data_NMK
# 
_chem_comp.id                                    NMK 
_chem_comp.name                                  "N-methyl Lysine" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C7 H17 N2 O2" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    1 
_chem_comp.pdbx_initial_date                     2018-10-10 
_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                        161.222 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     NMK 
_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        6HVC 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  EBI 
_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 
NMK N   N1  N 0 1 N N N Y Y N -0.414 3.868 -1.513 -1.334 1.422  0.391  N   NMK 1  
NMK CA  C1  C 0 1 N N S Y N N 1.092  3.786 -1.535 -1.211 0.128  -0.294 CA  NMK 2  
NMK CB  C2  C 0 1 N N N N N N 1.724  5.136 -1.072 0.068  -0.574 0.168  CB  NMK 3  
NMK CG  C3  C 0 1 N N N N N N 1.390  6.412 -1.896 1.286  0.238  -0.278 CG  NMK 4  
NMK CD  C4  C 0 1 N N N N N N 2.339  6.761 -3.070 2.564  -0.464 0.185  CD  NMK 5  
NMK CE  C5  C 0 1 N N N N N N 2.464  5.785 -4.256 3.782  0.348  -0.261 CE  NMK 6  
NMK NZ  N2  N 1 1 N N N N N N 1.179  5.594 -4.965 5.009  -0.327 0.183  NZ  NMK 7  
NMK C   C6  C 0 1 N N N Y N Y 1.657  2.497 -0.831 -2.404 -0.731 0.037  C   NMK 8  
NMK O   O1  O 0 1 N N N Y N Y 2.638  2.573 -0.085 -2.999 -0.564 1.075  O   NMK 9  
NMK CN  C7  C 0 1 N N N N N N -1.130 3.977 -0.210 -2.134 2.364  -0.402 CN  NMK 10 
NMK OXT O2  O 0 1 N Y N Y N Y 1.051  1.309 -1.071 -2.805 -1.681 -0.822 OXT NMK 11 
NMK H   H1  H 0 1 N Y N Y Y N -0.668 4.671 -2.051 -1.722 1.306  1.315  H   NMK 12 
NMK HA  H3  H 0 1 N N N Y N N 1.372  3.682 -2.594 -1.167 0.290  -1.371 HA  NMK 13 
NMK HB2 H4  H 0 1 N N N N N N 2.817  5.010 -1.090 0.064  -0.656 1.255  HB2 NMK 14 
NMK HB3 H5  H 0 1 N N N N N N 1.393  5.316 -0.039 0.114  -1.570 -0.271 HB3 NMK 15 
NMK HG2 H6  H 0 1 N N N N N N 1.393  7.265 -1.202 1.289  0.320  -1.364 HG2 NMK 16 
NMK HG3 H7  H 0 1 N N N N N N 0.380  6.283 -2.313 1.239  1.234  0.162  HG3 NMK 17 
NMK HD2 H8  H 0 1 N N N N N N 3.346  6.879 -2.644 2.560  -0.547 1.272  HD2 NMK 18 
NMK HD3 H9  H 0 1 N N N N N N 2.000  7.723 -3.481 2.610  -1.461 -0.255 HD3 NMK 19 
NMK HE2 H10 H 0 1 N N N N N N 2.807  4.811 -3.878 3.785  0.430  -1.348 HE2 NMK 20 
NMK HE3 H11 H 0 1 N N N N N N 3.204  6.184 -4.966 3.735  1.344  0.179  HE3 NMK 21 
NMK HZ1 H12 H 0 1 N N N N N N 1.308  4.955 -5.724 5.005  -0.403 1.189  HZ1 NMK 22 
NMK HZ3 H13 H 0 1 N N N N N N 0.500  5.225 -4.330 5.052  -1.249 -0.224 HZ3 NMK 23 
NMK HM1 H15 H 0 1 N N N N N N -2.214 4.025 -0.390 -1.615 2.587  -1.334 HM1 NMK 24 
NMK HM2 H16 H 0 1 N N N N N N -0.900 3.097 0.409  -3.104 1.919  -0.624 HM2 NMK 25 
NMK HM3 H17 H 0 1 N N N N N N -0.804 4.889 0.312  -2.278 3.285  0.163  HM3 NMK 26 
NMK HXT H18 H 0 1 N Y N Y N Y 1.498  0.622 -0.591 -3.575 -2.207 -0.566 HXT NMK 27 
NMK HZ2 HZ2 H 0 1 N N N N N N 0.860  6.473 -5.320 5.812  0.209  -0.111 HZ2 NMK 28 
