data_ACP
#
_chem_comp.id ACP
_chem_comp.name "PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C11 H18 N5 O12 P3"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms "ADENOSINE-5'-[BETA, GAMMA-METHYLENE]TRIPHOSPHATE"
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 1999-07-08
_chem_comp.pdbx_modified_date 2021-03-13
_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 505.208
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code ACP
_chem_comp.pdbx_model_coordinates_details ?
_chem_comp.pdbx_model_coordinates_missing_flag N
_chem_comp.pdbx_ideal_coordinates_details ?
_chem_comp.pdbx_ideal_coordinates_missing_flag N
_chem_comp.pdbx_model_coordinates_db_code 1DAH
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site EBI
# #
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.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
ACP PG PG P 0 1 N N N 0.855 23.263 12.268 1.232 -0.258 -7.184 PG ACP 1
ACP O1G O1G O 0 1 N N N 0.261 24.067 11.155 1.776 1.110 -7.046 O1G ACP 2
ACP O2G O2G O 0 1 N N N 1.546 24.269 13.322 2.162 -1.107 -8.188 O2G ACP 3
ACP O3G O3G O 0 1 N N N -0.131 22.359 12.910 -0.264 -0.184 -7.773 O3G ACP 4
ACP PB PB P 0 1 N N S 3.960 22.989 11.443 0.150 -0.107 -4.415 PB ACP 5
ACP O1B O1B O 0 1 N N N 4.312 23.616 12.735 -1.225 -0.039 -4.956 O1B ACP 6
ACP O2B O2B O 0 1 N N N 3.924 23.959 10.301 0.742 1.382 -4.265 O2B ACP 7
ACP C3B C3B C 0 1 N N N 2.284 22.270 11.671 1.203 -1.068 -5.551 C3B ACP 8
ACP PA PA P 0 1 N N R 5.743 20.743 12.106 -0.817 0.074 -2.025 PA ACP 9
ACP O1A O1A O 0 1 N N N 4.831 20.274 13.183 -2.178 0.139 -2.603 O1A ACP 10
ACP O2A O2A O 0 1 N N N 7.006 21.290 12.660 -0.209 1.560 -1.915 O2A ACP 11
ACP O3A O3A O 0 1 N N N 5.012 21.836 11.181 0.125 -0.822 -2.973 O3A ACP 12
ACP "O5'" O5* O 0 1 N N N 6.031 19.560 11.060 -0.888 -0.586 -0.558 "O5'" ACP 13
ACP "C5'" C5* C 0 1 N N N 4.979 19.095 10.193 -1.735 0.251 0.230 "C5'" ACP 14
ACP "C4'" C4* C 0 1 N N R 5.256 17.654 9.808 -1.846 -0.323 1.644 "C4'" ACP 15
ACP "O4'" O4* O 0 1 N N N 6.374 17.632 8.893 -0.547 -0.360 2.275 "O4'" ACP 16
ACP "C3'" C3* C 0 1 N N S 5.652 16.801 11.014 -2.694 0.605 2.540 "C3'" ACP 17
ACP "O3'" O3* O 0 1 N N N 5.204 15.448 10.861 -4.037 0.127 2.628 "O3'" ACP 18
ACP "C2'" C2* C 0 1 N N R 7.170 16.925 11.034 -2.000 0.532 3.921 "C2'" ACP 19
ACP "O2'" O2* O 0 1 N N N 7.857 15.936 11.824 -2.896 0.008 4.904 "O2'" ACP 20
ACP "C1'" C1* C 0 1 N N R 7.474 16.946 9.532 -0.814 -0.430 3.692 "C1'" ACP 21
