data_YHD
# 
_chem_comp.id                                    YHD 
_chem_comp.name                                  "N-[(1R)-2-([1,1'-biphenyl]-4-yl)-1-boronoethyl]-1-methyl-L-prolinamide" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C20 H25 B N2 O3" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2021-03-08 
_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                        352.235 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     YHD 
_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        7LXV 
_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 
YHD C11 C1  C 0 1 Y N N N N N 208.345 220.875 176.228 1.560  1.222  0.753  C11 YHD 1  
YHD C13 C2  C 0 1 Y N N N N N 208.998 223.156 177.119 3.705  0.220  0.356  C13 YHD 2  
YHD C14 C3  C 0 1 Y N N N N N 210.089 224.270 177.464 5.128  0.346  -0.046 C14 YHD 3  
YHD C16 C4  C 0 1 Y N N N N N 210.960 226.119 178.940 6.971  1.701  -0.774 C16 YHD 4  
YHD C17 C5  C 0 1 Y N N N N N 212.073 226.375 178.147 7.782  0.581  -0.797 C17 YHD 5  
YHD C18 C6  C 0 1 Y N N N N N 212.201 225.587 177.011 7.271  -0.657 -0.451 C18 YHD 6  
YHD C19 C7  C 0 1 Y N N N N N 211.246 224.596 176.702 5.948  -0.780 -0.076 C19 YHD 7  
YHD C21 C8  C 0 1 Y N N N N N 206.638 222.212 176.977 1.862  -1.135 1.084  C21 YHD 8  
YHD C10 C9  C 0 1 Y N N N N N 206.956 220.955 176.415 1.050  -0.015 1.104  C10 YHD 9  
YHD C12 C10 C 0 1 Y N N N N N 209.282 221.887 176.547 2.883  1.345  0.379  C12 YHD 10 
YHD C15 C11 C 0 1 Y N N N N N 210.020 225.119 178.605 5.647  1.589  -0.401 C15 YHD 11 
YHD C20 C12 C 0 1 Y N N N N N 207.586 223.226 177.303 3.186  -1.023 0.711  C20 YHD 12 
YHD B01 B1  B 0 1 N N N N N N 203.437 219.408 175.490 -0.776 -1.763 -0.395 B01 YHD 13 
YHD C02 C13 C 0 1 N N R N N N 204.509 219.760 176.621 -1.251 -0.425 0.275  C02 YHD 14 
YHD C03 C14 C 0 1 N N N N N N 203.437 219.079 178.782 -3.615 0.067  -0.047 C03 YHD 15 
YHD C04 C15 C 0 1 N N S N N N 203.272 218.147 180.014 -5.061 -0.061 0.360  C04 YHD 16 
YHD C05 C16 C 0 1 N N N N N N 204.810 219.761 181.061 -4.677 2.331  0.230  C05 YHD 17 
YHD C06 C17 C 0 1 N N N N N N 203.742 217.995 182.396 -6.778 1.365  -0.516 C06 YHD 18 
YHD C07 C18 C 0 1 N N N N N N 202.274 218.374 182.296 -7.207 -0.103 -0.761 C07 YHD 19 
YHD C08 C19 C 0 1 N N N N N N 201.950 218.354 180.796 -5.843 -0.840 -0.718 C08 YHD 20 
YHD C09 C20 C 0 1 N N N N N N 205.964 219.817 176.033 -0.396 -0.143 1.512  C09 YHD 21 
YHD N22 N1  N 0 1 N N N N N N 204.337 218.879 177.785 -2.656 -0.550 0.671  N22 YHD 22 
YHD N23 N2  N 0 1 N N N N N N 204.346 218.346 181.066 -5.673 1.276  0.463  N23 YHD 23 
YHD O24 O1  O 0 1 N N N N N N 203.185 218.080 175.394 -1.356 -2.999 -0.004 O24 YHD 24 
YHD O25 O2  O 0 1 N N N N N N 202.672 220.097 178.710 -3.316 0.725  -1.021 O25 YHD 25 
YHD O26 O3  O 0 1 N N N N N N 202.221 219.965 175.723 0.235  -1.738 -1.393 O26 YHD 26 
YHD H1  H1  H 0 1 N N N N N N 208.733 219.961 175.803 0.921  2.092  0.767  H1  YHD 27 
YHD H2  H2  H 0 1 N N N N N N 210.810 226.701 179.837 7.374  2.664  -1.049 H2  YHD 28 
