data_7JPZ # _model_server_result.job_id q-eWeIN9frz4w7RXeXO1JQ _model_server_result.datetime_utc '2024-11-01 15:30:23' _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 7jpz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 7JPZ # _exptl.entry_id 7JPZ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 439.504 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(phenylmethyl) N-[(2S)-1-oxidanylidene-1-[[(2S)-1-oxidanyl-3-[(3S)-2-oxidanylidenepyrrolidin-3-yl]propan-2-yl]amino]-3-phenyl-propan-2-yl]carbamate' _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 101.31 _cell.angle_gamma 90 _cell.entry_id 7JPZ _cell.length_a 114.24 _cell.length_b 53.79 _cell.length_c 45.04 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7JPZ _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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_556 -x,y,-z+1 -1 0 0 0 1 0 0 0 -1 -8.833123 0 44.165343 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 C GLN 127 A GLN 127 1_555 A N CSO 128 A CSO 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale2 A C CSO 128 A CSO 128 1_555 A N ALA 129 A ALA 129 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale3 A SG CYS 145 A CYS 145 1_555 B C27 GHX . A GHX 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.809 ? covale ? covale4 A C GLN 299 A GLN 299 1_555 A N CSO 300 A CSO 300 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? covale ? covale5 A C CSO 300 A CSO 300 1_555 A N SER 301 A SER 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? # _chem_comp.formula 'C24 H29 N3 O5' _chem_comp.formula_weight 439.504 _chem_comp.id GHX _chem_comp.mon_nstd_flag . _chem_comp.name '(phenylmethyl) N-[(2S)-1-oxidanylidene-1-[[(2S)-1-oxidanyl-3-[(3S)-2-oxidanylidenepyrrolidin-3-yl]propan-2-yl]amino]-3-phenyl-propan-2-yl]carbamate' _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 C27 O28 GHX sing 97 n n C27 C26 GHX sing 98 n n C26 C29 GHX sing 99 n n C26 N24 GHX sing 100 n n C29 C30 GHX sing 101 n n O1 C34 GHX doub 102 n n C34 C30 GHX sing 103 n n C34 N33 GHX sing 104 n n N24 C23 GHX sing 105 n n C30 C31 GHX sing 106 n n C31 C32 GHX sing 107 n n N33 C32 GHX sing 108 n n O25 C23 GHX doub 109 n n C23 C15 GHX sing 110 n n C16 C15 GHX sing 111 n n C16 C17 GHX sing 112 n n C15 N13 GHX sing 113 n n C17 C18 GHX doub 114 n y C17 C22 GHX sing 115 n y C18 C19 GHX sing 116 n y O14 C12 GHX doub 117 n n C22 C21 GHX doub 118 n y N13 C12 GHX sing 119 n n C12 O11 GHX sing 120 n n C19 C20 GHX doub 121 n y C21 C20 GHX sing 122 n y O11 C10 GHX sing 123 n n C10 C1 GHX sing 124 n n C6 C1 GHX doub 125 n y C6 C5 GHX sing 126 n y C1 C2 GHX sing 127 n y C5 C4 GHX doub 128 n y C2 C3 GHX doub 129 n y C4 C3 GHX sing 130 n y N33 H1 GHX sing 131 n n C32 H2 GHX sing 132 n n C32 H3 GHX sing 133 n n C31 H4 