ACP N9 N9 N 0 1 Y N N 8.709 17.720 9.213 0.355 0.011 4.455 N9 ACP 22
ACP C8 C8 C 0 1 Y N N 8.895 19.019 9.421 1.312 0.885 4.030 C8 ACP 23
ACP N7 N7 N 0 1 Y N N 10.183 19.294 9.183 2.206 1.052 4.960 N7 ACP 24
ACP C5 C5 C 0 1 Y N N 10.799 18.177 8.819 1.878 0.304 6.041 C5 ACP 25
ACP C6 C6 C 0 1 Y N N 12.115 17.856 8.463 2.456 0.082 7.302 C6 ACP 26
ACP N6 N6 N 0 1 N N N 13.104 18.732 8.587 3.629 0.721 7.665 N6 ACP 27
ACP N1 N1 N 0 1 Y N N 12.377 16.579 8.108 1.848 -0.750 8.140 N1 ACP 28
ACP C2 C2 C 0 1 Y N N 11.429 15.645 8.114 0.729 -1.363 7.803 C2 ACP 29
ACP N3 N3 N 0 1 Y N N 10.204 15.928 8.483 0.154 -1.191 6.631 N3 ACP 30
ACP C4 C4 C 0 1 Y N N 9.849 17.174 8.827 0.689 -0.377 5.727 C4 ACP 31
ACP HOG2 2HOG H 0 0 N N N 1.923 23.758 14.028 2.150 -0.645 -9.038 HOG2 ACP 32
ACP HOG3 3HOG H 0 0 N N N 0.246 21.848 13.616 -0.581 -1.094 -7.847 HOG3 ACP 33
ACP HOB2 2HOB H 0 0 N N N 3.697 23.556 9.470 1.637 1.292 -3.910 HOB2 ACP 34
ACP H3B1 1H3B H 0 0 N N N 2.385 21.387 12.344 2.216 -1.118 -5.153 H3B1 ACP 35
ACP H3B2 2H3B H 0 0 N N N 1.986 21.797 10.705 0.802 -2.076 -5.653 H3B2 ACP 36
ACP HOA2 2HOA H 0 0 N N N 7.588 21.589 11.972 0.675 1.473 -1.535 HOA2 ACP 37
ACP "H5'1" 1H5* H 0 0 N N N 3.967 19.226 10.644 -2.726 0.296 -0.221 "H5'1" ACP 38
ACP "H5'2" 2H5* H 0 0 N N N 4.840 19.752 9.303 -1.312 1.254 0.278 "H5'2" ACP 39
ACP "H4'" H4* H 0 1 N N N 4.323 17.240 9.359 -2.281 -1.322 1.614 "H4'" ACP 40
ACP "H3'" H3* H 0 1 N N N 5.189 17.132 11.973 -2.676 1.626 2.157 "H3'" ACP 41
ACP "HO3'" *HO3 H 0 0 N N N 5.450 14.918 11.610 -4.517 0.745 3.197 "HO3'" ACP 42
ACP "H2'" H2* H 0 1 N N N 7.554 17.826 11.565 -1.640 1.516 4.220 "H2'" ACP 43
ACP "HO2'" *HO2 H 0 0 N N N 8.803 16.013 11.836 -3.642 0.621 4.957 "HO2'" ACP 44
ACP "H1'" H1* H 0 1 N N N 7.615 15.895 9.184 -1.090 -1.446 3.977 "H1'" ACP 45
ACP H8 H8 H 0 1 N N N 8.120 19.738 9.734 1.326 1.366 3.063 H8 ACP 46
ACP HN61 1HN6 H 0 0 N N N 14.062 18.498 8.327 4.017 0.563 8.540 HN61 ACP 47
ACP HN62 2HN6 H 0 0 N N N 13.112 19.059 9.552 4.066 1.323 7.043 HN62 ACP 48
ACP H2 H2 H 0 1 N N N 11.664 14.612 7.806 0.267 -2.032 8.514 H2 ACP 49
# #
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
ACP PG O1G DOUB N N 1
ACP PG O2G SING N N 2
ACP PG O3G SING N N 3
ACP PG C3B SING N N 4
ACP O2G HOG2 SING N N 5
ACP O3G HOG3 SING N N 6
ACP PB O1B DOUB N N 7
ACP PB O2B SING N N 8
ACP PB C3B SING N N 9
ACP PB O3A SING N N 10
ACP O2B HOB2 SING N N 11
ACP C3B H3B1 SING N N 12
ACP C3B H3B2 SING N N 13
ACP PA O1A DOUB N N 14
ACP PA O2A SING N N 15
