HOH HOH . J 5 HOH B 15 615 34 HOH HOH . J 5 HOH B 16 616 78 HOH HOH . J 5 HOH B 17 617 93 HOH HOH . J 5 HOH B 18 618 99 HOH HOH . J 5 HOH B 19 619 55 HOH HOH . J 5 HOH B 20 620 60 HOH HOH . J 5 HOH B 21 621 29 HOH HOH . J 5 HOH B 22 622 79 HOH HOH . J 5 HOH B 23 623 59 HOH HOH . J 5 HOH B 24 624 101 HOH HOH . J 5 HOH B 25 625 49 HOH HOH . K 5 HOH C 1 201 32 HOH HOH . L 5 HOH D 1 201 53 HOH HOH . L 5 HOH D 2 202 11 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 O3 PN7 . . . H 4 -11.805 18.389 18.356 1 39.77 ? O3 PN7 101 D 1 HETATM 2 O O4 PN7 . . . H 4 -12.513 16.37 15.616 1 46.26 ? O4 PN7 101 D 1 HETATM 3 C C2 PN7 . . . H 4 -13.995 17.904 17.486 1 37.64 ? C2 PN7 101 D 1 HETATM 4 C C1 PN7 . . . H 4 -14.392 18.843 18.608 1 38.44 ? C1 PN7 101 D 1 HETATM 5 P P PN7 . . . H 4 -13.576 21.307 18.346 1 31.62 ? P PN7 101 D 1 HETATM 6 O O1P PN7 . . . H 4 -13.425 22.02 17.046 1 33.15 ? O1P PN7 101 D 1 HETATM 7 O O2P PN7 . . . H 4 -12.407 20.733 19.071 1 36.3 ? O2P PN7 101 D 1 HETATM 8 O O3P PN7 . . . H 4 -14.642 20.15 18.107 1 43.96 ? O3P PN7 101 D 1 HETATM 9 C CE1 PN7 . . . H 4 -14.96 16.743 17.441 1 39.61 ? CE1 PN7 101 D 1 HETATM 10 C CE2 PN7 . . . H 4 -14.002 18.641 16.167 1 32.1 ? CE2 PN7 101 D 1 HETATM 11 C C3 PN7 . . . H 4 -12.604 17.355 17.786 1 41.62 ? C3 PN7 101 D 1 HETATM 12 C C4 PN7 . . . H 4 -11.914 16.846 16.554 1 44.01 ? C4 PN7 101 D 1 HETATM 13 N N5 PN7 . . . H 4 -10.6 16.902 16.543 1 41.94 ? N5 PN7 101 D 1 HETATM 14 C C6 PN7 . . . H 4 -9.771 16.458 15.445 1 48.33 ? C6 PN7 101 D 1 HETATM 15 C C7 PN7 . . . H 4 -8.558 15.815 16.087 1 46.6 ? C7 PN7 101 D 1 HETATM 16 C C8 PN7 . . . H 4 -8.355 14.454 15.492 1 42.61 ? C8 PN7 101 D 1 HETATM 17 O O8 PN7 . . . H 4 -8.901 14.153 14.454 1 40.46 ? O8 PN7 101 D 1 HETATM 18 N N9 PN7 . . . H 4 -7.558 13.656 16.184 1 43.15 ? N9 PN7 101 D 1 HETATM 19 C C10 PN7 . . . H 4 -7.168 12.286 15.907 1 41.8 ? C10 PN7 101 D 1 HETATM 20 C C11 PN7 . . . H 4 -7.956 11.443 16.906 1 36.61 ? C11 PN7 101 D 1 HETATM 21 S S12 PN7 . . . H 4 -9.46 10.806 16.131 1 44.33 ? S12 PN7 101 D 1 # _model_server_stats.io_time_ms 72 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 247 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 21 #