GHX sing 134 n n C31 H5 GHX sing 135 n n C30 H6 GHX sing 136 n n C29 H7 GHX sing 137 n n C29 H8 GHX sing 138 n n C26 H9 GHX sing 139 n n C27 H10 GHX sing 140 n n C27 H11 GHX sing 141 n n O28 H12 GHX sing 142 n n N24 H13 GHX sing 143 n n C15 H14 GHX sing 144 n n C16 H15 GHX sing 145 n n C16 H16 GHX sing 146 n n C22 H17 GHX sing 147 n n C21 H18 GHX sing 148 n n C20 H19 GHX sing 149 n n C19 H20 GHX sing 150 n n C18 H21 GHX sing 151 n n N13 H22 GHX sing 152 n n C10 H23 GHX sing 153 n n C10 H24 GHX sing 154 n n C6 H25 GHX sing 155 n n C5 H26 GHX sing 156 n n C4 H27 GHX sing 157 n n C3 H28 GHX sing 158 n n C2 H29 GHX sing 159 n n # _atom_sites.entry_id 7JPZ _atom_sites.fract_transf_matrix[1][1] 0.008754 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001751 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018591 _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] 0.022642 _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 B 2 GHX A 1 401 401 GHX xm3 . C 3 HOH A 1 501 53 HOH HOH . C 3 HOH A 2 502 115 HOH HOH . C 3 HOH A 3 503 147 HOH HOH . C 3 HOH A 4 504 80 HOH HOH . C 3 HOH A 5 505 25 HOH HOH . C 3 HOH A 6 506 138 HOH HOH . C 3 HOH A 7 507 31 HOH HOH . C 3 HOH A 8 508 68 HOH HOH . C 3 HOH A 9 509 32 HOH HOH . C 3 HOH A 10 510 126 HOH HOH . C 3 HOH A 11 511 104 HOH HOH . C 3 HOH A 12 512 142 HOH HOH . C 3 HOH A 13 513 89 HOH HOH . C 3 HOH A 14 514 124 HOH HOH . C 3 HOH A 15 515 5 HOH HOH . C 3 HOH A 16 516 13 HOH HOH . C 3 HOH A 17 517 9 HOH HOH . C 3 HOH A 18 518 94 HOH HOH . C 3 HOH A 19 519 78 HOH HOH . C 3 HOH A 20 520 501 HOH HOH . C 3 HOH A 21 521 110 HOH HOH . C 3 HOH A 22 522 82 HOH HOH . C 3 HOH A 23 523 93 HOH HOH . C 3 HOH A 24 524 91 HOH HOH . C 3 HOH A 25 525 18 HOH HOH . C 3 HOH A 26 526 77 HOH HOH . C 3 HOH A 27 527 153 HOH HOH . C 3 HOH A 28 528 61 HOH HOH . C 3 HOH A 29 529 75 HOH HOH . C 3 HOH A 30 530 10 HOH HOH . C 3 HOH A 31 531 122 HOH HOH . C 3 HOH A 32 532 62 HOH HOH . C 3 HOH A 33 533 50 HOH HOH . C 3 HOH A 34 534 131 HOH HOH . C 3 HOH A 35 535 79 HOH HOH . C 3 HOH A 36 536 86 HOH HOH . C 3 HOH A 37 537 148 HOH HOH . C 3 HOH A 38 538 76 HOH HOH . C 3 HOH A 39 539 64 HOH HOH . C 3 HOH A 40 540 90 HOH HOH . C 3 HOH A 41 541 11 HOH HOH . C 3 HOH A 42 542 83 HOH HOH . C 3 HOH A 43 543 21 HOH HOH . C 3 HOH A 44 544 6 HOH HOH . C 3 HOH A 45 545 107 HOH HOH . C 3 HOH A 46 546 84 HOH HOH . C 3 HOH A 47 547 28 HOH HOH . C 3 HOH A 48 548 70 HOH HOH . C 3 HOH A 49 549 38 HOH HOH . C 3 HOH A 50 550 108 HOH HOH . C 3 HOH A 51 551 19 HOH HOH . C 3 HOH A 52 552 150 HOH HOH . C 3 HOH A 53 553 63 HOH HOH . C 3 HOH A 54 554 27 HOH HOH . C 3 HOH A 55 555 139 HOH HOH . C 3 HOH A 56 556 2 HOH HOH . C 3 HOH A 57 557 37 HOH HOH . C 3 HOH A 58 558 113 HOH HOH . C 3 HOH A 59 559 12 HOH HOH . C 3 HOH A 60 560 135 