data_AMP # _chem_comp.id AMP _chem_comp.name "ADENOSINE MONOPHOSPHATE" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C10 H14 N5 O7 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 1999-07-08 _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 347.221 _chem_comp.one_letter_code ? _chem_comp.three_letter_code AMP _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 ? _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 AMP P P P 0 1 N N N N N N 8.043 39.686 18.813 -4.783 -0.980 0.105 P AMP 1 AMP O1P O1P O 0 1 N N N N N N 7.774 40.637 19.995 -5.820 -0.005 -0.302 O1P AMP 2 AMP O2P O2P O 0 1 N N N N N N 6.883 38.784 18.643 -5.311 -1.828 1.368 O2P AMP 3 AMP O3P O3P O 0 1 N Y N N N N 9.316 38.856 19.092 -4.474 -1.978 -1.119 O3P AMP 4 AMP "O5'" "O5'" O 0 1 N N N N N N 8.290 40.534 17.463 -3.437 -0.195 0.511 "O5'" AMP 5 AMP "C5'" "C5'" C 0 1 N N N N N N 9.275 41.545 17.412 -2.782 0.727 -0.362 "C5'" AMP 6 AMP "C4'" "C4'" C 0 1 N N R N N N 9.922 41.617 16.032 -1.540 1.290 0.331 "C4'" AMP 7 AMP "O4'" "O4'" O 0 1 N N N N N N 10.626 40.417 15.752 -0.571 0.246 0.523 "O4'" AMP 8 AMP "C3'" "C3'" C 0 1 N N S N N N 8.899 41.815 14.923 -0.885 2.365 -0.558 "C3'" AMP 9 AMP "O3'" "O3'" O 0 1 N N N N N N 9.238 42.933 14.133 -0.852 3.623 0.119 "O3'" AMP 10 AMP "C2'" "C2'" C 0 1 N N R N N N 8.933 40.529 14.114 0.552 1.839 -0.794 "C2'" AMP 11 AMP "O2'" "O2'" O 0 1 N N N N N N 8.932 40.781 12.726 1.503 2.903 -0.720 "O2'" AMP 12 AMP "C1'" "C1'" C 0 1 N N R N N N 10.220 39.828 14.530 0.733 0.850 0.386 "C1'" AMP 13 AMP N9 N9 N 0 1 Y N N N N N 10.093 38.369 14.756 1.740 -0.163 0.060 N9 AMP 14 AMP C8 C8 C 0 1 Y N N N N N 9.377 37.767 15.753 1.508 -1.369 -0.530 C8 AMP 15 AMP N7 N7 N 0 1 Y N N N N N 9.495 36.418 15.645 2.628 -2.017 -0.672 N7 AMP 16 AMP C5 C5 C 0 1 Y N N N N N 10.287 36.160 14.586 3.646 -1.270 -0.183 C5 AMP 17 AMP C6 C6 C 0 1 Y N N N N N 10.707 34.951 14.063 5.036 -1.447 -0.069 C6 AMP 18 AMP N6 N6 N 0 1 N N N N N N 10.337 33.806 14.627 5.642 -2.606 -0.520 N6 AMP 19 AMP N1 N1 N 0 1 Y N N N N N 11.551 34.995 12.959 5.755 -0.474 0.482 N1 AMP 20 AMP C2 C2 C 0 1 Y N N N N N 11.915 36.195 12.375 5.186 0.636 0.914 C2 AMP 21 AMP N3 N3 N 0 1 Y N N N N N 11.488 37.403 12.902 3.889 0.845 0.829 N3 AMP 22 AMP C4 C4 C 0 1 Y N N N N N 10.672 37.369 14.001 3.090 -0.068 0.287 C4 AMP 23 AMP HOP2 HOP2 H 0 0 N N N N N N 6.225 38.986 19.298 -6.121 -2.327 1.196 HOP2 AMP 24 AMP HOP3 HOP3 H 0 0 N Y N N N N 9.675 39.101 19.937 -3.803 -2.646 -0.923 HOP3 AMP 25 AMP "H5'1" "H5'1" H 0 0 N N N N N N 8.807 42.514 17.639 -2.486 0.214 -1.277 "H5'1" AMP 26 AMP "H5'2" "H5'2" H 0 0 N N N N N N 10.051 41.328 18.161 -3.462 1.543 -0.607 "H5'2" AMP 27 AMP "H4'" "H4'" H 0 1 N N N N N N 10.618 42.469 16.019 -1.816 1.721 1.294 "H4'" AMP 28 AMP "H3'" "H3'" H 0 1 N N N N N N 7.901 41.938 15.368 -1.420 2.456 -1.503 "H3'" AMP 29 AMP "HO3'" "HO3'" H 0 0 N N N N N N 8.591 43.044 13.446 -0.450 4.336 -0.395 "HO3'" AMP 30 AMP "H2'" "H2'" H 0 1 N N N N N N 8.074 39.902 14.396 0.624 1.321 -1.751 "H2'" AMP 31 AMP "HO2'" "HO2'" H 0 0 N N N N N N 8.954 39.957 12.254 1.373 3.594 -1.383 "HO2'" AMP 32 AMP "H1'" "H1'" H 0 1 N N N N N N 10.981 40.006 13.756 1.006 1.385 1.296 "H1'" AMP 33 AMP H8 H8 H 0 1 N N N N N N 8.806 38.284 16.510 0.538 -1.734 -0.835 H8 AMP 34 AMP HN61 HN61 H 0 0 N N N N N N 10.755 33.042 14.136 5.106 -3.309 -0.920 HN61 AMP 35 AMP HN62 HN62 H 0 0 N N N N N N 10.636 33.793 15.581 6.602 -2.717 -0.435 HN62 AMP 36 AMP H2 H2 H 0 1 N N N N N N 12.541 36.190 11.495 5.807 1.402 1.355 H2 AMP 37 # 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 AMP P O1P DOUB N N 1 AMP P O2P SING N N 2 AMP P O3P SING N N 3 AMP P "O5'" SING N N 4 AMP O2P HOP2 SING N N 5 AMP O3P HOP3 SING N N 6 AMP "O5'" "C5'" SING N N 7 AMP "C5'" "C4'" SING N N 8 AMP "C5'" "H5'1" SING N N 9 AMP "C5'" "H5'2" SING N N 10 AMP "C4'" "O4'" SING N N 11 AMP "C4'" "C3'" SING N N 12 AMP "C4'" "H4'" SING N N 13 AMP "O4'" "C1'" SING N N 14 AMP "C3'" "O3'" SING N N 15 AMP "C3'" "C2'" SING N N 16 AMP "C3'" "H3'" SING N N 17 AMP "O3'" "HO3'" SING N N 18 AMP "C2'" "O2'" SING N N 19 AMP "C2'" "C1'" SING N N 20 AMP "C2'" "H2'" SING N N 21 AMP "O2'" "HO2'" SING N N 22 AMP "C1'" N9 SING N N 23 AMP "C1'" "H1'" SING N N 24 AMP N9 C8 SING Y N 25 AMP N9 C4 SING Y N 26 AMP C8 N7 DOUB Y N 27 AMP C8 H8 SING N N 28 AMP N7 C5 SING Y N 29 AMP C5 C6 SING Y N 30 AMP C5 C4 DOUB Y N 31 AMP C6 N6 SING N N 32 AMP C6 N1 DOUB Y N 33 AMP N6 HN61 SING N N 34 AMP N6 HN62 SING N N 35 AMP N1 C2 SING Y N 36 AMP C2 N3 DOUB Y N 37 AMP C2 H2 SING N N 38 AMP N3 C4 SING Y N 39 # 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 AMP SMILES ACDLabs 12.01 "O=P(O)(O)OCC3OC(n2cnc1c(ncnc12)N)C(O)C3O" AMP InChI InChI 1.03 "InChI=1S/C10H14N5O7P/c11-8-5-9(13-2-12-8)15(3-14-5)10-7(17)6(16)4(22-10)1-21-23(18,19)20/h2-4,6-7,10,16-17H,1H2,(H2,11,12,13)(H2,18,19,20)/t4-,6-,7-,10-/m1/s1" AMP InChIKey InChI 1.03 UDMBCSSLTHHNCD-KQYNXXCUSA-N AMP SMILES_CANONICAL CACTVS 3.370 "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@H]3O" AMP SMILES CACTVS 3.370 "Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(O)=O)[CH](O)[CH]3O" AMP SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O)O)O)O)N" AMP SMILES "OpenEye OEToolkits" 1.7.6 "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)O)O)O)N" # 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 AMP "SYSTEMATIC NAME" ACDLabs 12.01 ;5'-adenylic acid ; AMP "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-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 AMP "Create component" 1999-07-08 RCSB AMP "Modify descriptor" 2011-06-04 RCSB AMP "Modify leaving atom flag" 2011-12-08 RCSB AMP "Modify PCM" 2024-09-27 PDBE # loop_ _pdbx_chem_comp_pcm.pcm_id _pdbx_chem_comp_pcm.comp_id _pdbx_chem_comp_pcm.modified_residue_id _pdbx_chem_comp_pcm.type _pdbx_chem_comp_pcm.category _pdbx_chem_comp_pcm.position _pdbx_chem_comp_pcm.polypeptide_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 1 AMP TYR AMPylation "Nucleotide monophosphate" "Amino-acid side chain" "Any position" P OH PTM-0332 ? 2 AMP THR AMPylation "Nucleotide monophosphate" "Amino-acid side chain" "Any position" P OG1 PTM-0393 ? 3 AMP SER AMPylation "Nucleotide monophosphate" "Amino-acid side chain" "Any position" P OG PTM-0651 ? 4 AMP GLY AMPylation "Nucleotide monophosphate" "Amino-acid backbone" C-terminal O1P C ? PTM-0409 5 AMP GLY AMPylation "Nucleotide monophosphate" "Amino-acid backbone" C-terminal O2P C ? PTM-0409 6 AMP ALA AMPylation "Nucleotide monophosphate" "Amino-acid backbone" C-terminal O2P C ? ? 7 AMP ALA AMPylation "Nucleotide monophosphate" "Amino-acid backbone" C-terminal O3P C ? ? 8 AMP GLU AMPylation "Nucleotide monophosphate" "Amino-acid side chain" "Any position" P OE1 ? ? 9 AMP GLY AMPylation "Nucleotide monophosphate" "Amino-acid backbone" C-terminal P OXT ? ? 10 AMP ASN AMPylation "Nucleotide monophosphate" "Amino-acid backbone" N-terminal P N ? ? 11 AMP ARG AMPylation "Nucleotide monophosphate" "Amino-acid side chain" "Any position" O2P NH1 ? ? 12 AMP HIS AMPylation "Nucleotide monophosphate" "Amino-acid side chain" "Any position" P NE2 ? ? 13 AMP LYS AMPylation "Nucleotide monophosphate" "Amino-acid side chain" "Any position" P NZ ? ? 14 AMP XSN AMPylation "Nucleotide monophosphate" "Amino-acid side chain" "Any position" P N1 ? ? #