data_OAD
#
_chem_comp.id OAD
_chem_comp.name
;2'-O-ACETYL ADENOSINE-5-DIPHOSPHORIBOSE
;
_chem_comp.type "RNA LINKING"
_chem_comp.pdbx_type ATOMN
_chem_comp.formula "C17 H25 N5 O15 P2"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2002-06-28
_chem_comp.pdbx_modified_date 2012-01-05
_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 601.352
_chem_comp.one_letter_code N
_chem_comp.three_letter_code OAD
_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 1M2N
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site RCSB
#
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
OAD PA PA P 0 1 N N S -1.318 49.780 42.103 0.237 3.220 -0.361 PA OAD 1
OAD O1A O1A O 0 1 N N N -2.072 49.858 43.419 0.564 3.285 -1.803 O1A OAD 2
OAD O2A O2A O 0 1 N N N -2.203 50.460 41.004 0.097 4.713 0.225 O2A OAD 3
OAD "O5'" O5* O 0 1 N N N -1.044 48.256 41.627 1.411 2.444 0.421 "O5'" OAD 4
OAD "C5'" C5* C 0 1 N N N -0.307 47.428 42.389 2.783 2.835 0.351 "C5'" OAD 5
OAD "C4'" C4* C 0 1 N N R -0.204 46.097 41.721 3.628 1.889 1.208 "C4'" OAD 6
OAD "O4'" O4* O 0 1 N N N 0.510 45.315 42.495 3.614 0.570 0.638 "O4'" OAD 7
OAD "C3'" C3* C 0 1 N N S -1.463 45.408 41.506 5.093 2.365 1.226 "C3'" OAD 8
OAD "O3'" O3* O 0 1 N N N -1.577 45.299 40.127 5.508 2.657 2.562 "O3'" OAD 9
OAD "C2'" C2* C 0 1 N N R -1.384 44.135 42.276 5.889 1.164 0.661 "C2'" OAD 10
OAD "O2'" O2* O 0 1 N N N -1.977 42.974 41.835 7.103 0.969 1.389 "O2'" OAD 11
OAD "C1'" C1* C 0 1 N N R 0.048 44.055 42.524 4.909 -0.014 0.894 "C1'" OAD 12
OAD N9 N9 N 0 1 Y N N 0.402 43.569 43.778 5.180 -1.104 -0.046 N9 OAD 13
OAD C8 C8 C 0 1 Y N N -0.180 43.555 45.096 4.616 -1.265 -1.277 C8 OAD 14
OAD N7 N7 N 0 1 Y N N 0.565 42.948 46.009 5.084 -2.341 -1.842 N7 OAD 15
OAD C5 C5 C 0 1 Y N N 1.639 42.537 45.395 5.974 -2.936 -1.012 C5 OAD 16
OAD C6 C6 C 0 1 Y N N 2.829 41.805 45.859 6.772 -4.090 -1.083 C6 OAD 17
OAD N6 N6 N 0 1 N N N 2.979 41.408 47.171 6.743 -4.903 -2.202 N6 OAD 18
OAD N1 N1 N 0 1 Y N N 3.856 41.512 44.867 7.555 -4.383 -0.049 N1 OAD 19
OAD C2 C2 C 0 1 Y N N 3.740 41.909 43.478 7.589 -3.613 1.023 C2 OAD 20
OAD N3 N3 N 0 1 Y N N 2.567 42.612 43.084 6.859 -2.523 1.133 N3 OAD 21
OAD C4 C4 C 0 1 Y N N 1.549 42.912 44.033 6.050 -2.147 0.148 C4 OAD 22
