data_CO6
#
_chem_comp.id CO6
_chem_comp.name "ISOBUTYRYL-COENZYME A"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C25 H42 N7 O17 P3 S"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms IB-CO6
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2006-10-11
_chem_comp.pdbx_modified_date 2021-03-01
_chem_comp.pdbx_ambiguous_flag ?
_chem_comp.pdbx_release_status REL
_chem_comp.pdbx_replaced_by ?
_chem_comp.pdbx_replaces ?
_chem_comp.formula_weight 837.624
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code CO6
_chem_comp.pdbx_model_coordinates_details ?
_chem_comp.pdbx_model_coordinates_missing_flag Y
_chem_comp.pdbx_ideal_coordinates_details ?
_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
#
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
CO6 N1A AN1 N 0 1 Y N N N N N 25.769 44.761 6.827 11.180 1.187 -7.737 N1A CO6 1
CO6 C2A AC2 C 0 1 Y N N N N N 26.313 43.686 7.379 11.845 2.345 -7.506 C2A CO6 2
CO6 N3A AN3 N 0 1 Y N N N N N 27.346 43.719 8.216 11.601 3.289 -6.571 N3A CO6 3
CO6 C4A AC4 C 0 1 Y N N N N N 27.878 44.938 8.502 10.542 2.946 -5.823 C4A CO6 4
CO6 C5A AC5 C 0 1 Y N N N N N 27.424 46.085 8.008 9.768 1.803 -5.940 C5A CO6 5
CO6 C6A AC6 C 0 1 Y N N N N N 26.285 45.976 7.097 10.120 0.905 -6.942 C6A CO6 6
CO6 N6A AN6 N 0 1 N N N N N N 25.806 47.059 6.578 9.390 -0.281 -7.132 N6A CO6 7
CO6 N7A AN7 N 0 1 Y N N N N N 28.124 47.169 8.459 8.769 1.795 -4.999 N7A CO6 8
CO6 C8A AC8 C 0 1 Y N N N N N 29.049 46.672 9.282 8.933 2.912 -4.323 C8A CO6 9
CO6 N9A AN9 N 0 1 Y N N N N N 28.881 45.366 9.302 9.995 3.646 -4.784 N9A CO6 10
CO6 C1B AC1* C 0 1 N N R N N N 29.548 44.329 10.088 10.449 4.933 -4.255 C1B CO6 11
CO6 C2B AC2* C 0 1 N N R N N N 30.856 44.666 10.704 9.729 6.136 -4.866 C2B CO6 12
CO6 O2B AO2* O 0 1 N N N N N N 31.657 43.447 10.473 10.676 7.172 -5.120 O2B CO6 13
CO6 C3B AC3* C 0 1 N N S N N N 30.543 44.704 12.224 8.755 6.537 -3.774 C3B CO6 14
CO6 O3B AO3* O 0 1 N N N N N N 31.673 44.372 12.983 8.398 7.902 -3.813 O3B CO6 15
CO6 P3B AP3* P 0 1 N N N N N N 32.654 45.581 13.556 7.679 8.463 -5.144 P3B CO6 16
CO6 O7A AO7 O 0 1 N N N N N N 33.625 44.766 14.353 8.480 8.330 -6.406 O7A CO6 17
CO6 O8A AO8 O 0 1 N N N N N N 31.834 46.569 14.391 7.259 9.974 -4.749 O8A CO6 18
CO6 O9A AO9 O 0 1 N N N N N N 33.254 46.235 12.344 6.269 7.672 -5.143 O9A CO6 19
CO6 C4B AC4* C 0 1 N N R N N N 29.399 43.677 12.371 9.522 6.182 -2.512 C4B CO6 20
CO6 O4B AO4* O 0 1 N N N N N N 28.650 43.853 11.149 10.229 4.971 -2.828 O4B CO6 21
CO6 C5B AC5* C 0 1 N N N N N N 28.398 43.960 13.496 8.630 5.956 -1.305 C5B CO6 22
CO6 O5B AO5* O 0 1 N N N N N N 28.116 45.371 13.501 7.905 7.144 -1.038 O5B CO6 23
CO6 P1A AP1 P 0 1 N N S N N N 27.340 46.011 14.764 6.435 7.061 -0.365 P1A CO6 24
CO6 O1A AO1 O 0 1 N N N N N N 28.015 45.629 16.086 5.767 8.385 -0.130 O1A CO6 25
CO6 O2A AO2 O 0 1 N N N N N N 27.140 47.425 14.480 5.603 6.053 -1.317 O2A CO6 26
CO6 O3A AO3 O 0 1 N N N N N N 25.969 45.201 14.732 6.699 6.193 0.973 O3A CO6 27
CO6 P2A AP2 P 0 1 N N R N N N 24.547 45.608 14.120 7.563 6.522 2.299 P2A CO6 28
CO6 O4A AO4 O 0 1 N N N N N N 23.828 46.622 14.995 9.023 6.773 2.059 O4A CO6 29
CO6 O5A AO5 O 0 1 N N N N N N 24.732 45.958 12.632 6.761 7.753 2.975 O5A CO6 30