YHD H3  H3  H 0 1 N N N N N N 212.793 227.139 178.399 8.817  0.672  -1.090 H3  YHD 29 
YHD H4  H4  H 0 1 N N N N N N 213.045 225.735 176.354 7.908  -1.528 -0.470 H4  YHD 30 
YHD H5  H5  H 0 1 N N N N N N 211.409 224.028 175.798 5.550  -1.747 0.195  H5  YHD 31 
YHD H6  H6  H 0 1 N N N N N N 205.597 222.421 177.175 1.458  -2.098 1.359  H6  YHD 32 
YHD H7  H7  H 0 1 N N N N N N 210.319 221.672 176.334 3.280  2.311  0.105  H7  YHD 33 
YHD H8  H8  H 0 1 N N N N N N 209.179 224.988 179.270 5.014  2.465  -0.384 H8  YHD 34 
YHD H9  H9  H 0 1 N N N N N N 207.196 224.137 177.732 3.819  -1.898 0.694  H9  YHD 35 
YHD H10 H10 H 0 1 N N N N N N 204.273 220.783 176.949 -1.145 0.395  -0.435 H10 YHD 36 
YHD H11 H11 H 0 1 N N N N N N 203.308 217.104 179.665 -5.132 -0.579 1.317  H11 YHD 37 
YHD H12 H12 H 0 1 N N N N N N 205.588 219.895 181.827 -4.380 2.324  -0.819 H12 YHD 38 
YHD H13 H13 H 0 1 N N N N N N 205.223 220.008 180.072 -5.109 3.300  0.479  H13 YHD 39 
YHD H14 H14 H 0 1 N N N N N N 203.962 220.426 181.280 -3.803 2.150  0.856  H14 YHD 40 
YHD H15 H15 H 0 1 N N N N N N 203.847 216.918 182.592 -6.427 1.818  -1.443 H15 YHD 41 
YHD H16 H16 H 0 1 N N N N N N 204.231 218.564 183.201 -7.607 1.939  -0.103 H16 YHD 42 
YHD H17 H17 H 0 1 N N N N N N 202.106 219.378 182.713 -7.866 -0.455 0.033  H17 YHD 43 
YHD H18 H18 H 0 1 N N N N N N 201.651 217.645 182.834 -7.681 -0.213 -1.737 H18 YHD 44 
YHD H19 H19 H 0 1 N N N N N N 201.490 219.309 180.502 -5.339 -0.775 -1.682 H19 YHD 45 
YHD H20 H20 H 0 1 N N N N N N 201.255 217.530 180.577 -5.976 -1.880 -0.421 H20 YHD 46 
YHD H21 H21 H 0 1 N N N N N N 205.855 219.856 174.939 -0.502 -0.963 2.222  H21 YHD 47 
YHD H22 H22 H 0 1 N N N N N N 206.451 218.873 176.319 -0.725 0.786  1.977  H22 YHD 48 
YHD H23 H23 H 0 1 N N N N N N 204.926 218.073 177.847 -2.895 -1.076 1.450  H23 YHD 49 
YHD H25 H25 H 0 1 N N N N N N 203.996 217.614 175.229 -2.034 -2.915 0.680  H25 YHD 50 
YHD H26 H26 H 0 1 N N N N N N 202.314 220.907 175.804 0.569  -0.852 -1.592 H26 YHD 51 
# 
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 
YHD O24 B01 SING N N 1  
YHD B01 O26 SING N N 2  
YHD B01 C02 SING N N 3  
YHD C09 C10 SING N N 4  
YHD C09 C02 SING N N 5  
YHD C11 C10 DOUB Y N 6  
YHD C11 C12 SING Y N 7  
YHD C10 C21 SING Y N 8  
YHD C12 C13 DOUB Y N 9  
YHD C02 N22 SING N N 10 
YHD C19 C18 DOUB Y N 11 
YHD C19 C14 SING Y N 12 
YHD C21 C20 DOUB Y N 13 
YHD C18 C17 SING Y N 14 
YHD C13 C20 SING Y N 15 
YHD C13 C14 SING N N 16 
YHD C14 C15 DOUB Y N 17 
YHD N22 C03 SING N N 18 
YHD C17 C16 DOUB Y N 19 
YHD C15 C16 SING Y N 20 
YHD O25 C03 DOUB N N 21 
YHD C03 C04 SING N N 22 
YHD C04 C08 SING N N 23 
YHD C04 N23 SING N N 24 
YHD C08 C07 SING N N 25 
YHD C05 N23 SING N N 26 
YHD N23 C06 SING N N 27 
YHD C07 C06 SING N N 28 
YHD C11 H1  SING N N 29 
YHD C16 H2  SING N N 30 
YHD C17 H3  SING N N 31 
YHD C18 H4  SING N N 32 
YHD C19 H5  SING N N 33 
YHD C21 H6  SING N N 34 
YHD C12 H7  SING N N 35 
YHD C15 H8  SING N N 36 
YHD C20 H9  SING N N 37 
YHD C02 H10 SING N N 38 
