data_3QGD
#
_model_server_result.job_id            WaDXfDQ99I1TytOnK6aWag 
_model_server_result.datetime_utc      '2025-08-15 17:53:38' 
_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          3qgd 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":601}' 
#
_entry.id    3QGD 
#
_exptl.entry_id    3QGD 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              630.732 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(2E)-3-(4-{[(1-{[(13-cyclohexyl-6-oxo-6,7-dihydro-5H-indolo[1,2-d][1,4]benzodiazepin-10-yl)carbonyl]amino}cyclopentyl)carbonyl]amino}phenyl)prop-2-enoic 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         90 
_cell.entry_id            3QGD 
_cell.length_a            66 
_cell.length_b            91.6 
_cell.length_c            231.9 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3QGD 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,C,D,E,L 1 1 
B,F,G,H,I,J,K,M 2 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
? 2 C N N 
? 2 F N N 
#
_chem_comp.formula           'C38 H38 N4 O5' 
_chem_comp.formula_weight    630.732 
_chem_comp.id                23E 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(2E)-3-(4-{[(1-{[(13-cyclohexyl-6-oxo-6,7-dihydro-5H-indolo[1,2-d][1,4]benzodiazepin-10-yl)carbonyl]amino}cyclopentyl)carbonyl]amino}phenyl)prop-2-enoic 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
C2 N1 23E sing 1 n n 
N1 C21 23E sing 2 n n 
N1 HN1 23E sing 3 n n 
C17 C2 23E sing 4 n n 
C3 C2 23E sing 5 n n 
C16 C2 23E sing 6 n n 
O6 C3 23E doub 7 n n 
C3 N4 23E sing 8 n n 
C5 N4 23E sing 9 n n 
N4 HN4 23E sing 10 n n 
C7 C5 23E doub 11 n y 
C11 C5 23E sing 12 n y 
C8 C7 23E sing 13 n y 
C7 H7 23E sing 14 n n 
C9 C8 23E doub 15 n y 
C8 H8 23E sing 16 n n 
C12 C9 23E sing 17 n n 
C9 C10 23E sing 18 n y 
C10 C11 23E doub 19 n y 
C10 H10 23E sing 20 e n 
C11 H11 23E sing 21 n n 
C12 C13 23E doub 22 n n 
C12 H12 23E sing 23 n n 
C14 C13 23E sing 24 n n 
C13 H13 23E sing 25 n n 
O15 C14 23E doub 26 n n 
C14 O20 23E sing 27 n n 
C18 C16 23E sing 28 n n 
C16 H16 23E sing 29 n n 
C16 H16A 23E sing 30 n n 
C19 C17 23E sing 31 n n 
C17 H17 23E sing 32 n n 
C17 H17A 23E sing 33 n n 
C19 C18 23E sing 34 n n 
C18 H18 23E sing 35 n n 
C18 H18A 23E sing 36 n n 
C19 H19 23E sing 37 n n 
C19 H19A 23E sing 38 n n 
O20 HO20 23E sing 39 n n 
O38 C21 23E doub 40 n n 
C21 C22 23E sing 41 n n 
C22 C25 23E doub 42 n y 
C22 C23 23E sing 43 n y 
C23 C24 23E doub 44 n y 
C23 H23 23E sing 45 n n 
C24 C28 23E sing 46 n y 
C24 H24 23E sing 47 n n 
C25 C27 23E sing 48 n y 
C25 H25 23E sing 49 n n 
C44 N26 23E sing 50 n n 
C27 N26 23E sing 51 n y 
N26 C30 23E sing 52 n y 
C27 C28 23E doub 53 n y 
C28 C29 23E sing 54 n y 
C30 C29 23E doub 55 n y 
C29 C31 23E sing 56 n n 
C30 C32 23E sing 57 n y 
C31 C37 23E sing 58 n n 
C31 C33 23E sing 59 n n 
C31 H31 23E sing 60 n n 
C43 C32 23E doub 61 n y 
C32 C39 23E sing 62 n y 
C33 C34 23E sing 63 n n 
C33 H33 23E sing 64 n n 
C33 H33A 23E sing 65 n n 
C35 C34 23E sing 66 n n 
C34 H34 23E sing 67 n n 
C34 H34A 23E sing 68 n n 
C36 C35 23E sing 69 n n 
C35 H35 23E sing 70 n n 
C35 H35A 23E sing 71 n n 
C37 C36 23E sing 72 n n 
C36 H36 23E sing 73 n n 
C36 H36A 23E sing 74 n n 
C37 H37 23E sing 75 n n 
C37 H37A 23E sing 76 n n 
C39 C40 23E doub 77 n y 
C39 H39 23E sing 78 n n 
C41 C40 23E sing 79 n y 
C40 H40 23E sing 80 n n 
C42 C41 23E doub 81 n y 
C41 H41 23E sing 82 n n 
C43 C42 23E sing 83 n y 
C42 H42 23E sing 84 n n 
N45 C43 23E sing 85 n n 
C44 C46 23E sing 86 n n 
C44 H44 23E sing 87 n n 
C44 H44A 23E sing 88 n n 
C46 N45 23E sing 89 n n 
N45 HN45 23E sing 90 n n 
O47 C46 23E doub 91 n n 
#
_atom_sites.entry_id                     3QGD 
_atom_sites.fract_transf_matrix[1][1]    0.015152 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.010917 
_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]    0.004312 
_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 23E A 1 601 601 23E 23E . 