CO6 O6A AO6 O 0 1 N N N N N N 23.756 44.256 14.172 7.200 5.250 3.225 O6A CO6 31
CO6 CBP PC11 C 0 1 N N N N N N 23.340 41.939 13.540 5.671 3.723 4.382 CBP CO6 32
CO6 CCP PC12 C 0 1 N N N N N N 24.375 42.969 14.038 5.827 4.972 3.480 CCP CO6 33
CO6 CDP PC13 C 0 1 N N N N N N 23.948 40.521 13.620 6.403 3.980 5.721 CDP CO6 34
CO6 CEP PC14 C 0 1 N N N N N N 22.130 41.999 14.525 4.181 3.497 4.705 CEP CO6 35
CO6 CAP PC10 C 0 1 N N R N N N 22.875 42.264 12.115 6.294 2.463 3.710 CAP CO6 36
CO6 OAP PO10 O 0 1 N N N N N N 23.999 42.084 11.218 6.129 1.334 4.563 OAP CO6 37
CO6 C9P PC9 C 0 1 N N N N N N 21.710 41.433 11.612 5.664 2.090 2.370 C9P CO6 38
CO6 O9P PO9 O 0 1 N N N N N N 20.572 41.823 11.800 4.666 1.376 2.290 O9P CO6 39
CO6 N8P PN8 N 0 1 N N N N N N 22.006 40.286 10.885 6.322 2.659 1.291 N8P CO6 40
CO6 C7P PC7 C 0 1 N N N N N N 20.943 39.512 10.315 5.897 2.473 -0.077 C7P CO6 41
CO6 C6P PC6 C 0 1 N N N N N N 20.213 38.573 11.335 6.581 1.247 -0.667 C6P CO6 42
CO6 C5P PC5 C 0 1 N N N N N N 21.077 37.732 12.177 6.189 1.003 -2.113 C5P CO6 43
CO6 O5P PO5 O 0 1 N N N N N N 21.928 37.060 11.671 5.404 1.720 -2.727 O5P CO6 44
CO6 N4P PN4 N 0 1 N N N N N N 20.876 37.869 13.543 6.824 -0.117 -2.631 N4P CO6 45
CO6 C3P PC3 C 0 1 N N N N N N 21.835 37.491 14.583 6.624 -0.574 -3.987 C3P CO6 46
CO6 C2P PC2 C 0 1 N N N N N N 21.635 36.107 14.958 5.475 -1.564 -4.118 C2P CO6 47
CO6 S1P PS1 S 0 1 N N N N N N 23.006 35.535 16.044 5.756 -3.076 -3.148 S1P CO6 48
CO6 O1 O1 O 0 1 N N N N N N ? ? ? 3.454 -3.566 -4.342 O1 CO6 49
CO6 C1 C1 C 0 1 N N N N N N ? ? ? 4.318 -4.001 -3.590 C1 CO6 50
CO6 C2 C2 C 0 1 N N N N N N ? ? ? 3.538 -5.239 -1.578 C2 CO6 51
CO6 C3 C3 C 0 1 N N N N N N ? ? ? 4.241 -5.368 -2.925 C3 CO6 52
CO6 C4 C4 C 0 1 N N N N N N ? ? ? 3.504 -6.351 -3.833 C4 CO6 53
CO6 H2 H2 H 0 1 N N N N N N 25.891 42.723 7.134 12.688 2.539 -8.160 H2 CO6 54
CO6 HN61 1HN6 H 0 0 N N N N N N 25.682 47.746 7.294 9.401 -0.986 -6.420 HN61 CO6 55
CO6 HN62 2HN6 H 0 0 N N N N N N 26.441 47.407 5.888 8.945 -0.449 -8.014 HN62 CO6 56
CO6 H8 H8 H 0 1 N N N N N N 29.793 47.233 9.827 8.319 3.243 -3.495 H8 CO6 57
CO6 "H1'" H1* H 0 1 N N N N N N 29.782 43.561 9.336 11.529 4.953 -4.436 "H1'" CO6 58
CO6 "H2'" H2* H 0 1 N N N N N N 31.339 45.585 10.340 9.230 5.921 -5.816 "H2'" CO6 59
CO6 H1 H1 H 0 1 N N N N N N 31.829 43.352 9.544 10.176 7.959 -5.399 H1 CO6 60
CO6 "H3'" H3* H 0 1 N N N N N N 30.256 45.700 12.592 7.847 5.927 -3.850 "H3'" CO6 61
CO6 HO8 HO8 H 0 1 N N N N N N 31.664 46.196 15.248 6.854 10.548 -5.434 HO8 CO6 62
CO6 HO9 HO9 H 0 1 N N N N N N 33.381 47.161 12.513 5.670 7.769 -5.914 HO9 CO6 63
CO6 "H4'" H4* H 0 1 N N N N N N 29.837 42.690 12.581 10.259 6.956 -2.264 "H4'" CO6 64
CO6 "H5'1" 1H5* H 0 0 N N N N N N 27.471 43.393 13.324 9.230 5.704 -0.426 "H5'1" CO6 65
CO6 "H5'2" 2H5* H 0 0 N N N N N N 28.819 43.653 14.465 7.920 5.146 -1.498 "H5'2" CO6 66
CO6 HO2 HO2 H 0 1 N N N N N N 27.096 47.909 15.296 4.643 5.932 -1.155 HO2 CO6 67
CO6 HO5 HO5 H 0 1 N N N N N N 24.770 46.902 12.531 6.867 8.653 2.599 HO5 CO6 68
CO6 H121 1H12 H 0 0 N N N N N N 25.200 43.035 13.314 5.396 5.858 3.959 H121 CO6 69
CO6 H122 2H12 H 0 0 N N N N N N 24.763 42.649 15.016 5.330 4.827 2.516 H122 CO6 70
CO6 H131 1H13 H 0 0 N N N N N N 24.093 40.126 12.604 6.360 3.095 6.367 H131 CO6 71
