data_5XWW # _model_server_result.job_id UkgnAxLtDQmpu6uDphCbJg _model_server_result.datetime_utc '2024-10-13 09:15:29' _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 5xww # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":502}' # _entry.id 5XWW # _exptl.entry_id 5XWW _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 390.495 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'S-[2-[3-[[(2R)-3,3-dimethyl-2,4-bis(oxidanyl)butanoyl]amino]propanoylamino]ethyl] (2R)-2-methyl-3-oxidanylidene-pentanethioate' _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 72.67 _cell.angle_beta 67.21 _cell.angle_gamma 89.88 _cell.entry_id 5XWW _cell.length_a 61.066 _cell.length_b 63.627 _cell.length_c 71.586 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5XWW _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _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 ? 3 D N N ? 3 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 covale ? covale1 A NH2 ARG 152 A ARG 131 1_555 B NH2 ARG 152 B ARG 131 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.514 ? covale ? covale2 B CZ ARG 192 B ARG 171 1_555 B OE2 GLU 316 B GLU 295 1_565 ? ? ? ? ? ? ? ? ? ? ? ? 1.537 ? covale ? covale3 B NH2 ARG 192 B ARG 171 1_555 B OE2 GLU 316 B GLU 295 1_565 ? ? ? ? ? ? ? ? ? ? ? ? 1.474 ? # _chem_comp.formula 'C17 H30 N2 O6 S' _chem_comp.formula_weight 390.495 _chem_comp.id 8H6 _chem_comp.mon_nstd_flag . _chem_comp.name 'S-[2-[3-[[(2R)-3,3-dimethyl-2,4-bis(oxidanyl)butanoyl]amino]propanoylamino]ethyl] (2R)-2-methyl-3-oxidanylidene-pentanethioate' _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 O1 C2 8H6 sing 1 n n C2 C3 8H6 sing 2 n n C26 C20 8H6 sing 3 n n C23 C22 8H6 sing 4 n n C3 C15 8H6 sing 5 n n C3 C14 8H6 sing 6 n n C3 C4 8H6 sing 7 n n C20 C21 8H6 sing 8 n n C20 C19 8H6 sing 9 n n C22 C21 8H6 sing 10 n n S13 C19 8H6 sing 11 n n S13 C12 8H6 sing 12 n n C21 O25 8H6 doub 13 n n C4 O16 8H6 sing 14 n n C4 C5 8H6 sing 15 n n C19 O24 8H6 doub 16 n n C12 C11 8H6 sing 17 n n C7 N6 8H6 sing 18 n n C7 C8 8H6 sing 19 n n C5 N6 8H6 sing 20 n n C5 O17 8H6 doub 21 n n N10 C11 8H6 sing 22 n n N10 C9 8H6 sing 23 n n C9 C8 8H6 sing 24 n n C9 O18 8H6 doub 25 n n O1 H1 8H6 sing 26 n n C4 H2 8H6 sing 27 n n C15 H3 8H6 sing 28 n n C15 H4 8H6 sing 29 n n C15 H5 8H6 sing 30 n n C2 H6 8H6 sing 31 n n C2 H7 8H6 sing 32 n n C14 H8 8H6 sing 33 n n C14 H9 8H6 sing 34 n n C14 H10 8H6 sing 35 n n O16 H11 8H6 sing 36 n n N6 H12 8H6 sing 37 n n C7 H13 8H6 sing 38 n n C7 H14 8H6 sing 39 n n C8 H15 8H6 sing 40 n n C8 H16 8H6 sing 41 n n N10 H17 8H6 sing 42 n n C11 H18 8H6 sing 43 n n C11 H19 8H6 sing 44 n n C12 H20 8H6 sing 45 n n C12 H21 8H6 sing 46 n n C20 H22 8H6 sing 47 n n C26 H23 8H6 sing 48 n n C26 H24 8H6 sing 49 n n C26 H25 8H6 sing 50 n n C22 H26 8H6 sing 51 n n C22 H27 8H6 sing 52 n n C23 H28 8H6 sing 53 n n C23 H29 8H6 sing 54 n n C23 H30 