data_5XH
# 
_chem_comp.id                                    5XH 
_chem_comp.name                                  "~{N}-[1-[(3~{R})-1-[4-(dimethylamino)but-2-enoyl]azepan-3-yl]-7-methyl-benzimidazol-2-yl]-2-methyl-pyridine-4-carboxamide" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C27 H34 N6 O2" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2015-12-21 
_chem_comp.pdbx_modified_date                    2024-09-27 
_chem_comp.pdbx_ambiguous_flag                   N 
_chem_comp.pdbx_release_status                   REL 
_chem_comp.pdbx_replaced_by                      ? 
_chem_comp.pdbx_replaces                         ? 
_chem_comp.formula_weight                        474.598 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     5XH 
_chem_comp.pdbx_model_coordinates_details        ? 
_chem_comp.pdbx_model_coordinates_missing_flag   N 
_chem_comp.pdbx_ideal_coordinates_details        Corina 
_chem_comp.pdbx_ideal_coordinates_missing_flag   N 
_chem_comp.pdbx_model_coordinates_db_code        5FEQ 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  RCSB 
_chem_comp.pdbx_pcm                              Y 
# 
loop_
_chem_comp_atom.comp_id 
_chem_comp_atom.atom_id 
_chem_comp_atom.alt_atom_id 
_chem_comp_atom.type_symbol 
_chem_comp_atom.charge 
_chem_comp_atom.pdbx_align 
_chem_comp_atom.pdbx_aromatic_flag 
_chem_comp_atom.pdbx_leaving_atom_flag 
_chem_comp_atom.pdbx_stereo_config 
_chem_comp_atom.pdbx_backbone_atom_flag 
_chem_comp_atom.pdbx_n_terminal_atom_flag 
_chem_comp_atom.pdbx_c_terminal_atom_flag 
_chem_comp_atom.model_Cartn_x 
_chem_comp_atom.model_Cartn_y 
_chem_comp_atom.model_Cartn_z 
_chem_comp_atom.pdbx_model_Cartn_x_ideal 
_chem_comp_atom.pdbx_model_Cartn_y_ideal 
_chem_comp_atom.pdbx_model_Cartn_z_ideal 
_chem_comp_atom.pdbx_component_atom_id 
_chem_comp_atom.pdbx_component_comp_id 
_chem_comp_atom.pdbx_ordinal 
5XH C1  C1  C 0 1 N N N N N N -17.525 -7.758  47.096 6.438  2.386  1.775  C1  5XH 1  
5XH C2  C2  C 0 1 N N N N N N -18.085 -7.997  49.401 5.856  1.395  -0.356 C2  5XH 2  
5XH C3  C3  C 0 1 N N N N N N -18.841 -7.050  50.313 4.508  0.929  0.130  C3  5XH 3  
5XH O1  O1  O 0 1 N N N N N N -21.139 2.333   54.057 -2.532 -3.104 0.299  O1  5XH 4  
5XH O2  O2  O 0 1 N N N N N N -17.976 -4.563  51.288 2.012  0.163  0.980  O2  5XH 5  
5XH C11 C4  C 0 1 Y N N N N N -19.649 0.800   52.174 -2.507 -0.460 0.098  C11 5XH 6  
5XH C12 C5  C 0 1 N N N N N N -21.692 1.395   53.476 -1.464 -2.582 0.043  C12 5XH 7  
5XH C13 C6  C 0 1 Y N N N N N -23.131 1.066   53.738 -0.256 -3.420 -0.141 C13 5XH 8  
5XH C14 C7  C 0 1 Y N N N N N -23.727 1.572   54.888 0.982  -2.840 -0.436 C14 5XH 9  
5XH C15 C8  C 0 1 Y N N N N N -25.017 1.189   55.188 2.082  -3.659 -0.599 C15 5XH 10 
5XH C16 C9  C 0 1 Y N N N N N -25.170 -0.125  53.303 0.830  -5.554 -0.198 C16 5XH 11 
5XH C17 C10 C 0 1 N N N N N N -26.001 -1.061  52.480 0.773  -7.055 -0.076 C17 5XH 12 
5XH C18 C11 C 0 1 Y N N N N N -23.876 0.217   52.922 -0.321 -4.811 -0.019 C18 5XH 13 
5XH C19 C12 C 0 1 Y N N N N N -17.584 1.364   52.271 -4.574 0.122  0.475  C19 5XH 14 
5XH C20 C13 C 0 1 Y N N N N N -16.376 1.928   52.680 -5.942 0.204  0.747  C20 5XH 15 