# 
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 
NMK NZ  CE  SING N N 1  
NMK CE  CD  SING N N 2  
NMK CD  CG  SING N N 3  
NMK CG  CB  SING N N 4  
NMK CA  N   SING N N 5  
NMK CA  CB  SING N N 6  
NMK CA  C   SING N N 7  
NMK N   CN  SING N N 8  
NMK C   O   DOUB N N 9  
NMK C   OXT SING N N 10 
NMK N   H   SING N N 11 
NMK CA  HA  SING N N 12 
NMK CB  HB2 SING N N 13 
NMK CB  HB3 SING N N 14 
NMK CG  HG2 SING N N 15 
NMK CG  HG3 SING N N 16 
NMK CD  HD2 SING N N 17 
NMK CD  HD3 SING N N 18 
NMK CE  HE2 SING N N 19 
NMK CE  HE3 SING N N 20 
NMK NZ  HZ1 SING N N 21 
NMK NZ  HZ3 SING N N 22 
NMK CN  HM1 SING N N 23 
NMK CN  HM2 SING N N 24 
NMK CN  HM3 SING N N 25 
NMK OXT HXT SING N N 26 
NMK NZ  HZ2 SING N N 27 
# 
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 
NMK InChI            InChI                1.03  "InChI=1S/C7H16N2O2/c1-9-6(7(10)11)4-2-3-5-8/h6,9H,2-5,8H2,1H3,(H,10,11)/p+1/t6-/m0/s1" 
NMK InChIKey         InChI                1.03  OLYPWXRMOFUVGH-LURJTMIESA-O                                                             
NMK SMILES_CANONICAL CACTVS               3.385 "CN[C@@H](CCCC[NH3+])C(O)=O"                                                            
NMK SMILES           CACTVS               3.385 "CN[CH](CCCC[NH3+])C(O)=O"                                                              
NMK SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "CN[C@@H](CCCC[NH3+])C(=O)O"                                                            
NMK SMILES           "OpenEye OEToolkits" 2.0.6 "CNC(CCCC[NH3+])C(=O)O"                                                                 
# 
_pdbx_chem_comp_identifier.comp_id           NMK 
_pdbx_chem_comp_identifier.type              "SYSTEMATIC NAME" 
_pdbx_chem_comp_identifier.program           "OpenEye OEToolkits" 
_pdbx_chem_comp_identifier.program_version   2.0.6 
_pdbx_chem_comp_identifier.identifier        "[(5~{S})-5-(methylamino)-6-oxidanyl-6-oxidanylidene-hexyl]azanium" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
NMK "Create component"   2018-10-10 EBI  
NMK "Other modification" 2018-10-13 EBI  
NMK "Initial release"    2019-01-16 RCSB 
NMK "Modify backbone"    2023-11-03 PDBE 
NMK "Modify PCM"         2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            NMK 
_pdbx_chem_comp_pcm.modified_residue_id                LYS 
_pdbx_chem_comp_pcm.type                               Methylation 
_pdbx_chem_comp_pcm.category                           "Named protein modification" 
_pdbx_chem_comp_pcm.position                           "Amino-acid backbone" 
_pdbx_chem_comp_pcm.polypeptide_position               "Any position" 
_pdbx_chem_comp_pcm.comp_id_linking_atom               ? 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom   ? 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession     ? 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      ? 
# 
