data_EM2
# 
_chem_comp.id                                    EM2 
_chem_comp.name                                  "(6-ethynyl-4-methanoyl-5-oxidanyl-pyridin-3-yl)methyl dihydrogen phosphate" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C9 H8 N O6 P" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2018-03-29 
_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                        257.137 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     EM2 
_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        6G59 
_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 
EM2 N1  N1  N 0 1 Y N N N N N 4.861  0.528  29.197 -2.005 -1.702 -0.007 N1  EM2 1  
EM2 C2  C1  C 0 1 Y N N N N N 4.441  0.078  30.411 -3.052 -0.888 -0.014 C2  EM2 2  
EM2 C2A C2  C 0 1 N N N N N N 3.409  -0.676 30.525 -4.376 -1.434 -0.025 C2A EM2 3  
EM2 C3  C3  C 0 1 Y N N N N N 5.183  0.457  31.631 -2.874 0.503  -0.010 C3  EM2 4  
EM2 O3  O1  O 0 1 N N N N N N 4.770  0.021  32.848 -3.942 1.337  -0.017 O3  EM2 5  
EM2 C4  C4  C 0 1 Y N N N N N 6.375  1.324  31.487 -1.566 1.015  0.001  C4  EM2 6  
EM2 C4A C5  C 0 1 N N N N N N 7.162  1.711  32.719 -1.321 2.466  0.005  C4A EM2 7  
EM2 C5  C6  C 0 1 Y N N N N N 6.734  1.748  30.099 -0.499 0.104  0.007  C5  EM2 8  
EM2 C6  C7  C 0 1 Y N N N N N 5.940  1.318  29.026 -0.768 -1.250 0.004  C6  EM2 9  
EM2 C5A C8  C 0 1 N N N N N N 7.936  2.619  29.814 0.925  0.598  0.019  C5A EM2 10 
EM2 O4P O2  O 0 1 N N N N N N 9.133  1.847  29.932 1.816  -0.519 0.024  O4P EM2 11 
EM2 P   P1  P 0 1 N N N N N N 10.559 2.552  29.702 3.419  -0.361 0.036  P   EM2 12 
EM2 O1P O3  O 0 1 N N N N N N 10.538 3.277  28.375 3.823  0.482  1.183  O1P EM2 13 
EM2 O2P O4  O 0 1 N N N N N N 10.814 3.555  30.809 4.099  -1.814 0.171  O2P EM2 14 
EM2 O3P O5  O 0 1 N N N N N N 11.645 1.510  29.715 3.900  0.331  -1.336 O3P EM2 15 
EM2 C1  C9  C 0 1 N N N N N N 2.389  -1.438 30.639 -5.461 -1.882 -0.034 C1  EM2 16 
EM2 H1  H1  H 0 1 N N N N N N 5.188  0.536  33.528 -4.259 1.577  0.865  H1  EM2 17 
EM2 H2  H2  H 0 1 N N N N N N 8.238  1.806  32.698 -2.154 3.154  0.000  H2  EM2 18 
EM2 H5  H5  H 0 1 N N N N N N 6.202  1.631  28.026 0.053  -1.952 0.009  H5  EM2 19 
EM2 H6  H6  H 0 1 N N N N N N 7.964  3.449  30.535 1.106  1.204  -0.869 H6  EM2 20 
EM2 H7  H7  H 0 1 N N N N N N 7.861  3.022  28.793 1.093  1.201  0.910  H7  EM2 21 
EM2 H8  H8  H 0 1 N N N N N N 10.906 4.423  30.435 5.066  -1.796 0.185  H8  EM2 22 
EM2 H9  H9  H 0 1 N N N N N N 12.102 1.517  28.882 3.668  -0.168 -2.131 H9  EM2 23 
EM2 H10 H10 H 0 1 N N N N N N 1.543  -2.070 30.734 -6.431 -2.283 -0.042 H10 EM2 24 
EM2 O1  O6  O 0 1 N Y N N N N 6.384  1.953  33.954 -0.185 2.890  0.014  O1  EM2 25 
# 
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 
EM2 O1P P   DOUB N N 1  
EM2 C6  N1  DOUB Y N 2  
EM2 C6  C5  SING Y N 3  
EM2 N1  C2  SING Y N 4  
EM2 P   O3P SING N N 5  
EM2 P   O4P SING N N 6  
EM2 P   O2P SING N N 7  
EM2 C5A O4P SING N N 8  
EM2 C5A C5  SING N N 9  
EM2 C5  C4  DOUB Y N 10 
EM2 C2  C2A SING N N 11 
EM2 C2  C3  DOUB Y N 12 
EM2 C2A C1  TRIP N N 13 
EM2 C4  C3  SING Y N 14 
EM2 C4  C4A SING N N 15 
EM2 C3  O3  SING N N 16 
EM2 O3  H1  SING N N 17 
EM2 C4A H2  SING N N 18 
EM2 C6  H5  SING N N 19 
EM2 C5A H6  SING N N 20 
EM2 C5A H7  SING N N 21 
EM2 O2P H8  SING N N 22 
EM2 O3P H9  SING N N 23 
EM2 C1  H10 SING N N 24 
EM2 C4A O1  DOUB N N 25 
# 
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 
EM2 InChI            InChI                1.03  "InChI=1S/C9H8NO6P/c1-2-8-9(12)7(4-11)6(3-10-8)5-16-17(13,14)15/h1,3-4,12H,5H2,(H2,13,14,15)" 
EM2 InChIKey         InChI                1.03  OAIRLJMOEFCXML-UHFFFAOYSA-N                                                                   
EM2 SMILES_CANONICAL CACTVS               3.385 "Oc1c(C=O)c(CO[P](O)(O)=O)cnc1C#C"                                                            
EM2 SMILES           CACTVS               3.385 "Oc1c(C=O)c(CO[P](O)(O)=O)cnc1C#C"                                                            
EM2 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "C#Cc1c(c(c(cn1)COP(=O)(O)O)C=O)O"                                                            
EM2 SMILES           "OpenEye OEToolkits" 2.0.6 "C#Cc1c(c(c(cn1)COP(=O)(O)O)C=O)O"                                                            
# 
_pdbx_chem_comp_identifier.comp_id           EM2 
_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        "(6-ethynyl-4-methanoyl-5-oxidanyl-pyridin-3-yl)methyl dihydrogen phosphate" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
EM2 "Create component" 2018-03-29 RCSB 
EM2 "Initial release"  2018-05-30 RCSB 
EM2 "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            EM2 
_pdbx_chem_comp_pcm.modified_residue_id                LYS 
_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               C4A 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom   NZ 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession     ? 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      ? 
# 