ACP PA O3A SING N N 16
ACP PA "O5'" SING N N 17
ACP O2A HOA2 SING N N 18
ACP "O5'" "C5'" SING N N 19
ACP "C5'" "C4'" SING N N 20
ACP "C5'" "H5'1" SING N N 21
ACP "C5'" "H5'2" SING N N 22
ACP "C4'" "O4'" SING N N 23
ACP "C4'" "C3'" SING N N 24
ACP "C4'" "H4'" SING N N 25
ACP "O4'" "C1'" SING N N 26
ACP "C3'" "O3'" SING N N 27
ACP "C3'" "C2'" SING N N 28
ACP "C3'" "H3'" SING N N 29
ACP "O3'" "HO3'" SING N N 30
ACP "C2'" "O2'" SING N N 31
ACP "C2'" "C1'" SING N N 32
ACP "C2'" "H2'" SING N N 33
ACP "O2'" "HO2'" SING N N 34
ACP "C1'" N9 SING N N 35
ACP "C1'" "H1'" SING N N 36
ACP N9 C8 SING Y N 37
ACP N9 C4 SING Y N 38
ACP C8 N7 DOUB Y N 39
ACP C8 H8 SING N N 40
ACP N7 C5 SING Y N 41
ACP C5 C6 SING Y N 42
ACP C5 C4 DOUB Y N 43
ACP C6 N6 SING N N 44
ACP C6 N1 DOUB Y N 45
ACP N6 HN61 SING N N 46
ACP N6 HN62 SING N N 47
ACP N1 C2 SING Y N 48
ACP C2 N3 DOUB Y N 49
ACP C2 H2 SING N N 50
ACP N3 C4 SING Y N 51
# #
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
ACP SMILES ACDLabs 10.04 "O=P(O)(O)CP(=O)(O)OP(=O)(O)OCC3OC(n2cnc1c(ncnc12)N)C(O)C3O"
ACP SMILES_CANONICAL CACTVS 3.341 "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P@](O)(=O)O[P@](O)(=O)C[P](O)(O)=O)[C@@H](O)[C@H]3O"
ACP SMILES CACTVS 3.341 "Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)O[P](O)(=O)C[P](O)(O)=O)[CH](O)[CH]3O"
ACP SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@@](=O)(O)O[P@](=O)(CP(=O)(O)O)O)O)O)N"
ACP SMILES "OpenEye OEToolkits" 1.5.0 "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OP(=O)(CP(=O)(O)O)O)O)O)N"
ACP InChI InChI 1.03 "InChI=1S/C11H18N5O12P3/c12-9-6-10(14-2-13-9)16(3-15-6)11-8(18)7(17)5(27-11)1-26-31(24,25)28-30(22,23)4-29(19,20)21/h2-3,5,7-8,11,17-18H,1,4H2,(H,22,23)(H,24,25)(H2,12,13,14)(H2,19,20,21)/t5-,7-,8-,11-/m1/s1"
ACP InChIKey InChI 1.03 UFZTZBNSLXELAL-IOSLPCCCSA-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
ACP "SYSTEMATIC NAME" ACDLabs 10.04 "5'-O-[(R)-hydroxy{[(S)-hydroxy(phosphonomethyl)phosphoryl]oxy}phosphoryl]adenosine"
ACP "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl]oxy-hydroxy-phosphoryl]methylphosphonic 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
ACP "Create component" 1999-07-08 EBI
ACP "Modify descriptor" 2011-06-04 RCSB
ACP "Modify synonyms" 2021-03-13 RCSB
#
_pdbx_chem_comp_synonyms.ordinal 1
_pdbx_chem_comp_synonyms.comp_id ACP
_pdbx_chem_comp_synonyms.name "ADENOSINE-5'-[BETA, GAMMA-METHYLENE]TRIPHOSPHATE"
_pdbx_chem_comp_synonyms.provenance PDB
_pdbx_chem_comp_synonyms.type ?
##