data_YDM
# 
_chem_comp.id                                    YDM 
_chem_comp.name                                  "1-[6-(dimethylamino)naphthalen-2-yl]propan-1-one" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C15 H17 N O" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         "acrylodan, bound form" 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-01-26 
_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                        227.302 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     YDM 
_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        8FXT 
_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 
YDM C10 C1  C 0 1 Y N N N N N 86.893 5.853 95.276 2.892  -0.096 0.002  C10 YDM 1  
YDM C13 C2  C 0 1 N N N N N N 88.509 7.393 96.435 5.234  -0.896 0.006  C13 YDM 2  
YDM C15 C3  C 0 1 Y N N N N N 85.344 4.378 94.184 1.143  -1.740 -0.009 C15 YDM 3  
YDM C17 C4  C 0 1 Y N N N N N 85.159 4.323 91.728 -1.188 -1.007 -0.003 C17 YDM 4  
YDM C01 C5  C 0 1 N N N N N N 82.642 3.783 88.419 -5.969 0.270  0.010  C01 YDM 5  
YDM C02 C6  C 0 1 N N N N N N 83.904 3.254 89.101 -4.554 0.853  0.004  C02 YDM 6  
YDM C03 C7  C 0 1 N N N N N N 85.005 4.317 89.173 -3.549 -0.270 0.003  C03 YDM 7  
YDM C05 C8  C 0 1 Y N N N N N 85.579 4.808 90.498 -2.111 0.032  -0.002 C05 YDM 8  
YDM C06 C9  C 0 1 Y N N N N N 86.549 5.796 90.445 -1.677 1.373  -0.007 C06 YDM 9  
YDM C07 C10 C 0 1 Y N N N N N 87.139 6.303 91.591 -0.355 1.674  -0.013 C07 YDM 10 
YDM C08 C11 C 0 1 Y N N N N N 86.718 5.811 92.850 0.604  0.643  -0.014 C08 YDM 11 
YDM C09 C12 C 0 1 Y N N N N N 87.306 6.332 94.040 1.976  0.935  -0.003 C09 YDM 12 
YDM C12 C13 C 0 1 N N N N N N 87.035 5.856 97.778 4.708  1.586  0.013  C12 YDM 13 
YDM C14 C14 C 0 1 Y N N N N N 85.910 4.871 95.349 2.466  -1.431 -0.004 C14 YDM 14 
YDM C16 C15 C 0 1 Y N N N N N 85.757 4.853 92.913 0.181  -0.712 -0.009 C16 YDM 15 
YDM N11 N1  N 0 1 N N N N N N 87.479 6.372 96.496 4.255  0.193  0.007  N11 YDM 16 
YDM O04 O1  O 0 1 N N N N N N 85.448 4.784 88.180 -3.927 -1.422 0.008  O04 YDM 17 
YDM H1  H1  H 0 1 N N N N N N 88.826 7.656 97.455 5.480  -1.163 -1.022 H1  YDM 18 
YDM H2  H2  H 0 1 N N N N N N 89.372 7.010 95.870 6.137  -0.573 0.524  H2  YDM 19 
YDM H3  H3  H 0 1 N N N N N N 88.110 8.287 95.933 4.814  -1.763 0.516  H3  YDM 20 
YDM H4  H4  H 0 1 N N N N N N 84.577 3.620 94.245 0.830  -2.774 -0.014 H4  YDM 21 
YDM H5  H5  H 0 1 N N N N N N 84.396 3.561 91.789 -1.523 -2.033 0.001  H5  YDM 22 
YDM H6  H6  H 0 1 N N N N N N 81.881 2.990 88.389 -6.106 -0.341 0.902  H6  YDM 23 
YDM H7  H7  H 0 1 N N N N N N 82.253 4.643 88.984 -6.696 1.082  0.011  H7  YDM 24 
YDM H8  H8  H 0 1 N N N N N N 82.884 4.097 87.393 -6.112 -0.345 -0.878 H8  YDM 25 
YDM H9  H9  H 0 1 N N N N N N 83.649 2.937 90.123 -4.417 1.464  -0.888 H9  YDM 26 
YDM H10 H10 H 0 1 N N N N N N 84.280 2.391 88.532 -4.411 1.469  0.892  H10 YDM 27 
YDM H11 H11 H 0 1 N N N N N N 86.854 6.182 89.483 -2.406 2.169  -0.007 H11 YDM 28 
YDM H12 H12 H 0 1 N N N N N N 87.906 7.060 91.525 -0.037 2.707  -0.016 H12 YDM 29 
YDM H13 H13 H 0 1 N N N N N N 88.068 7.095 93.980 2.313  1.962  0.002  H13 YDM 30 