CO6 H132 2H13 H 0 0 N N N N N N 24.918 40.567 14.137 5.952 4.811 6.275 H132 CO6 72
CO6 H133 3H13 H 0 0 N N N N N N 23.266 39.861 14.176 7.458 4.227 5.561 H133 CO6 73
CO6 H141 1H14 H 0 0 N N N N N N 22.500 42.013 15.561 3.770 4.317 5.305 H141 CO6 74
CO6 H142 2H14 H 0 0 N N N N N N 21.545 42.911 14.332 4.037 2.573 5.275 H142 CO6 75
CO6 H143 3H14 H 0 0 N N N N N N 21.492 41.115 14.376 3.576 3.433 3.794 H143 CO6 76
CO6 H10 H10 H 0 1 N N N N N N 22.510 43.301 12.140 7.373 2.609 3.574 H10 CO6 77
CO6 H3 H3 H 0 1 N N N N N N 23.686 42.045 10.322 5.218 1.024 4.437 H3 CO6 78
CO6 HN8 HN8 H 0 1 N N N N N N 22.957 40.002 10.760 7.124 3.259 1.456 HN8 CO6 79
CO6 H71 1H7 H 0 1 N N N N N N 20.198 40.210 9.905 4.808 2.355 -0.105 H71 CO6 80
CO6 H72 2H7 H 0 1 N N N N N N 21.396 38.862 9.552 6.143 3.368 -0.658 H72 CO6 81
CO6 H61 1H6 H 0 1 N N N N N N 19.626 39.215 12.008 6.324 0.355 -0.083 H61 CO6 82
CO6 H62 2H6 H 0 1 N N N N N N 19.620 37.875 10.726 7.671 1.367 -0.620 H62 CO6 83
CO6 HN4 HN4 H 0 1 N N N N N N 20.005 38.258 13.842 7.456 -0.638 -2.031 HN4 CO6 84
CO6 H31 1H3 H 0 1 N N N N N N 22.858 37.620 14.199 6.407 0.316 -4.587 H31 CO6 85
CO6 H32 2H3 H 0 1 N N N N N N 21.684 38.131 15.465 7.570 -0.995 -4.344 H32 CO6 86
CO6 H21 1H2 H 0 1 N N N N N N 20.682 36.013 15.499 4.532 -1.114 -3.793 H21 CO6 87
CO6 H22 2H2 H 0 1 N N N N N N 21.617 35.489 14.049 5.365 -1.860 -5.167 H22 CO6 88
CO6 H11 1H1 H 0 1 N N N N N N ? ? ? 3.474 -6.211 -1.077 H11 CO6 89
CO6 H12 2H1 H 0 1 N N N N N N ? ? ? 2.522 -4.847 -1.695 H12 CO6 90
CO6 H13 3H1 H 0 1 N N N N N N ? ? ? 4.080 -4.554 -0.917 H13 CO6 91
CO6 H4 H4 H 0 1 N N N N N N ? ? ? 5.253 -5.760 -2.767 H4 CO6 92
CO6 H41 1H4 H 0 1 N N N N N N ? ? ? 3.492 -7.353 -3.391 H41 CO6 93
CO6 H42 2H4 H 0 1 N N N N N N ? ? ? 3.992 -6.417 -4.811 H42 CO6 94
CO6 H43 3H4 H 0 1 N N N N N N ? ? ? 2.466 -6.043 -4.001 H43 CO6 95
#
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
CO6 N1A C2A SING Y N 1
CO6 N1A C6A DOUB Y N 2
CO6 C2A N3A DOUB Y N 3
CO6 C2A H2 SING N N 4
CO6 N3A C4A SING Y N 5
CO6 C4A C5A DOUB Y N 6
CO6 C4A N9A SING Y N 7
CO6 C5A C6A SING Y N 8
CO6 C5A N7A SING Y N 9
CO6 C6A N6A SING N N 10
CO6 N6A HN61 SING N N 11
CO6 N6A HN62 SING N N 12
CO6 N7A C8A DOUB Y N 13
CO6 C8A N9A SING Y N 14
CO6 C8A H8 SING N N 15
CO6 N9A C1B SING N N 16
CO6 C1B C2B SING N N 17
CO6 C1B O4B SING N N 18
CO6 C1B "H1'" SING N N 19
CO6 C2B C3B SING N N 20
CO6 C2B O2B SING N N 21
CO6 C2B "H2'" SING N N 22
CO6 O2B H1 SING N N 23
CO6 C3B C4B SING N N 24
CO6 C3B O3B SING N N 25
CO6 C3B "H3'" SING N N 26
CO6 O3B P3B SING N N 27
CO6 P3B O7A DOUB N N 28
CO6 P3B O8A SING N N 29
CO6 P3B O9A SING N N 30
CO6 O8A HO8 SING N N 31
CO6 O9A HO9 SING N N 32
CO6 C4B C5B SING N N 33
CO6 C4B O4B SING N N 34
CO6 C4B "H4'" SING N N 35
CO6 C5B O5B SING N N 36
CO6 C5B "H5'1" SING N N 37
CO6 C5B "H5'2" SING N N 38
CO6 O5B P1A SING N N 39
CO6 P1A O1A DOUB N N 40
CO6 P1A O2A SING N N 41
CO6 P1A O3A SING N N 42
CO6 O2A HO2 SING N N 43
CO6 O3A P2A SING N N 44
CO6 P2A O4A DOUB N N 45
CO6 P2A O5A SING N N 46
CO6 P2A O6A SING N N 47
CO6 O5A HO5 SING N N 48
CO6 O6A CCP SING N N 49
CO6 CBP CAP SING N N 50
CO6 CBP CCP SING N N 51
CO6 CBP CDP SING N N 52
CO6 CBP CEP SING N N 53
CO6 CCP H121 SING N N 54
CO6 CCP H122 SING N N 55