OAD O3A O3A O 0 1 N N N 0.093 50.492 42.245 -1.153 2.433 -0.161 O3A OAD 23
OAD PB PB P 0 1 N N R 0.871 51.054 40.968 -2.553 2.416 -0.955 PB OAD 24
OAD O1B O1B O 0 1 N N N 0.756 50.147 39.708 -2.294 2.339 -2.410 O1B OAD 25
OAD O2B O2B O 0 1 N N N 2.416 51.186 41.091 -3.373 3.762 -0.626 O2B OAD 26
OAD O2D RO2* O 0 1 N N N 0.916 57.532 42.138 -7.086 -2.760 0.430 O2D OAD 27
OAD O5D RO5* O 0 1 N N N 0.156 52.508 40.762 -3.416 1.137 -0.495 O5D OAD 28
OAD C5D RC5* C 0 1 N N N 0.538 53.307 39.771 -4.664 0.784 -1.094 C5D OAD 29
OAD C4D RC4* C 0 1 N N R 0.632 54.760 40.132 -5.213 -0.477 -0.424 C4D OAD 30
OAD O4D RO4* O 0 1 N N N -0.513 55.472 40.099 -5.551 -0.196 0.939 O4D OAD 31
OAD C3D RC3* C 0 1 N N R 1.204 55.107 41.511 -6.503 -0.932 -1.140 C3D OAD 32
OAD O3D RO3* O 0 1 N N N 2.468 55.477 41.387 -6.235 -2.019 -2.029 O3D OAD 33
OAD C2D RC2* C 0 1 N N R 0.378 56.255 41.949 -7.393 -1.394 0.046 C2D OAD 34
OAD C1D RC1* C 0 1 N N S -0.725 56.152 41.163 -6.959 -0.394 1.146 C1D OAD 35
OAD O1D RO1* O 0 1 N N N -1.182 57.366 40.625 -7.196 -0.948 2.442 O1D OAD 36
OAD C6D RC6* C 0 1 N N N 0.741 58.332 43.255 -8.088 -3.488 0.947 C6D OAD 37
OAD O6D RO6* O 0 1 N N N 1.288 58.148 44.469 -9.186 -2.999 1.074 O6D OAD 38
OAD C7D RC7* C 0 1 N N N -0.156 59.550 43.095 -7.845 -4.914 1.368 C7D OAD 39
OAD HOA2 2HOA H 0 0 N N N -1.731 50.411 40.181 -0.117 4.747 1.168 HOA2 OAD 40
OAD "H5'1" 1H5* H 0 0 N N N -0.702 47.348 43.429 3.122 2.788 -0.683 "H5'1" OAD 41
OAD "H5'2" 2H5* H 0 0 N N N 0.693 47.857 42.631 2.890 3.854 0.723 "H5'2" OAD 42
OAD "H'4" 4H* H 0 1 N N N 0.238 46.299 40.718 3.233 1.858 2.224 "H'4" OAD 43
OAD "H'3" 3H* H 0 1 N N N -2.388 45.914 41.869 5.217 3.241 0.589 "H'3" OAD 44
OAD "HO'3" 3HO* H 0 0 N N N -2.401 44.848 39.986 6.423 2.961 2.632 "HO'3" OAD 45
OAD "H'2" 2H* H 0 1 N N N -2.052 44.194 43.167 6.092 1.297 -0.402 "H'2" OAD 46
OAD "HO'2" 2HO* H 0 0 N N N -1.927 42.162 42.326 7.712 1.720 1.347 "HO'2" OAD 47
OAD "H'1" 1H* H 0 1 N N N 0.464 43.360 41.758 4.973 -0.368 1.923 "H'1" OAD 48
OAD H8 H8 H 0 1 N N N -1.150 43.989 45.392 3.890 -0.599 -1.718 H8 OAD 49
OAD H61 1H6 H 0 1 N N N 2.158 40.859 47.425 6.168 -4.679 -2.950 H61 OAD 50
OAD H62 2H6 H 0 1 N N N 3.804 40.901 47.493 7.299 -5.698 -2.239 H62 OAD 51