5XH C21 C14 C 0 1 Y N N N N N -15.211 1.598   52.009 -6.560 1.433  0.782  C21 5XH 16 
5XH C22 C15 C 0 1 Y N N N N N -15.241 0.723   50.937 -5.834 2.593  0.549  C22 5XH 17 
5XH C23 C16 C 0 1 Y N N N N N -16.427 0.120   50.517 -4.483 2.529  0.280  C23 5XH 18 
5XH C24 C17 C 0 1 N N N N N N -16.400 -0.871  49.383 -3.703 3.793  0.027  C24 5XH 19 
5XH C25 C18 C 0 1 Y N N N N N -17.607 0.441   51.201 -3.845 1.298  0.237  C25 5XH 20 
5XH C26 C19 C 0 1 N N N N N N -19.502 -2.290  51.199 -0.277 1.519  0.710  C26 5XH 21 
5XH C27 C20 C 0 1 N N N N N N -19.168 -9.371  47.775 8.181  1.607  0.285  C27 5XH 22 
5XH C5  C21 C 0 1 N N N N N N -18.977 -4.548  50.571 2.118  1.234  0.414  C5  5XH 23 
5XH C4  C22 C 0 1 N N N N N N -19.233 -5.718  49.649 3.434  1.689  -0.060 C4  5XH 24 
5XH N1  N1  N 0 1 N N N N N N -18.600 -8.051  48.044 6.809  1.389  0.762  N1  5XH 25 
5XH N2  N2  N 0 1 N N N N N N -19.933 -3.591  50.684 1.028  2.005  0.222  N2  5XH 26 
5XH C10 C23 C 0 1 N N R N N N -19.550 -1.038  50.288 -1.406 1.778  -0.303 C10 5XH 27 
5XH C9  C24 C 0 1 N N N N N N -20.922 -0.718  49.658 -0.919 1.501  -1.704 C9  5XH 28 
5XH C8  C25 C 0 1 N N N N N N -21.498 -1.809  48.769 -0.374 2.789  -2.314 C8  5XH 29 
5XH C7  C26 C 0 1 N N N N N N -22.128 -3.009  49.487 1.030  3.071  -1.979 C7  5XH 30 
5XH C6  C27 C 0 1 N N N N N N -21.376 -3.849  50.533 1.187  3.272  -0.454 C6  5XH 31 
5XH N3  N3  N 0 1 Y N N N N N -18.987 0.031   51.133 -2.540 0.901  -0.001 N3  5XH 32 
5XH N6  N4  N 0 1 Y N N N N N -18.835 1.591   52.837 -3.703 -0.916 0.375  N6  5XH 33 
5XH N4  N5  N 0 1 N N N N N N -21.043 0.629   52.528 -1.379 -1.242 -0.073 N4  5XH 34 
5XH N5  N6  N 0 1 Y N N N N N -25.743 0.350   54.431 1.976  -4.967 -0.481 N5  5XH 35 
5XH H1  H1  H 0 1 N N N N N N -17.108 -6.763  47.310 6.504  3.385  1.342  H1  5XH 36 
5XH H2  H2  H 0 1 N N N N N N -16.734 -8.516  47.193 5.418  2.202  2.110  H2  5XH 37 
5XH H3  H3  H 0 1 N N N N N N -17.925 -7.775  46.071 7.119  2.313  2.623  H3  5XH 38 
5XH H4  H4  H 0 1 N N N N N N -18.139 -9.008  49.831 6.211  0.725  -1.140 H4  5XH 39 
5XH H5  H5  H 0 1 N N N N N N -17.035 -7.672  49.359 5.769  2.406  -0.754 H5  5XH 40 
5XH H6  H6  H 0 1 N N N N N N -19.083 -7.289  51.338 4.415  -0.023 0.632  H6  5XH 41 
5XH H8  H8  H 0 1 N N N N N N -23.190 2.251   55.533 1.076  -1.769 -0.534 H8  5XH 42 
5XH H9  H9  H 0 1 N N N N N N -25.470 1.587   56.084 3.043  -3.221 -0.827 H9  5XH 43 
5XH H10 H10 H 0 1 N N N N N N -26.979 -1.204  52.962 0.968  -7.343 0.957  H10 5XH 44 
5XH H11 H11 H 0 1 N N N N N N -26.146 -0.636  51.476 -0.216 -7.406 -0.370 H11 5XH 45 
5XH H12 H12 H 0 1 N N N N N N -25.488 -2.030  52.397 1.525  -7.501 -0.726 H12 5XH 46 
5XH H13 H13 H 0 1 N N N N N N -23.455 -0.170  52.006 -1.257 -5.298 0.213  H13 5XH 47 
5XH H14 H14 H 0 1 N N N N N N -16.350 2.616   53.512 -6.514 -0.695 0.929  H14 5XH 48 
5XH H15 H15 H 0 1 N N N N N N -14.271 2.027   52.324 -7.617 1.496  0.993  H15 5XH 49 
5XH H16 H16 H 0 1 N N N N N N -14.323 0.501   50.412 -6.331 3.551  0.579  H16 5XH 50 
5XH H17 H17 H 0 1 N N N N N N -16.227 -1.881  49.782 -3.202 4.101  0.945  H17 5XH 51 
5XH H18 H18 H 0 1 N N N N N N -17.363 -0.847  48.852 -2.960 3.613  -0.749 H18 5XH 52 