YHD C04 H11 SING N N 39 
YHD C05 H12 SING N N 40 
YHD C05 H13 SING N N 41 
YHD C05 H14 SING N N 42 
YHD C06 H15 SING N N 43 
YHD C06 H16 SING N N 44 
YHD C07 H17 SING N N 45 
YHD C07 H18 SING N N 46 
YHD C08 H19 SING N N 47 
YHD C08 H20 SING N N 48 
YHD C09 H21 SING N N 49 
YHD C09 H22 SING N N 50 
YHD N22 H23 SING N N 51 
YHD O24 H25 SING N N 52 
YHD O26 H26 SING N N 53 
# 
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 
YHD SMILES           ACDLabs              12.01 "O=C(NC(Cc1ccc(cc1)c1ccccc1)B(O)O)C1CCCN1C"                                                                                                                               
YHD InChI            InChI                1.03  "InChI=1S/C20H25BN2O3/c1-23-13-5-8-18(23)20(24)22-19(21(25)26)14-15-9-11-17(12-10-15)16-6-3-2-4-7-16/h2-4,6-7,9-12,18-19,25-26H,5,8,13-14H2,1H3,(H,22,24)/t18-,19-/m0/s1" 
YHD InChIKey         InChI                1.03  VGGVSZZQWVUBBQ-OALUTQOASA-N                                                                                                                                               
YHD SMILES_CANONICAL CACTVS               3.385 "CN1CCC[C@H]1C(=O)N[C@@H](Cc2ccc(cc2)c3ccccc3)B(O)O"                                                                                                                      
YHD SMILES           CACTVS               3.385 "CN1CCC[CH]1C(=O)N[CH](Cc2ccc(cc2)c3ccccc3)B(O)O"                                                                                                                         
YHD SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "B([C@H](Cc1ccc(cc1)c2ccccc2)NC(=O)[C@@H]3CCCN3C)(O)O"                                                                                                                    
YHD SMILES           "OpenEye OEToolkits" 2.0.7 "B(C(Cc1ccc(cc1)c2ccccc2)NC(=O)C3CCCN3C)(O)O"                                                                                                                             
# 
loop_
_pdbx_chem_comp_identifier.comp_id 
_pdbx_chem_comp_identifier.type 
_pdbx_chem_comp_identifier.program 
_pdbx_chem_comp_identifier.program_version 
_pdbx_chem_comp_identifier.identifier 
YHD "SYSTEMATIC NAME" ACDLabs              12.01 "N-[(1R)-2-([1,1'-biphenyl]-4-yl)-1-boronoethyl]-1-methyl-L-prolinamide"                           
YHD "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[(1~{R})-1-[[(2~{S})-1-methylpyrrolidin-2-yl]carbonylamino]-2-(4-phenylphenyl)ethyl]boronic acid" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
YHD "Create component" 2021-03-08 RCSB 
YHD "Initial release"  2021-09-22 RCSB 
YHD "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            YHD 
_pdbx_chem_comp_pcm.modified_residue_id                THR 
_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               B01 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom   OG1 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession     ? 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      ? 
# 