HOH HOH . C 3 HOH A 61 561 3 HOH HOH . C 3 HOH A 62 562 99 HOH HOH . C 3 HOH A 63 563 33 HOH HOH . C 3 HOH A 64 564 103 HOH HOH . C 3 HOH A 65 565 66 HOH HOH . C 3 HOH A 66 566 24 HOH HOH . C 3 HOH A 67 567 35 HOH HOH . C 3 HOH A 68 568 43 HOH HOH . C 3 HOH A 69 569 1 HOH HOH . C 3 HOH A 70 570 51 HOH HOH . C 3 HOH A 71 571 56 HOH HOH . C 3 HOH A 72 572 4 HOH HOH . C 3 HOH A 73 573 73 HOH HOH . C 3 HOH A 74 574 44 HOH HOH . C 3 HOH A 75 575 97 HOH HOH . C 3 HOH A 76 576 149 HOH HOH . C 3 HOH A 77 577 8 HOH HOH . C 3 HOH A 78 578 101 HOH HOH . C 3 HOH A 79 579 14 HOH HOH . C 3 HOH A 80 580 39 HOH HOH . C 3 HOH A 81 581 30 HOH HOH . C 3 HOH A 82 582 49 HOH HOH . C 3 HOH A 83 583 41 HOH HOH . C 3 HOH A 84 584 17 HOH HOH . C 3 HOH A 85 585 7 HOH HOH . C 3 HOH A 86 586 109 HOH HOH . C 3 HOH A 87 587 71 HOH HOH . C 3 HOH A 88 588 130 HOH HOH . C 3 HOH A 89 589 67 HOH HOH . C 3 HOH A 90 590 88 HOH HOH . C 3 HOH A 91 591 36 HOH HOH . C 3 HOH A 92 592 65 HOH HOH . C 3 HOH A 93 593 23 HOH HOH . C 3 HOH A 94 594 111 HOH HOH . C 3 HOH A 95 595 48 HOH HOH . C 3 HOH A 96 596 46 HOH HOH . C 3 HOH A 97 597 22 HOH HOH . C 3 HOH A 98 598 42 HOH HOH . C 3 HOH A 99 599 98 HOH HOH . C 3 HOH A 100 600 20 HOH HOH . C 3 HOH A 101 601 145 HOH HOH . C 3 HOH A 102 602 146 HOH HOH . C 3 HOH A 103 603 96 HOH HOH . C 3 HOH A 104 604 106 HOH HOH . C 3 HOH A 105 605 16 HOH HOH . C 3 HOH A 106 606 45 HOH HOH . C 3 HOH A 107 607 47 HOH HOH . C 3 HOH A 108 608 59 HOH HOH . C 3 HOH A 109 609 114 HOH HOH . C 3 HOH A 110 610 52 HOH HOH . C 3 HOH A 111 611 119 HOH HOH . C 3 HOH A 112 612 151 HOH HOH . C 3 HOH A 113 613 34 HOH HOH . C 3 HOH A 114 614 137 HOH HOH . C 3 HOH A 115 615 55 HOH HOH . C 3 HOH A 116 616 132 HOH HOH . C 3 HOH A 117 617 54 HOH HOH . C 3 HOH A 118 618 128 HOH HOH . C 3 HOH A 119 619 136 HOH HOH . C 3 HOH A 120 620 92 HOH HOH . C 3 HOH A 121 621 15 HOH HOH . C 3 HOH A 122 622 81 HOH HOH . C 3 HOH A 123 623 85 HOH HOH . C 3 HOH A 124 624 129 HOH HOH . C 3 HOH A 125 625 118 HOH HOH . C 3 HOH A 126 626 60 HOH HOH . C 3 HOH A 127 627 121 HOH HOH . C 3 HOH A 128 628 140 HOH HOH . C 3 HOH A 129 629 29 HOH HOH . C 3 HOH A 130 630 100 HOH HOH . C 3 HOH A 131 631 127 HOH HOH . C 3 HOH A 132 632 117 HOH HOH . C 3 HOH A 133 633 102 HOH HOH . C 3 HOH A 134 634 26 HOH HOH . C 3 HOH A 135 635 112 HOH HOH . C 3 HOH A 136 636 143 HOH HOH . C 3 HOH A 137 637 152 HOH HOH . C 3 HOH A 138 638 125 HOH HOH . C 3 HOH A 139 639 154 HOH HOH . C 3 HOH A 140 640 74 HOH HOH . C 3 HOH A 141 641 144 HOH HOH . C 3 HOH A 142 642 57 HOH HOH . C 3 HOH A 143 643 141 HOH HOH . C 3 HOH A 144 644 134 HOH HOH . C 3 HOH A 145 645 69 HOH HOH . C 3 HOH A 146 646 123 HOH HOH . C 3 HOH A 147 647 120 HOH HOH . C 3 HOH A 148 648 116 HOH HOH . C 3 HOH A 149 649 40 HOH HOH . C 3 HOH A 150 