CO6 CDP H131 SING N N 56
CO6 CDP H132 SING N N 57
CO6 CDP H133 SING N N 58
CO6 CEP H141 SING N N 59
CO6 CEP H142 SING N N 60
CO6 CEP H143 SING N N 61
CO6 CAP C9P SING N N 62
CO6 CAP OAP SING N N 63
CO6 CAP H10 SING N N 64
CO6 OAP H3 SING N N 65
CO6 C9P O9P DOUB N N 66
CO6 C9P N8P SING N N 67
CO6 N8P C7P SING N N 68
CO6 N8P HN8 SING N N 69
CO6 C7P C6P SING N N 70
CO6 C7P H71 SING N N 71
CO6 C7P H72 SING N N 72
CO6 C6P C5P SING N N 73
CO6 C6P H61 SING N N 74
CO6 C6P H62 SING N N 75
CO6 C5P N4P SING N N 76
CO6 C5P O5P DOUB N N 77
CO6 N4P C3P SING N N 78
CO6 N4P HN4 SING N N 79
CO6 C3P C2P SING N N 80
CO6 C3P H31 SING N N 81
CO6 C3P H32 SING N N 82
CO6 C2P S1P SING N N 83
CO6 C2P H21 SING N N 84
CO6 C2P H22 SING N N 85
CO6 S1P C1 SING N N 86
CO6 O1 C1 DOUB N N 87
CO6 C1 C3 SING N N 88
CO6 C2 C3 SING N N 89
CO6 C2 H11 SING N N 90
CO6 C2 H12 SING N N 91
CO6 C2 H13 SING N N 92
CO6 C3 C4 SING N N 93
CO6 C3 H4 SING N N 94
CO6 C4 H41 SING N N 95
CO6 C4 H42 SING N N 96
CO6 C4 H43 SING N N 97
#
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
CO6 SMILES ACDLabs 10.04 O=C(SCCNC(=O)CCNC(=O)C(O)C(C)(C)COP(=O)(O)OP(=O)(O)OCC3OC(n2cnc1c(ncnc12)N)C(O)C3OP(=O)(O)O)C(C)C
CO6 SMILES_CANONICAL CACTVS 3.341 CC(C)C(=O)SCCNC(=O)CCNC(=O)[C@H](O)C(C)(C)CO[P@@](O)(=O)O[P@@](O)(=O)OC[C@H]1O[C@H]([C@H](O)[C@@H]1O[P](O)(O)=O)n2cnc3c(N)ncnc23
CO6 SMILES CACTVS 3.341 CC(C)C(=O)SCCNC(=O)CCNC(=O)[CH](O)C(C)(C)CO[P](O)(=O)O[P](O)(=O)OC[CH]1O[CH]([CH](O)[CH]1O[P](O)(O)=O)n2cnc3c(N)ncnc23
CO6 SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 CC(C)C(=O)SCCNC(=O)CCNC(=O)[C@@H](C(C)(C)CO[P@](=O)(O)O[P@](=O)(O)OC[C@@H]1[C@H]([C@H]([C@@H](O1)n2cnc3c2ncnc3N)O)OP(=O)(O)O)O
CO6 SMILES "OpenEye OEToolkits" 1.5.0 CC(C)C(=O)SCCNC(=O)CCNC(=O)C(C(C)(C)COP(=O)(O)OP(=O)(O)OCC1C(C(C(O1)n2cnc3c2ncnc3N)O)OP(=O)(O)O)O
CO6 InChI InChI 1.03 InChI=1S/C25H42N7O17P3S/c1-13(2)24(37)53-8-7-27-15(33)5-6-28-22(36)19(35)25(3,4)10-46-52(43,44)49-51(41,42)45-9-14-18(48-50(38,39)40)17(34)23(47-14)32-12-31-16-20(26)29-11-30-21(16)32/h11-14,17-19,23,34-35H,5-10H2,1-4H3,(H,27,33)(H,28,36)(H,41,42)(H,43,44)(H2,26,29,30)(H2,38,39,40)/t14-,17-,18-,19+,23-/m1/s1
CO6 InChIKey InChI 1.03 AEWHYWSPVRZHCT-NDZSKPAWSA-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
CO6 "SYSTEMATIC NAME" ACDLabs 10.04 "S-{(9R,13S,15R)-17-[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-4-hydroxy-3-(phosphonooxy)tetrahydrofuran-2-yl]-9,13,15-trihydroxy-10,10-dimethyl-13,15-dioxido-4,8-dioxo-12,14,16-trioxa-3,7-diaza-13,15-diphosphaheptadec-1-yl} 2-methylpropanethioate (non-preferred name)"
CO6 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "S-[2-[3-[[(2R)-4-[[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-4-hydroxy-3-phosphonooxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl]oxy-hydroxy-phosphoryl]oxy-2-hydroxy-3,3-dimethyl-butanoyl]amino]propanoylamino]ethyl] 2-methylpropanethioate"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
CO6 'Create component' 2006-10-11 RCSB
CO6 'Modify descriptor' 2011-06-04 RCSB
CO6 'Modify synonyms' 2021-03-01 PDBE
#
_pdbx_chem_comp_synonyms.ordinal 1
_pdbx_chem_comp_synonyms.comp_id CO6
_pdbx_chem_comp_synonyms.name IB-CO6
_pdbx_chem_comp_synonyms.provenance ?
_pdbx_chem_comp_synonyms.type ?