D 3 SO4 A 1 653 653 SO4 SO4 . 
E 3 SO4 A 1 652 652 SO4 SO4 . 
F 2 23E B 1 601 601 23E 23E . 
G 4 26S B 1 602 602 26S 26S . 
H 3 SO4 B 1 656 656 SO4 SO4 . 
I 3 SO4 B 1 653 653 SO4 SO4 . 
J 3 SO4 B 1 657 657 SO4 SO4 . 
K 3 SO4 B 1 658 658 SO4 SO4 . 
L 5 HOH A 1 701 701 HOH HOH . 
L 5 HOH A 2 702 702 HOH HOH . 
L 5 HOH A 3 703 703 HOH HOH . 
L 5 HOH A 4 704 704 HOH HOH . 
L 5 HOH A 5 705 705 HOH HOH . 
L 5 HOH A 6 706 706 HOH HOH . 
L 5 HOH A 7 707 707 HOH HOH . 
L 5 HOH A 8 708 708 HOH HOH . 
L 5 HOH A 9 709 709 HOH HOH . 
L 5 HOH A 10 710 710 HOH HOH . 
L 5 HOH A 11 711 711 HOH HOH . 
L 5 HOH A 12 712 712 HOH HOH . 
L 5 HOH A 13 713 713 HOH HOH . 
L 5 HOH A 14 714 714 HOH HOH . 
L 5 HOH A 15 715 715 HOH HOH . 
L 5 HOH A 16 716 716 HOH HOH . 
L 5 HOH A 17 717 717 HOH HOH . 
L 5 HOH A 18 718 718 HOH HOH . 
L 5 HOH A 19 719 719 HOH HOH . 
L 5 HOH A 20 720 720 HOH HOH . 
L 5 HOH A 21 721 721 HOH HOH . 
L 5 HOH A 22 722 722 HOH HOH . 
L 5 HOH A 23 723 723 HOH HOH . 
L 5 HOH A 24 724 724 HOH HOH . 
L 5 HOH A 25 725 725 HOH HOH . 
L 5 HOH A 26 726 726 HOH HOH . 
L 5 HOH A 27 727 727 HOH HOH . 
L 5 HOH A 28 728 728 HOH HOH . 
L 5 HOH A 29 729 729 HOH HOH . 
L 5 HOH A 30 730 730 HOH HOH . 
L 5 HOH A 31 731 731 HOH HOH . 
L 5 HOH A 32 732 732 HOH HOH . 
L 5 HOH A 33 733 733 HOH HOH . 
L 5 HOH A 34 734 734 HOH HOH . 
L 5 HOH A 35 735 735 HOH HOH . 
L 5 HOH A 36 736 736 HOH HOH . 
L 5 HOH A 37 737 737 HOH HOH . 
L 5 HOH A 38 738 738 HOH HOH . 
L 5 HOH A 39 739 739 HOH HOH . 
L 5 HOH A 40 740 740 HOH HOH . 
L 5 HOH A 41 741 741 HOH HOH . 
L 5 HOH A 42 742 742 HOH HOH . 
L 5 HOH A 43 743 743 HOH HOH . 
L 5 HOH A 44 744 744 HOH HOH . 
L 5 HOH A 45 745 745 HOH HOH . 
L 5 HOH A 46 746 746 HOH HOH . 
L 5 HOH A 47 747 747 HOH HOH . 
L 5 HOH A 48 748 748 HOH HOH . 
L 5 HOH A 49 749 749 HOH HOH . 
L 5 HOH A 50 750 750 HOH HOH . 
L 5 HOH A 51 751 751 HOH HOH . 
L 5 HOH A 52 752 752 HOH HOH . 