OAD H2 H2 H 0 1 N N N 4.526 41.682 42.738 8.239 -3.888 1.840 H2 OAD 52
OAD HOB2 2HOB H 0 0 N N N 2.879 51.520 40.332 -3.578 3.879 0.312 HOB2 OAD 53
OAD H5R1 1H5R H 0 0 N N N -0.129 53.172 38.888 -5.373 1.602 -0.965 H5R1 OAD 54
OAD H5R2 2H5R H 0 0 N N N 1.504 52.953 39.341 -4.517 0.595 -2.158 H5R2 OAD 55
OAD "HR'4" 4HR* H 0 0 N N N 1.331 55.038 39.309 -4.467 -1.271 -0.463 "HR'4" OAD 56
OAD "HR'3" 3HR* H 0 0 N N N 1.179 54.254 42.229 -6.964 -0.101 -1.674 "HR'3" OAD 57
OAD HOR3 3HOR H 0 0 N N N 2.823 55.692 42.242 -7.014 -2.341 -2.502 HOR3 OAD 58
OAD "HR'2" 2HR* H 0 0 N N N 0.185 56.163 43.043 -8.451 -1.283 -0.191 "HR'2" OAD 59
OAD "HR'1" 1HR* H 0 0 N N N -1.453 55.695 41.873 -7.494 0.549 1.033 "HR'1" OAD 60
OAD HOR1 1HOR H 0 0 N N N -1.339 57.871 41.414 -6.903 -0.384 3.171 HOR1 OAD 61
OAD H7R1 1H7R H 0 0 N N N -1.151 59.232 42.705 -6.804 -5.176 1.178 H7R1 OAD 62
OAD H7R2 2H7R H 0 0 N N N -0.297 60.194 43.994 -8.058 -5.020 2.431 H7R2 OAD 63
OAD H7R3 3H7R H 0 0 N N N 0.209 60.172 42.245 -8.496 -5.577 0.799 H7R3 OAD 64
#
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
OAD PA O1A DOUB N N 1
OAD PA O2A SING N N 2
OAD PA "O5'" SING N N 3
OAD PA O3A SING N N 4
OAD O2A HOA2 SING N N 5
OAD "O5'" "C5'" SING N N 6
OAD "C5'" "C4'" SING N N 7
OAD "C5'" "H5'1" SING N N 8
OAD "C5'" "H5'2" SING N N 9
OAD "C4'" "O4'" SING N N 10
OAD "C4'" "C3'" SING N N 11
OAD "C4'" "H'4" SING N N 12
OAD "O4'" "C1'" SING N N 13
OAD "C3'" "O3'" SING N N 14
OAD "C3'" "C2'" SING N N 15
OAD "C3'" "H'3" SING N N 16
OAD "O3'" "HO'3" SING N N 17
OAD "C2'" "O2'" SING N N 18
OAD "C2'" "C1'" SING N N 19
OAD "C2'" "H'2" SING N N 20
OAD "O2'" "HO'2" SING N N 21
OAD "C1'" N9 SING N N 22
OAD "C1'" "H'1" SING N N 23
OAD N9 C8 SING Y N 24
OAD N9 C4 SING Y N 25
OAD C8 N7 DOUB Y N 26
OAD C8 H8 SING N N 27
OAD N7 C5 SING Y N 28
OAD C5 C6 DOUB Y N 29
OAD C5 C4 SING Y N 30
OAD C6 N6 SING N N 31
OAD C6 N1 SING Y N 32
OAD N6 H61 SING N N 33
OAD N6 H62 SING N N 34
OAD N1 C2 DOUB Y N 35
OAD C2 N3 SING Y N 36
OAD C2 H2 SING N N 37
OAD N3 C4 DOUB Y N 38
OAD O3A PB SING N N 39
OAD PB O1B DOUB N N 40
OAD PB O2B SING N N 41
OAD PB O5D SING N N 42
OAD O2B HOB2 SING N N 43
OAD O2D C2D SING N N 44
OAD O2D C6D SING N N 45
OAD O5D C5D SING N N 46
OAD C5D C4D SING N N 47
OAD C5D H5R1 SING N N 48