#
_pdbe_chem_comp_synonyms.comp_id CO6
_pdbe_chem_comp_synonyms.name IB-CO6
_pdbe_chem_comp_synonyms.provenance wwPDB
_pdbe_chem_comp_synonyms.type ?
#
loop_
_software.name
_software.version
_software.description
rdkit 2023.03.3 'Core functionality.'
pdbeccdutils 0.8.4 'Wrapper to provide 2D templates and molecular fragments.'
#
loop_
_pdbe_chem_comp_atom_depiction.comp_id
_pdbe_chem_comp_atom_depiction.atom_id
_pdbe_chem_comp_atom_depiction.element
_pdbe_chem_comp_atom_depiction.model_Cartn_x
_pdbe_chem_comp_atom_depiction.model_Cartn_y
_pdbe_chem_comp_atom_depiction.pdbx_ordinal
CO6 N1A N 19.256 -10.813 1
CO6 C2A C 19.256 -9.313 2
CO6 N3A N 20.555 -8.563 3
CO6 C4A C 21.855 -9.313 4
CO6 C5A C 21.855 -10.813 5
CO6 C6A C 20.555 -11.563 6
CO6 N6A N 20.555 -13.063 7
CO6 N7A N 23.274 -11.270 8
CO6 C8A C 24.149 -10.063 9
CO6 N9A N 23.274 -8.856 10
CO6 C1B C 23.740 -7.430 11
CO6 C2B C 25.167 -6.969 12
CO6 O2B O 26.379 -7.853 13
CO6 C3B C 25.170 -5.469 14
CO6 O3B O 26.385 -4.589 15
CO6 P3B P 26.231 -3.097 16
CO6 O7A O 26.076 -1.605 17
CO6 O8A O 27.723 -2.943 18
CO6 O9A O 24.739 -3.252 19
CO6 C4B C 23.744 -5.003 20
CO6 O4B O 22.860 -6.215 21
CO6 C5B C 23.283 -3.576 22
CO6 O5B O 21.816 -3.261 23
CO6 P1A P 21.355 -1.834 24
CO6 O1A O 19.928 -2.295 25
CO6 O2A O 22.783 -1.373 26
CO6 O3A O 20.894 -0.406 27
CO6 P2A P 19.428 -0.092 28
CO6 O4A O 19.742 1.375 29
CO6 O5A O 19.113 -1.559 30
CO6 O6A O 17.961 0.222 31
CO6 CBP C 16.033 1.964 32
CO6 CCP C 17.500 1.650 33
CO6 CDP C 16.348 3.431 34
CO6 CEP C 15.719 0.497 35
CO6 CAP C 14.566 2.279 36
CO6 OAP O 13.561 1.166 37
CO6 C9P C 14.105 3.706 38
CO6 O9P O 15.111 4.819 39
CO6 N8P N 12.639 4.020 40
CO6 C7P C 12.178 5.448 41
CO6 C6P C 10.711 5.762 42
CO6 C5P C 10.250 7.189 43
CO6 O5P O 11.255 8.303 44
CO6 N4P N 8.783 7.504 45
CO6 C3P C 8.322 8.931 46
CO6 C2P C 6.855 9.246 47
CO6 S1P S 6.394 10.673 48
CO6 O1 O 3.922 9.874 49
CO6 C1 C 4.928 10.988 50
CO6 C2 C 3.000 12.729 51
CO6 C3 C 4.467 12.415 52
CO6 C4 C 5.472 13.528 53
#
loop_
_pdbe_chem_comp_bond_depiction.comp_id
_pdbe_chem_comp_bond_depiction.atom_id_1
_pdbe_chem_comp_bond_depiction.atom_id_2
_pdbe_chem_comp_bond_depiction.value_order
_pdbe_chem_comp_bond_depiction.bond_dir
_pdbe_chem_comp_bond_depiction.pdbx_ordinal
CO6 N1A C2A DOUBLE NONE 1
CO6 N1A C6A SINGLE NONE 2
CO6 C2A N3A SINGLE NONE 3
CO6 N3A C4A DOUBLE NONE 4
CO6 C4A C5A SINGLE NONE 5
CO6 C4A N9A SINGLE NONE 6
CO6 C5A C6A DOUBLE NONE 7
CO6 C5A N7A SINGLE NONE 8
CO6 C6A N6A SINGLE NONE 9
CO6 N7A C8A DOUBLE NONE 10
CO6 C8A N9A SINGLE NONE 11
CO6 C1B N9A SINGLE BEGINDASH 12
CO6 C1B C2B SINGLE NONE 13
CO6 C1B O4B SINGLE NONE 14
CO6 C2B C3B SINGLE NONE 15
CO6 C2B O2B SINGLE BEGINWEDGE 16
CO6 C3B C4B SINGLE NONE 17
CO6 C3B O3B SINGLE BEGINWEDGE 18
CO6 O3B P3B SINGLE NONE 19
CO6 P3B O7A DOUBLE NONE 20
CO6 P3B O8A SINGLE NONE 21
CO6 P3B O9A SINGLE NONE 22
CO6 C4B C5B SINGLE BEGINDASH 23
CO6 C4B O4B SINGLE NONE 24
CO6 C5B O5B SINGLE NONE 25
CO6 O5B P1A SINGLE NONE 26
CO6 P1A O1A DOUBLE NONE 27
CO6 P1A O2A SINGLE BEGINWEDGE 28
CO6 P1A O3A SINGLE NONE 29
CO6 O3A P2A SINGLE NONE 30
CO6 P2A O4A DOUBLE NONE 31
CO6 P2A O5A SINGLE BEGINDASH 32
CO6 P2A O6A SINGLE NONE 33
CO6 O6A CCP SINGLE NONE 34