5XH H19 H19 H 0 1 N N N N N N -15.590 -0.609  48.686 -4.383 4.581  -0.297 H19 5XH 53 
5XH H20 H20 H 0 1 N N N N N N -18.457 -2.407  51.521 -0.208 0.447  0.898  H20 5XH 54 
5XH H21 H21 H 0 1 N N N N N N -20.133 -2.070  52.073 -0.517 2.027  1.645  H21 5XH 55 
5XH H22 H22 H 0 1 N N N N N N -19.974 -9.577  48.495 8.866  1.598  1.133  H22 5XH 56 
5XH H23 H23 H 0 1 N N N N N N -19.574 -9.394  46.753 8.454  0.814  -0.411 H23 5XH 57 
5XH H24 H24 H 0 1 N N N N N N -18.383 -10.135 47.875 8.242  2.571  -0.220 H24 5XH 58 
5XH H25 H25 H 0 1 N N N N N N -19.639 -5.631  48.652 3.527  2.641  -0.563 H25 5XH 59 
5XH H28 H28 H 0 1 N N N N N N -18.849 -1.217  49.459 -1.725 2.818  -0.232 H28 5XH 60 
5XH H29 H29 H 0 1 N N N N N N -20.813 0.193   49.051 -0.129 0.751  -1.673 H29 5XH 61 
5XH H30 H30 H 0 1 N N N N N N -21.636 -0.532  50.474 -1.746 1.133  -2.311 H30 5XH 62 
5XH H31 H31 H 0 1 N N N N N N -20.684 -2.188  48.134 -0.465 2.724  -3.398 H31 5XH 63 
5XH H32 H32 H 0 1 N N N N N N -22.274 -1.352  48.137 -0.986 3.622  -1.968 H32 5XH 64 
5XH H33 H33 H 0 1 N N N N N N -23.023 -2.622  49.996 1.651  2.235  -2.300 H33 5XH 65 
5XH H34 H34 H 0 1 N N N N N N -21.850 -3.666  51.509 0.429  3.971  -0.100 H34 5XH 66 
5XH H35 H35 H 0 1 N N N N N N -21.565 -0.084  52.060 -0.527 -0.826 -0.278 H35 5XH 67 
5XH H7  H7  H 0 1 N N N N N N -22.431 -3.711  48.696 1.350  3.975  -2.497 H7  5XH 68 
5XH H26 H26 H 0 1 N N N N N N -21.497 -4.907  50.259 2.178  3.675  -0.242 H26 5XH 69 
# 
loop_
_chem_comp_bond.comp_id 
_chem_comp_bond.atom_id_1 
_chem_comp_bond.atom_id_2 
_chem_comp_bond.value_order 
_chem_comp_bond.pdbx_aromatic_flag 
_chem_comp_bond.pdbx_stereo_config 
_chem_comp_bond.pdbx_ordinal 
5XH C1  N1  SING N N 1  
5XH C27 N1  SING N N 2  
5XH N1  C2  SING N N 3  
5XH C8  C7  SING N N 4  
5XH C8  C9  SING N N 5  
5XH C24 C23 SING N N 6  
5XH C2  C3  SING N N 7  
5XH C7  C6  SING N N 8  
5XH C4  C3  DOUB N E 9  
5XH C4  C5  SING N N 10 
5XH C9  C10 SING N N 11 
5XH C10 N3  SING N N 12 
5XH C10 C26 SING N N 13 
5XH C23 C22 DOUB Y N 14 
5XH C23 C25 SING Y N 15 
5XH C6  N2  SING N N 16 
5XH C5  N2  SING N N 17 
5XH C5  O2  DOUB N N 18 
5XH N2  C26 SING N N 19 
5XH C22 C21 SING Y N 20 
5XH N3  C25 SING Y N 21 
5XH N3  C11 SING Y N 22 
5XH C25 C19 DOUB Y N 23 
5XH C21 C20 DOUB Y N 24 
5XH C11 N4  SING N N 25 
5XH C11 N6  DOUB Y N 26 
5XH C19 C20 SING Y N 27 
5XH C19 N6  SING Y N 28 
5XH C17 C16 SING N N 29 
5XH N4  C12 SING N N 30 
5XH C18 C16 DOUB Y N 31 
5XH C18 C13 SING Y N 32 
5XH C16 N5  SING Y N 33 
5XH C12 C13 SING N N 34 
5XH C12 O1  DOUB N N 35 
5XH C13 C14 DOUB Y N 36 
5XH N5  C15 DOUB Y N 37 
5XH C14 C15 SING Y N 38 
5XH C1  H1  SING N N 39 
5XH C1  H2  SING N N 40 
5XH C1  H3  SING N N 41 
5XH C2  H4  SING N N 42 
5XH C2  H5  SING N N 43 
5XH C3  H6  SING N N 44 
5XH C14 H8  SING N N 45 
5XH C15 H9  SING N N 46 
5XH C17 H10 SING N N 47 
5XH C17 H11 SING N N 48 
5XH C17 H12 SING N N 49 
5XH C18 H13 SING N N 50 
5XH C20 H14 SING N N 51 
5XH C21 H15 SING N N 52 
5XH C22 H16 SING N N 53 
5XH C24 H17 SING N N 54 
5XH C24 H18 SING N N 55 
5XH C24 H19 SING N N 56 
5XH C26 H20 SING N N 57 
5XH C26 H21 SING N N 58 
5XH C27 H22 SING N N 59 
5XH C27 H23 SING N N 60 
5XH C27 H24 SING N N 61 
5XH C4  H25 SING N N 62 