650 95 HOH HOH . C 3 HOH A 151 651 72 HOH HOH . C 3 HOH A 152 652 87 HOH HOH . C 3 HOH A 153 653 105 HOH HOH . C 3 HOH A 154 654 58 HOH HOH . C 3 HOH A 155 655 133 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 GHX . . . B 2 -11.677 2.594 4.956 1 55.09 ? O1 GHX 401 A 1 HETATM 2 C C34 GHX . . . B 2 -10.926 2.591 3.993 1 58.12 ? C34 GHX 401 A 1 HETATM 3 N N33 GHX . . . B 2 -9.816 3.31 3.864 1 57.92 ? N33 GHX 401 A 1 HETATM 4 C C32 GHX . . . B 2 -9.085 3.018 2.647 1 60.61 ? C32 GHX 401 A 1 HETATM 5 C C31 GHX . . . B 2 -9.902 1.941 1.937 1 54.82 ? C31 GHX 401 A 1 HETATM 6 C C30 GHX . . . B 2 -11.161 1.746 2.779 1 50.57 ? C30 GHX 401 A 1 HETATM 7 C C29 GHX . . . B 2 -11.349 0.279 3.156 1 52.42 ? C29 GHX 401 A 1 HETATM 8 C C26 GHX . . . B 2 -11.817 -0.513 1.939 1 55.74 ? C26 GHX 401 A 1 HETATM 9 C C27 GHX . . . B 2 -12.122 -1.984 2.251 1 49.59 ? C27 GHX 401 A 1 HETATM 10 O O28 GHX . . . B 2 -10.981 -2.688 2.757 1 43.18 ? O28 GHX 401 A 1 HETATM 11 N N24 GHX . . . B 2 -13.031 0.108 1.441 1 66.93 ? N24 GHX 401 A 1 HETATM 12 C C23 GHX . . . B 2 -13.49 -0.109 0.208 1 75.72 ? C23 GHX 401 A 1 HETATM 13 O O25 GHX . . . B 2 -12.769 -0.42 -0.73 1 76.77 ? O25 GHX 401 A 1 HETATM 14 C C15 GHX . . . B 2 -14.969 0.07 0.001 1 79.14 ? C15 GHX 401 A 1 HETATM 15 C C16 GHX . . . B 2 -15.392 -0.798 -1.191 1 80.89 ? C16 GHX 401 A 1 HETATM 16 C C17 GHX . . . B 2 -16.875 -0.8 -1.537 1 82.74 ? C17 GHX 401 A 1 HETATM 17 C C22 GHX . . . B 2 -17.357 -1.715 -2.473 1 78.76 ? C22 GHX 401 A 1 HETATM 18 C C21 GHX . . . B 2 -18.701 -1.75 -2.834 1 64.13 ? C21 GHX 401 A 1 HETATM 19 C C20 GHX . . . B 2 -19.583 -0.86 -2.243 1 69.04 ? C20 GHX 401 A 1 HETATM 20 C C19 GHX . . . B 2 -19.117 0.057 -1.308 1 77.2 ? C19 GHX 401 A 1 HETATM 21 C C18 GHX . . . B 2 -17.772 0.087 -0.955 1 81.16 ? C18 GHX 401 A 1 HETATM 22 N N13 GHX . . . B 2 -15.299 1.475 -0.178 1 82.09 ? N13 GHX 401 A 1 HETATM 23 C C12 GHX . . . B 2 -14.536 2.483 0.246 1 79.62 ? C12 GHX 401 A 1 HETATM 24 O O14 GHX . . . B 2 -14.112 2.6 1.385 1 69.14 ? O14 GHX 401 A 1 HETATM 25 O O11 GHX . . . B 2 -14.187 3.495 -0.73 1 84.53 ? O11 GHX 401 A 1 HETATM 26 C C10 GHX . . . B 2 -13.475 4.658 -0.33 1 85.92 ? C10 GHX 401 A 1 HETATM 27 C C1 GHX . . . B 2 -14.28 5.827 -0.826 1 90.23 ? C1 GHX 401 A 1 HETATM 28 C C6 GHX . . . B 2 -15.409 5.596 -1.61 1 89.89 ? C6 GHX 401 A 1 HETATM 29 C C5 GHX . . . B 2 -16.171 6.657 -2.081 1 83.65 ? C5 GHX 401 A 1 HETATM 30 C C4 GHX . . . B 2 -15.798 7.951 -1.759 1 84.31 ? C4 GHX 401 A 1 HETATM 31 C C3 GHX . . . B 2 -14.672 8.168 -0.976 1 87.45 ? C3 GHX 401 A 1 HETATM 32 C C2 GHX . . . B 2 -13.901 7.119 -0.503 1 89.37 ? C2 GHX 401 A 1 # _model_server_stats.io_time_ms 73 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 298 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 32 #