CO6 CBP CAP SINGLE NONE 35
CO6 CBP CCP SINGLE NONE 36
CO6 CBP CDP SINGLE NONE 37
CO6 CBP CEP SINGLE NONE 38
CO6 CAP C9P SINGLE NONE 39
CO6 CAP OAP SINGLE BEGINWEDGE 40
CO6 C9P O9P DOUBLE NONE 41
CO6 C9P N8P SINGLE NONE 42
CO6 N8P C7P SINGLE NONE 43
CO6 C7P C6P SINGLE NONE 44
CO6 C6P C5P SINGLE NONE 45
CO6 C5P N4P SINGLE NONE 46
CO6 C5P O5P DOUBLE NONE 47
CO6 N4P C3P SINGLE NONE 48
CO6 C3P C2P SINGLE NONE 49
CO6 C2P S1P SINGLE NONE 50
CO6 S1P C1 SINGLE NONE 51
CO6 O1 C1 DOUBLE NONE 52
CO6 C1 C3 SINGLE NONE 53
CO6 C2 C3 SINGLE NONE 54
CO6 C3 C4 SINGLE NONE 55
#
loop_
_pdbe_chem_comp_substructure.comp_id
_pdbe_chem_comp_substructure.substructure_name
_pdbe_chem_comp_substructure.id
_pdbe_chem_comp_substructure.substructure_type
_pdbe_chem_comp_substructure.substructure_smiles
_pdbe_chem_comp_substructure.substructure_inchis
_pdbe_chem_comp_substructure.substructure_inchikeys
CO6 MurckoScaffold S1 scaffold 'c1ncc2ncn([C@H]3CCCO3)c2n1' InChI=1S/C9H10N4O/c1-2-8(14-3-1)13-6-12-7-4-10-5-11-9(7)13/h4-6,8H,1-3H2/t8-/m1/s1 DAKONNSVCLKUJN-MRVPVSSYSA-N
CO6 adenine F1 fragment 'Nc1ncnc2nc[nH]c12' InChI=1S/C5H5N5/c6-4-3-5(9-1-7-3)10-2-8-4/h1-2H,(H3,6,7,8,9,10) GFFGJBXGBJISGV-UHFFFAOYSA-N
CO6 amide F2 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
CO6 imidazole F3 fragment 'c1c[nH]cn1' InChI=1S/C3H4N2/c1-2-5-3-4-1/h1-3H,(H,4,5) RAXXELZNTBOGNW-UHFFFAOYSA-N
CO6 phosphate F4 fragment O=P(O)(O)O InChI=1S/H3O4P/c1-5(2,3)4/h(H3,1,2,3,4) NBIIXXVUZAFLBC-UHFFFAOYSA-N
CO6 purine F5 fragment 'c1ncc2[nH]cnc2n1' InChI=1S/C5H4N4/c1-4-5(8-2-6-1)9-3-7-4/h1-3H,(H,6,7,8,9) KDCGOANMDULRCW-UHFFFAOYSA-N
CO6 pyrimidine F6 fragment c1cncnc1 InChI=1S/C4H4N2/c1-2-5-4-6-3-1/h1-4H CZPWVGJYEJSRLH-UHFFFAOYSA-N
CO6 ribose F7 fragment OCC1OCC(O)C1O InChI=1S/C5H10O4/c6-1-4-5(8)3(7)2-9-4/h3-8H,1-2H2 KZVAAIRBJJYZOW-UHFFFAOYSA-N
#
loop_
_pdbe_chem_comp_substructure_mapping.comp_id
_pdbe_chem_comp_substructure_mapping.atom_id
_pdbe_chem_comp_substructure_mapping.substructure_id
_pdbe_chem_comp_substructure_mapping.substructure_ordinal
CO6 N1A S1 1
CO6 C2A S1 1
CO6 N3A S1 1
CO6 C4A S1 1
CO6 C5A S1 1
CO6 C6A S1 1
CO6 N7A S1 1
CO6 C8A S1 1
CO6 N9A S1 1
CO6 C1B S1 1
CO6 C2B S1 1
CO6 C3B S1 1
CO6 C4B S1 1
CO6 O4B S1 1
CO6 N1A F1 1
CO6 C6A F1 1
CO6 C5A F1 1
CO6 C4A F1 1
CO6 N3A F1 1
CO6 C2A F1 1
CO6 N9A F1 1
CO6 C8A F1 1
CO6 N7A F1 1
CO6 N6A F1 1
CO6 N8P F2 1
CO6 C9P F2 1
CO6 O9P F2 1
CO6 CAP F2 1
CO6 N4P F2 2
CO6 C5P F2 2
CO6 O5P F2 2
CO6 C6P F2 2
CO6 C4A F3 1
CO6 C5A F3 1
CO6 N7A F3 1
CO6 C8A F3 1
CO6 N9A F3 1
CO6 O3B F4 1
CO6 P3B F4 1
CO6 O7A F4 1
CO6 O8A F4 1
CO6 O9A F4 1
CO6 O5B F4 2
CO6 P1A F4 2
CO6 O1A F4 2
CO6 O2A F4 2
CO6 O3A F4 2
CO6 O3A F4 3
CO6 P2A F4 3
CO6 O4A F4 3
CO6 O5A F4 3
CO6 O6A F4 3
CO6 N7A F5 1
CO6 C8A F5 1
CO6 N9A F5 1
CO6 C4A F5 1
CO6 C5A F5 1
CO6 C6A F5 1
CO6 N1A F5 1
CO6 C2A F5 1
CO6 N3A F5 1
CO6 C5A F6 1
CO6 C4A F6 1
CO6 N3A F6 1
CO6 C2A F6 1
CO6 N1A F6 1
CO6 C6A F6 1
CO6 C2B F7 1
CO6 C3B F7 1
CO6 C4B F7 1
CO6 O4B F7 1
CO6 C1B F7 1
CO6 C5B F7 1
CO6 O5B F7 1
CO6 O3B F7 1
CO6 O2B F7 1
#
_pdbe_chem_comp_rdkit_properties.comp_id CO6
_pdbe_chem_comp_rdkit_properties.exactmw 837.157
_pdbe_chem_comp_rdkit_properties.amw 837.632