OAD C5D H5R2 SING N N 49
OAD C4D O4D SING N N 50
OAD C4D C3D SING N N 51
OAD C4D "HR'4" SING N N 52
OAD O4D C1D SING N N 53
OAD C3D O3D SING N N 54
OAD C3D C2D SING N N 55
OAD C3D "HR'3" SING N N 56
OAD O3D HOR3 SING N N 57
OAD C2D C1D SING N N 58
OAD C2D "HR'2" SING N N 59
OAD C1D O1D SING N N 60
OAD C1D "HR'1" SING N N 61
OAD O1D HOR1 SING N N 62
OAD C6D O6D DOUB N N 63
OAD C6D C7D SING N N 64
OAD C7D H7R1 SING N N 65
OAD C7D H7R2 SING N N 66
OAD C7D H7R3 SING N N 67
#
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
OAD SMILES ACDLabs 10.04 "O=C(OC1C(O)C(OC1O)COP(=O)(O)OP(=O)(O)OCC4OC(n2c3ncnc(N)c3nc2)C(O)C4O)C"
OAD InChI InChI 1.03
"InChI=1S/C17H25N5O15P2/c1-6(23)34-13-11(25)8(36-17(13)27)3-33-39(30,31)37-38(28,29)32-2-7-10(24)12(26)16(35-7)22-5-21-9-14(18)19-4-20-15(9)22/h4-5,7-8,10-13,16-17,24-27H,2-3H2,1H3,(H,28,29)(H,30,31)(H2,18,19,20)/t7-,8-,10-,11-,12-,13-,16-,17+/m1/s1"
OAD InChIKey InChI 1.03 BFNOPXRXIQJDHO-DLFWLGJNSA-N
OAD SMILES_CANONICAL CACTVS 3.385 "CC(=O)O[C@H]1[C@@H](O)O[C@H](CO[P](O)(=O)O[P](O)(=O)OC[C@H]2O[C@H]([C@H](O)[C@@H]2O)n3cnc4c(N)ncnc34)[C@H]1O"
OAD SMILES CACTVS 3.385 "CC(=O)O[CH]1[CH](O)O[CH](CO[P](O)(=O)O[P](O)(=O)OC[CH]2O[CH]([CH](O)[CH]2O)n3cnc4c(N)ncnc34)[CH]1O"
OAD SMILES_CANONICAL "OpenEye OEToolkits" 1.7.5 "CC(=O)O[C@@H]1[C@@H]([C@H](O[C@@H]1O)CO[P@@](=O)(O)O[P@@](=O)(O)OC[C@@H]2[C@H]([C@H]([C@@H](O2)n3cnc4c3ncnc4N)O)O)O"
OAD SMILES "OpenEye OEToolkits" 1.7.5 "CC(=O)OC1C(C(OC1O)COP(=O)(O)OP(=O)(O)OCC2C(C(C(O2)n3cnc4c3ncnc4N)O)O)O"
#
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
OAD "SYSTEMATIC NAME" ACDLabs 10.04
"(2S,3R,4R,5R)-5-({[(R)-{[(S)-{[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methoxy}(hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]oxy}methyl)-2,4-dihydroxytetrahydrofuran-3-yl acetate (non-preferred name)"
OAD "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2S,3R,4R,5R)-5-[[[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl]oxy-hydroxy-phosphoryl]oxymethyl]-2,4-dihydroxy-oxolan-3-yl] ethanoate"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
OAD "Create component" 2002-06-28 RCSB
OAD "Modify descriptor" 2011-06-04 RCSB
OAD "Modify descriptor" 2012-01-05 RCSB
OAD "Modify coordinates" 2012-01-05 RCSB
#