L 5 HOH A 53 753 753 HOH HOH . 
L 5 HOH A 54 754 754 HOH HOH . 
L 5 HOH A 55 755 755 HOH HOH . 
L 5 HOH A 56 756 756 HOH HOH . 
L 5 HOH A 57 757 757 HOH HOH . 
L 5 HOH A 58 758 758 HOH HOH . 
L 5 HOH A 59 759 759 HOH HOH . 
L 5 HOH A 60 760 760 HOH HOH . 
L 5 HOH A 61 761 761 HOH HOH . 
M 5 HOH B 1 701 701 HOH HOH . 
M 5 HOH B 2 702 702 HOH HOH . 
M 5 HOH B 3 703 703 HOH HOH . 
M 5 HOH B 4 704 704 HOH HOH . 
M 5 HOH B 5 705 705 HOH HOH . 
M 5 HOH B 6 706 706 HOH HOH . 
M 5 HOH B 7 707 707 HOH HOH . 
M 5 HOH B 8 708 708 HOH HOH . 
M 5 HOH B 9 709 709 HOH HOH . 
M 5 HOH B 10 710 710 HOH HOH . 
M 5 HOH B 11 711 711 HOH HOH . 
M 5 HOH B 12 712 712 HOH HOH . 
M 5 HOH B 13 713 713 HOH HOH . 
M 5 HOH B 14 714 714 HOH HOH . 
M 5 HOH B 15 715 715 HOH HOH . 
M 5 HOH B 16 716 716 HOH HOH . 
M 5 HOH B 17 717 717 HOH HOH . 
M 5 HOH B 18 718 718 HOH HOH . 
M 5 HOH B 19 719 719 HOH HOH . 
M 5 HOH B 20 720 720 HOH HOH . 
M 5 HOH B 21 721 721 HOH HOH . 
M 5 HOH B 22 722 722 HOH HOH . 
M 5 HOH B 23 723 723 HOH HOH . 
M 5 HOH B 24 724 724 HOH HOH . 
M 5 HOH B 25 725 725 HOH HOH . 
M 5 HOH B 26 726 726 HOH HOH . 
M 5 HOH B 27 727 727 HOH HOH . 
M 5 HOH B 28 728 728 HOH HOH . 
M 5 HOH B 29 729 729 HOH HOH . 
M 5 HOH B 30 730 730 HOH HOH . 
M 5 HOH B 31 731 731 HOH HOH . 
M 5 HOH B 32 732 732 HOH HOH . 
M 5 HOH B 33 733 733 HOH HOH . 
M 5 HOH B 34 734 734 HOH HOH . 
M 5 HOH B 35 735 735 HOH HOH . 
M 5 HOH B 36 736 736 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 N1 23E . . . F 2 14.199 0.778 102.377 1 37.04 ? N1 23E 601 B 1 
HETATM 2 C C2 23E . . . F 2 14.397 0.674 103.824 1 38.53 ? C2 23E 601 B 1 
HETATM 3 C C3 23E . . . F 2 14.952 1.964 104.424 1 37.35 ? C3 23E 601 B 1 
HETATM 4 N N4 23E . . . F 2 14.41 3.142 104.049 1 33.7 ? N4 23E 601 B 1 
HETATM 5 C C5 23E . . . F 2 14.667 4.474 104.506 1 33.45 ? C5 23E 601 B 1 
HETATM 6 O O6 23E . . . F 2 15.86 1.888 105.229 1 41.49 ? O6 23E 601 B 1 
HETATM 7 C C7 23E . . . F 2 15.872 5.005 105.029 1 35.46 ? C7 23E 601 B 1 
HETATM 8 C C8 23E . . . F 2 15.951 6.373 105.433 1 36.33 ? C8 23E 601 B 1 
HETATM 9 C C9 23E . . . F 2 14.821 7.222 105.324 1 36.55 ? C9 23E 601 B 1 
HETATM 10 C C10 23E . . . F 2 13.666 6.66 104.77 1 35.31 ? C10 23E 601 B 1 
HETATM 11 C C11 23E . . . F 2 13.573 5.321 104.39 1 32.97 ? C11 23E 601 B 1 
HETATM 12 C C12 23E . . . F 2 14.743 8.712 105.661 1 41.78 ? C12 23E 601 B 1 
HETATM 13 C C13 23E . . . F 2 15.428 9.723 106.24 1 47.13 ? C13 23E 601 B 1 
HETATM 14 C C14 23E . . . F 2 16.732 9.823 106.913 1 54.1 ? C14 23E 601 B 1 
HETATM 15 O O15 23E . . . F 2 17.144 11.041 107.294 1 54.47 ? O15 23E 601 B 1 