YDM H14 H14 H 0 1 N N N N N N 87.584 6.361 98.587 4.818  1.928  1.042  H14 YDM 31 
YDM H15 H15 H 0 1 N N N N N N 85.957 6.042 97.895 5.669  1.657  -0.498 H15 YDM 32 
YDM H16 H16 H 0 1 N N N N N N 87.227 4.774 97.824 3.976  2.209  -0.501 H16 YDM 33 
YDM H17 H17 H 0 1 N N N N N N 85.590 4.495 96.309 3.199  -2.224 -0.004 H17 YDM 34 
# 
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 
YDM O04 C03 DOUB N N 1  
YDM C01 C02 SING N N 2  
YDM C02 C03 SING N N 3  
YDM C03 C05 SING N N 4  
YDM C06 C05 DOUB Y N 5  
YDM C06 C07 SING Y N 6  
YDM C05 C17 SING Y N 7  
YDM C07 C08 DOUB Y N 8  
YDM C17 C16 DOUB Y N 9  
YDM C08 C16 SING Y N 10 
YDM C08 C09 SING Y N 11 
YDM C16 C15 SING Y N 12 
YDM C09 C10 DOUB Y N 13 
YDM C15 C14 DOUB Y N 14 
YDM C10 C14 SING Y N 15 
YDM C10 N11 SING N N 16 
YDM C13 N11 SING N N 17 
YDM N11 C12 SING N N 18 
YDM C13 H1  SING N N 19 
YDM C13 H2  SING N N 20 
YDM C13 H3  SING N N 21 
YDM C15 H4  SING N N 22 
YDM C17 H5  SING N N 23 
YDM C01 H6  SING N N 24 
YDM C01 H7  SING N N 25 
YDM C01 H8  SING N N 26 
YDM C02 H9  SING N N 27 
YDM C02 H10 SING N N 28 
YDM C06 H11 SING N N 29 
YDM C07 H12 SING N N 30 
YDM C09 H13 SING N N 31 
YDM C12 H14 SING N N 32 
YDM C12 H15 SING N N 33 
YDM C12 H16 SING N N 34 
YDM C14 H17 SING N N 35 
# 
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 
YDM SMILES           ACDLabs              12.01 "CCC(=O)c1ccc2cc(ccc2c1)N(C)C"                                                        
YDM InChI            InChI                1.06  "InChI=1S/C15H17NO/c1-4-15(17)13-6-5-12-10-14(16(2)3)8-7-11(12)9-13/h5-10H,4H2,1-3H3" 
YDM InChIKey         InChI                1.06  MPPQGYCZBNURDG-UHFFFAOYSA-N                                                           
YDM SMILES_CANONICAL CACTVS               3.385 "CCC(=O)c1ccc2cc(ccc2c1)N(C)C"                                                        
YDM SMILES           CACTVS               3.385 "CCC(=O)c1ccc2cc(ccc2c1)N(C)C"                                                        
YDM SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CCC(=O)c1ccc2cc(ccc2c1)N(C)C"                                                        
YDM SMILES           "OpenEye OEToolkits" 2.0.7 "CCC(=O)c1ccc2cc(ccc2c1)N(C)C"                                                        
# 
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 
YDM "SYSTEMATIC NAME" ACDLabs              12.01 "1-[6-(dimethylamino)naphthalen-2-yl]propan-1-one" 
YDM "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "1-[6-(dimethylamino)naphthalen-2-yl]propan-1-one" 
# 
_pdbx_chem_comp_synonyms.ordinal      1 
_pdbx_chem_comp_synonyms.comp_id      YDM 
_pdbx_chem_comp_synonyms.name         "acrylodan, bound form" 
_pdbx_chem_comp_synonyms.provenance   PDB 
_pdbx_chem_comp_synonyms.type         ? 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
YDM "Create component" 2023-01-26 RCSB 
YDM "Initial release"  2023-08-30 RCSB 
YDM "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            YDM 
_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               C01 
_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      ? 
# 