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 24
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 10
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 31
_pdbe_chem_comp_rdkit_properties.NumHBD 9
_pdbe_chem_comp_rdkit_properties.NumHBA 23
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 53
_pdbe_chem_comp_rdkit_properties.NumAtoms 95
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 28
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 2
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.680
_pdbe_chem_comp_rdkit_properties.NumRings 3
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 2
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 1
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 1
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 3
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 0
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 7
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 365.274
_pdbe_chem_comp_rdkit_properties.tpsa 363.630
_pdbe_chem_comp_rdkit_properties.CrippenClogP -1.488
_pdbe_chem_comp_rdkit_properties.CrippenMR 178.906
_pdbe_chem_comp_rdkit_properties.chi0v 27.820
_pdbe_chem_comp_rdkit_properties.chi1v 17.219
_pdbe_chem_comp_rdkit_properties.chi2v 7.806
_pdbe_chem_comp_rdkit_properties.chi3v 7.806
_pdbe_chem_comp_rdkit_properties.chi4v 5.018
_pdbe_chem_comp_rdkit_properties.chi0n 66.321
_pdbe_chem_comp_rdkit_properties.chi1n 32.259
_pdbe_chem_comp_rdkit_properties.chi2n 4.587
_pdbe_chem_comp_rdkit_properties.chi3n 4.587
_pdbe_chem_comp_rdkit_properties.chi4n 2.653
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -2.440
_pdbe_chem_comp_rdkit_properties.kappa1 13.888
_pdbe_chem_comp_rdkit_properties.kappa2 18.463
_pdbe_chem_comp_rdkit_properties.kappa3 13.372
_pdbe_chem_comp_rdkit_properties.Phi 4.838
#
loop_
_pdbe_chem_comp_external_mappings.comp_id
_pdbe_chem_comp_external_mappings.source
_pdbe_chem_comp_external_mappings.resource
_pdbe_chem_comp_external_mappings.resource_id
CO6 UniChem PDBe CO6
CO6 UniChem ChEBI 15479
CO6 UniChem SureChEMBL SCHEMBL59684
CO6 UniChem HMDB HMDB0001243
CO6 UniChem PubChem 3036931
CO6 UniChem NMRShiftDB 60021176
CO6 UniChem LipidMaps LMFA07050331
CO6 UniChem MetaboLights MTBLC15479
CO6 UniChem BRENDA 109809
CO6 UniChem BRENDA 15797
CO6 UniChem BRENDA 22158
CO6 UniChem BRENDA 45121
CO6 UniChem BRENDA 6432
CO6 UniChem BRENDA 842
CO6 UniChem 'Probes And Drugs' PD069856
CO6 UniChem Nikkaji J721.070A
#
loop_
_pdbe_chem_comp_rdkit_conformer.comp_id
_pdbe_chem_comp_rdkit_conformer.atom_id
_pdbe_chem_comp_rdkit_conformer.Cartn_x_rdkit
_pdbe_chem_comp_rdkit_conformer.Cartn_y_rdkit
_pdbe_chem_comp_rdkit_conformer.Cartn_z_rdkit
_pdbe_chem_comp_rdkit_conformer.rdkit_method
_pdbe_chem_comp_rdkit_conformer.rdkit_ordinal
CO6 N1A -11.962 -1.310 1.632 ETKDGv3 1
CO6 C2A -11.616 -1.415 0.369 ETKDGv3 2
CO6 N3A -10.219 -1.471 -0.007 ETKDGv3 3
CO6 C4A -9.342 -1.461 0.950 ETKDGv3 4
CO6 C5A -9.689 -1.342 2.317 ETKDGv3 5
CO6 C6A -10.967 -1.251 2.681 ETKDGv3 6
CO6 N6A -11.354 -1.074 4.044 ETKDGv3 7
CO6 N7A -8.502 -1.204 3.086 ETKDGv3 8
CO6 C8A -7.525 -1.247 2.218 ETKDGv3 9
CO6 N9A -7.934 -1.423 0.844 ETKDGv3 10
CO6 C1B -7.155 -1.090 -0.347 ETKDGv3 11