HETATM 16 C C16 23E . . . F 2 15.136 -0.643 104.2 1 39.17 ? C16 23E 601 B 1 
HETATM 17 C C17 23E . . . F 2 13.007 0.364 104.462 1 38.44 ? C17 23E 601 B 1 
HETATM 18 C C18 23E . . . F 2 14.622 -1.017 105.616 1 38.89 ? C18 23E 601 B 1 
HETATM 19 C C19 23E . . . F 2 13.38 -0.128 105.879 1 37.74 ? C19 23E 601 B 1 
HETATM 20 O O20 23E . . . F 2 17.406 8.83 107.141 1 59.2 ? O20 23E 601 B 1 
HETATM 21 C C21 23E . . . F 2 15.177 1.133 101.52 1 37.28 ? C21 23E 601 B 1 
HETATM 22 C C22 23E . . . F 2 14.901 1.19 100.027 1 35.45 ? C22 23E 601 B 1 
HETATM 23 C C23 23E . . . F 2 15.918 0.914 99.091 1 37.38 ? C23 23E 601 B 1 
HETATM 24 C C24 23E . . . F 2 15.691 0.903 97.706 1 36.31 ? C24 23E 601 B 1 
HETATM 25 C C25 23E . . . F 2 13.596 1.431 99.583 1 33.45 ? C25 23E 601 B 1 
HETATM 26 N N26 23E . . . F 2 12.234 1.624 97.506 1 39.83 ? N26 23E 601 B 1 
HETATM 27 C C27 23E . . . F 2 13.367 1.402 98.201 1 37.85 ? C27 23E 601 B 1 
HETATM 28 C C28 23E . . . F 2 14.386 1.145 97.292 1 36.28 ? C28 23E 601 B 1 
HETATM 29 C C29 23E . . . F 2 13.707 1.155 95.951 1 31.37 ? C29 23E 601 B 1 
HETATM 30 C C30 23E . . . F 2 12.419 1.449 96.215 1 37.84 ? C30 23E 601 B 1 
HETATM 31 C C31 23E . . . F 2 14.483 0.958 94.67 1 25.85 ? C31 23E 601 B 1 
HETATM 32 C C32 23E . . . F 2 11.269 1.559 95.233 1 42.19 ? C32 23E 601 B 1 
HETATM 33 C C33 23E . . . F 2 15.41 2.132 94.269 1 25.89 ? C33 23E 601 B 1 
HETATM 34 C C34 23E . . . F 2 16.011 1.851 92.871 1 31.36 ? C34 23E 601 B 1 
HETATM 35 C C35 23E . . . F 2 16.708 0.455 92.799 1 32.5 ? C35 23E 601 B 1 
HETATM 36 C C36 23E . . . F 2 15.743 -0.672 93.229 1 30.19 ? C36 23E 601 B 1 
HETATM 37 C C37 23E . . . F 2 15.279 -0.364 94.675 1 26.87 ? C37 23E 601 B 1 
HETATM 38 O O38 23E . . . F 2 16.311 1.359 101.903 1 38.03 ? O38 23E 601 B 1 
HETATM 39 C C39 23E . . . F 2 11.493 2.17 93.984 1 41.13 ? C39 23E 601 B 1 
HETATM 40 C C40 23E . . . F 2 10.555 2.065 92.955 1 39.85 ? C40 23E 601 B 1 
HETATM 41 C C41 23E . . . F 2 9.342 1.42 93.209 1 40.93 ? C41 23E 601 B 1 
HETATM 42 C C42 23E . . . F 2 9.092 0.835 94.461 1 42.72 ? C42 23E 601 B 1 
HETATM 43 C C43 23E . . . F 2 10.032 0.919 95.502 1 42.61 ? C43 23E 601 B 1 
HETATM 44 C C44 23E . . . F 2 10.965 2.032 98.095 1 40.33 ? C44 23E 601 B 1 
HETATM 45 N N45 23E . . . F 2 9.713 0.321 96.761 1 41.2 ? N45 23E 601 B 1 
HETATM 46 C C46 23E . . . F 2 10.111 0.793 97.972 1 42.54 ? C46 23E 601 B 1 
HETATM 47 O O47 23E . . . F 2 9.815 0.204 99.005 1 44.6 ? O47 23E 601 B 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    12 
_model_server_stats.query_time_ms           273 
_model_server_stats.encode_time_ms          19 
_model_server_stats.element_count           47 
#