8H6 sing 55 n n # _atom_sites.entry_id 5XWW _atom_sites.fract_transf_matrix[1][1] 0.016376 _atom_sites.fract_transf_matrix[1][2] -0.000035 _atom_sites.fract_transf_matrix[1][3] -0.007256 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015717 _atom_sites.fract_transf_matrix[2][3] -0.005349 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.016006 _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 NAP A 1 501 476 NAP NAP . D 3 8H6 A 1 502 479 8H6 PPA . E 2 NAP B 1 501 476 NAP NAP . F 3 8H6 B 1 502 479 8H6 PPA . G 4 HOH A 1 601 25 HOH HOH . G 4 HOH A 2 602 50 HOH HOH . G 4 HOH A 3 603 52 HOH HOH . G 4 HOH A 4 604 3 HOH HOH . G 4 HOH A 5 605 11 HOH HOH . G 4 HOH A 6 606 76 HOH HOH . G 4 HOH A 7 607 70 HOH HOH . G 4 HOH A 8 608 48 HOH HOH . G 4 HOH A 9 609 46 HOH HOH . G 4 HOH A 10 610 58 HOH HOH . G 4 HOH A 11 611 5 HOH HOH . G 4 HOH A 12 612 43 HOH HOH . G 4 HOH A 13 613 71 HOH HOH . G 4 HOH A 14 614 54 HOH HOH . G 4 HOH A 15 615 6 HOH HOH . G 4 HOH A 16 616 60 HOH HOH . G 4 HOH A 17 617 100 HOH HOH . G 4 HOH A 18 618 83 HOH HOH . G 4 HOH A 19 619 82 HOH HOH . G 4 HOH A 20 620 29 HOH HOH . G 4 HOH A 21 621 80 HOH HOH . G 4 HOH A 22 622 18 HOH HOH . G 4 HOH A 23 623 75 HOH HOH . G 4 HOH A 24 624 63 HOH HOH . G 4 HOH A 25 625 41 HOH HOH . G 4 HOH A 26 626 61 HOH HOH . G 4 HOH A 27 627 45 HOH HOH . G 4 HOH A 28 628 86 HOH HOH . G 4 HOH A 29 629 69 HOH HOH . G 4 HOH A 30 630 10 HOH HOH . G 4 HOH A 31 631 95 HOH HOH . G 4 HOH A 32 632 72 HOH HOH . G 4 HOH A 33 633 62 HOH HOH . G 4 HOH A 34 634 89 HOH HOH . G 4 HOH A 35 635 85 HOH HOH . G 4 HOH A 36 636 84 HOH HOH . G 4 HOH A 37 637 102 HOH HOH . G 4 HOH A 38 638 55 HOH HOH . G 4 HOH A 39 639 1 HOH HOH . G 4 HOH A 40 640 23 HOH HOH . G 4 HOH A 41 641 24 HOH HOH . G 4 HOH A 42 642 19 HOH HOH . G 4 HOH A 43 643 93 HOH HOH . G 4 HOH A 44 644 20 HOH HOH . G 4 HOH A 45 645 101 HOH HOH . G 4 HOH A 46 646 32 HOH HOH . G 4 HOH A 47 647 77 HOH HOH . G 4 HOH A 48 648 8 HOH HOH . H 4 HOH B 1 601 81 HOH HOH . H 4 HOH B 2 602 78 HOH HOH . H 4 HOH B 3 603 59 HOH HOH . H 4 HOH B 4 604 2 HOH HOH . H 4 HOH B 5 605 73 HOH HOH . H 4 HOH B 6 606 38 HOH HOH . H 4 HOH B 7 607 31 HOH HOH . H 4 HOH B 8 608 47 HOH HOH . H 4 HOH B 9 609 74 HOH HOH . H 4 HOH B 10 610 13 HOH HOH . H 4 HOH B 11 611 99 HOH HOH . H 4 HOH B 12 612 79 HOH HOH . H 4 HOH B 13 613 15 HOH HOH . H 4 HOH B 14 614 64 HOH HOH . H 4 HOH B 15 615 65 HOH HOH . H 4 HOH B 16 616 98 HOH HOH . H 4 HOH B 17 617 53 HOH HOH . H 4 HOH B 18 618 4 HOH HOH . H 4 HOH B 19 619 57 HOH HOH . H 4 HOH B 20 620 34 HOH HOH . H 4 HOH B 21 621 66 HOH HOH . H 4 HOH B 22 622 21 HOH HOH . H 4 HOH B 23 623 17 HOH HOH . H 4 HOH B 24 624 88 HOH HOH . H 4 HOH B 25 625 40 HOH HOH . H 4 HOH B 26 626 16 HOH HOH . H 4 HOH B 27 627 42 HOH HOH . H 4 HOH B 28 628 33 HOH HOH . H 4 HOH B 29 629 56 HOH HOH . H 4 HOH B 30 630 35 HOH HOH . H 4 HOH B 31 631 90 HOH HOH . H 4 HOH B 32 632 14 HOH HOH . H 4 HOH B 33 633 7 HOH HOH . H 4 HOH B 34 634 26 HOH HOH . H 4 HOH B 35 635 30 HOH HOH . H 4 HOH B 36 636 97 HOH HOH . H 4 HOH B 37 637 49 HOH HOH . H 4 HOH B 38 638 28 HOH HOH . H 4 HOH B 39 639 87 HOH HOH . H 4 HOH B 40 640 12 HOH HOH . H 4 HOH B 41 641 51 HOH HOH . H 4 HOH B 42 642 9 HOH HOH . H 4 HOH B 43 643 22 HOH HOH . H 4 HOH B 44 644 67 HOH HOH . H 4 HOH B 45 645 27 HOH HOH . H 4 HOH B 46 646 36 HOH HOH . H 4 HOH B 47 647 37 HOH HOH . H 4 HOH B 48 648 68 HOH HOH . H 4 HOH B 49 649 39 HOH HOH . H 4 HOH B 50 650 96 HOH HOH . H 4 HOH B 51 651 92 HOH HOH . H 4 HOH B 52 652 44 HOH HOH . H 4 HOH B 53 653 94 HOH HOH . H 4 HOH B 54 654 91 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 8H6 . . . D 3 -24.595 -3.494 -19.664 1 38.81 ? O1 8H6 502 A 1 HETATM 2 O O17 8H6 . . . D 3 -26.083 -3.852 -14.862 1 51.32 ? O17 8H6 502 A 1 HETATM 3 C C5 8H6 . . . D 3 -25.56 -3.204 -15.738 1 51.31 ? C5 8H6 502 A 1 HETATM 4 C C4 8H6 . . . D 3 -26.103 -3.406 -17.147 1 58.02 ? C4 8H6 502 A 1 HETATM 5 C C3 8H6 . . . D 3 -25.679 -4.714 -17.857 1 53.02 ? C3 8H6 502 A 1 HETATM 6 C C15 8H6 . . . D 3 -26.719 -5.832 -17.778 1 57.65 ? C15 8H6 502 A 1 HETATM 7 C C2 8H6 . . . D 3 -25.539 -4.519 -19.366 1 49.12 ? C2 8H6 502 A 1 HETATM 8 C C14 8H6 . . . D 3 -24.372 -5.185 -17.243 1 54.36 ? C14 8H6 502 A 1 HETATM 9 O O16 8H6 . . . D 3 -27.53 -3.469 -17.034 1 67.66 ? O16 8H6 502 A 1 HETATM 10 N N6 8H6 . . . D 3 -24.558 -2.476 -15.405 1 46.56 ? N6 8H6 502 A 1 HETATM 11 C C7 8H6 . . . D 3 -23.814 -1.317 -15.913 1 46.49 ? C7 8H6 502 A 1 HETATM 12 C C8 8H6 . . . D 3 -23.8 -0.354 -14.702 1 44.73 ? C8 8H6 502 A 1 HETATM 13 C C9 8H6 . . . D 3 -23.179 1.028 -14.865 1 48.46 ? C9 8H6 502 A 1 HETATM 14 O O18 8H6 . . . D 3 -22.202 1.423 -14.19 1 40.31 ? O18 8H6 502 A 1 HETATM 15 N N10 8H6 . . . D 3 -23.972 1.828 -15.417 1 46.1 ? N10 8H6 502 A 1 HETATM 16 C C11 8H6 . . . D 3 -23.844 3.242 -15.717 1 54.44 ? C11 8H6 502 A 1 HETATM 17 C C12 8H6 . . . D 3 -22.637 3.748 -14.971 1 48.38 ? C12 8H6 502 A 1 HETATM 18 S S13 8H6 . . . D 3 -21.327 3.911 -16.124 1 58.17 ? S13 8H6 502 A 1 HETATM 19 C C19 8H6 . . . D 3 -21.441 5.531 -16.35 1 49.58 ? C19 8H6 502 A 1 HETATM 20 O O24 8H6 . . . D 3 -21.126 6.244 -15.397 1 76.87 ? O24 8H6 502 A 1 HETATM 21 C C20 8H6 . . . D 3 -22.34 5.996 -17.45 1 47.32 ? C20 8H6 502 A 1 HETATM 22 C C26 8H6 . . . D 3 -22.108 5.104 -18.671 1 38.59 ? C26 8H6 502 A 1 HETATM 23 C C21 8H6 . . . D 3 -22.063 7.454 -17.696 1 46.92 ? C21 8H6 502 A 1 HETATM 24 O O25 8H6 . . . D 3 -21.225 7.988 -16.987 1 36.19 ? O25 8H6 502 A 1 HETATM 25 C C22 8H6 . . . D 3 -22.989 8.333 -18.511 1 50.26 ? C22 8H6 502 A 1 HETATM 26 C C23 8H6 . . . D 3 -23.579 7.574 -19.678 1 53.01 ? C23 8H6 502 A 1 # _model_server_stats.io_time_ms 67 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 265 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 26 #