5XH C10 H28 SING N N 63 
5XH C9  H29 SING N N 64 
5XH C9  H30 SING N N 65 
5XH C8  H31 SING N N 66 
5XH C8  H32 SING N N 67 
5XH C7  H33 SING N N 68 
5XH C6  H34 SING N N 69 
5XH N4  H35 SING N N 70 
5XH C7  H7  SING N N 71 
5XH C6  H26 SING N N 72 
# 
loop_
_pdbx_chem_comp_descriptor.comp_id 
_pdbx_chem_comp_descriptor.type 
_pdbx_chem_comp_descriptor.program 
_pdbx_chem_comp_descriptor.program_version 
_pdbx_chem_comp_descriptor.descriptor 
5XH InChI            InChI                1.03  "InChI=1S/C27H34N6O2/c1-19-9-7-11-23-25(19)33(27(29-23)30-26(35)21-13-14-28-20(2)17-21)22-10-5-6-16-32(18-22)24(34)12-8-15-31(3)4/h7-9,11-14,17,22H,5-6,10,15-16,18H2,1-4H3,(H,29,30,35)/b12-8+/t22-/m1/s1" 
5XH InChIKey         InChI                1.03  SKLAQDNYYXAFGK-QWDXWUACSA-N                                                                                                                                                                                 
5XH SMILES_CANONICAL CACTVS               3.385 "CN(C)C/C=C/C(=O)N1CCCC[C@H](C1)n2c(NC(=O)c3ccnc(C)c3)nc4cccc(C)c24"                                                                                                                                        
5XH SMILES           CACTVS               3.385 "CN(C)CC=CC(=O)N1CCCC[CH](C1)n2c(NC(=O)c3ccnc(C)c3)nc4cccc(C)c24"                                                                                                                                           
5XH SMILES_CANONICAL "OpenEye OEToolkits" 2.0.4 "Cc1cccc2c1n(c(n2)NC(=O)c3ccnc(c3)C)[C@@H]4CCCCN(C4)C(=O)C=CCN(C)C"                                                                                                                                         
5XH SMILES           "OpenEye OEToolkits" 2.0.4 "Cc1cccc2c1n(c(n2)NC(=O)c3ccnc(c3)C)C4CCCCN(C4)C(=O)C=CCN(C)C"                                                                                                                                              
# 
_pdbx_chem_comp_identifier.comp_id           5XH 
_pdbx_chem_comp_identifier.type              "SYSTEMATIC NAME" 
_pdbx_chem_comp_identifier.program           "OpenEye OEToolkits" 
_pdbx_chem_comp_identifier.program_version   2.0.4 
_pdbx_chem_comp_identifier.identifier        "~{N}-[1-[(3~{R})-1-[4-(dimethylamino)but-2-enoyl]azepan-3-yl]-7-methyl-benzimidazol-2-yl]-2-methyl-pyridine-4-carboxamide" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
5XH "Create component" 2015-12-21 RCSB 
5XH "Initial release"  2016-07-27 RCSB 
5XH "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            5XH 
_pdbx_chem_comp_pcm.modified_residue_id                CYS 
_pdbx_chem_comp_pcm.type                               None 
_pdbx_chem_comp_pcm.category                           "Covalent chemical modification" 
_pdbx_chem_comp_pcm.position                           "Amino-acid side chain" 
_pdbx_chem_comp_pcm.polypeptide_position               "Any position" 
_pdbx_chem_comp_pcm.comp_id_linking_atom               C3 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom   SG 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession     ? 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      ? 
# 