CO6 C2B -7.071 0.418 -0.543 ETKDGv3 12
CO6 O2B -8.117 0.898 -1.347 ETKDGv3 13
CO6 C3B -5.732 0.587 -1.214 ETKDGv3 14
CO6 O3B -5.882 0.446 -2.616 ETKDGv3 15
CO6 P3B -4.720 1.405 -3.422 ETKDGv3 16
CO6 O7A -5.026 2.870 -3.201 ETKDGv3 17
CO6 O8A -4.791 1.076 -5.080 ETKDGv3 18
CO6 O9A -3.162 1.066 -2.854 ETKDGv3 19
CO6 C4B -4.944 -0.606 -0.653 ETKDGv3 20
CO6 O4B -5.848 -1.603 -0.221 ETKDGv3 21
CO6 C5B -4.045 -0.205 0.523 ETKDGv3 22
CO6 O5B -3.067 0.705 0.077 ETKDGv3 23
CO6 P1A -1.993 1.014 1.364 ETKDGv3 24
CO6 O1A -1.013 2.086 0.944 ETKDGv3 25
CO6 O2A -2.861 1.579 2.703 ETKDGv3 26
CO6 O3A -1.165 -0.406 1.815 ETKDGv3 27
CO6 P2A -0.218 -0.900 0.487 ETKDGv3 28
CO6 O4A 0.404 -2.240 0.809 ETKDGv3 29
CO6 O5A -1.180 -1.082 -0.894 ETKDGv3 30
CO6 O6A 1.012 0.238 0.164 ETKDGv3 31
CO6 CBP 2.974 1.378 1.063 ETKDGv3 32
CO6 CCP 1.831 0.354 1.307 ETKDGv3 33
CO6 CDP 3.763 1.520 2.387 ETKDGv3 34
CO6 CEP 2.365 2.753 0.703 ETKDGv3 35
CO6 CAP 3.918 0.860 -0.075 ETKDGv3 36
CO6 OAP 3.206 0.732 -1.282 ETKDGv3 37
CO6 C9P 5.129 1.743 -0.290 ETKDGv3 38
CO6 O9P 6.169 1.534 0.392 ETKDGv3 39
CO6 N8P 5.098 2.818 -1.243 ETKDGv3 40
CO6 C7P 6.289 3.589 -1.598 ETKDGv3 41
CO6 C6P 6.965 3.009 -2.844 ETKDGv3 42
CO6 C5P 7.499 1.627 -2.595 ETKDGv3 43
CO6 O5P 8.499 1.478 -1.841 ETKDGv3 44
CO6 N4P 6.872 0.487 -3.200 ETKDGv3 45
CO6 C3P 7.293 -0.884 -2.916 ETKDGv3 46
CO6 C2P 6.740 -1.337 -1.569 ETKDGv3 47
CO6 S1P 7.254 -3.050 -1.215 ETKDGv3 48
CO6 O1 4.943 -3.548 -0.085 ETKDGv3 49
CO6 C1 6.105 -3.260 0.158 ETKDGv3 50
CO6 C2 7.626 -4.186 1.917 ETKDGv3 51
CO6 C3 6.557 -3.138 1.596 ETKDGv3 52
CO6 C4 7.063 -1.727 1.905 ETKDGv3 53
CO6 H2 -12.379 -1.451 -0.395 ETKDGv3 54
CO6 HN61 -12.365 -0.996 4.293 ETKDGv3 55
CO6 HN62 -10.642 -1.024 4.807 ETKDGv3 56
CO6 H8 -6.490 -1.136 2.513 ETKDGv3 57
CO6 "H1'" -7.627 -1.563 -1.237 ETKDGv3 58
CO6 "H2'" -7.055 0.947 0.441 ETKDGv3 59
CO6 H1 -8.911 0.980 -0.758 ETKDGv3 60
CO6 "H3'" -5.310 1.575 -0.907 ETKDGv3 61
CO6 HO8 -4.689 0.094 -5.147 ETKDGv3 62
CO6 HO9 -2.963 0.154 -3.184 ETKDGv3 63
CO6 "H4'" -4.297 -1.044 -1.445 ETKDGv3 64
CO6 "H5'1" -4.674 0.255 1.318 ETKDGv3 65
CO6 "H5'2" -3.574 -1.133 0.920 ETKDGv3 66
CO6 HO2 -3.361 2.365 2.367 ETKDGv3 67
CO6 HO5 -0.536 -1.215 -1.635 ETKDGv3 68
CO6 H121 2.288 -0.631 1.561 ETKDGv3 69
CO6 H122 1.224 0.694 2.178 ETKDGv3 70
CO6 H131 3.085 1.797 3.223 ETKDGv3 71
CO6 H132 4.535 2.316 2.314 ETKDGv3 72
CO6 H133 4.266 0.564 2.649 ETKDGv3 73
CO6 H141 1.814 2.707 -0.261 ETKDGv3 74
CO6 H142 1.656 3.083 1.492 ETKDGv3 75
CO6 H143 3.156 3.527 0.614 ETKDGv3 76
CO6 H10 4.286 -0.149 0.225 ETKDGv3 77
CO6 H3 3.757 0.174 -1.890 ETKDGv3 78
CO6 HN8 4.222 3.000 -1.783 ETKDGv3 79
CO6 H71 5.984 4.635 -1.814 ETKDGv3 80
CO6 H72 7.006 3.627 -0.749 ETKDGv3 81
CO6 H61 6.240 2.998 -3.686 ETKDGv3 82
CO6 H62 7.808 3.670 -3.139 ETKDGv3 83
CO6 HN4 6.096 0.634 -3.884 ETKDGv3 84
CO6 H31 8.403 -0.951 -2.925 ETKDGv3 85
CO6 H32 6.902 -1.556 -3.711 ETKDGv3 86
CO6 H21 5.632 -1.282 -1.599 ETKDGv3 87
CO6 H22 7.118 -0.670 -0.769 ETKDGv3 88
CO6 H11 8.545 -4.013 1.317 ETKDGv3 89
CO6 H12 7.240 -5.205 1.699 ETKDGv3 90
CO6 H13 7.892 -4.140 2.995 ETKDGv3 91
CO6 H4 5.684 -3.332 2.260 ETKDGv3 92
CO6 H41 7.986 -1.501 1.330 ETKDGv3 93
CO6 H42 6.282 -0.978 1.654 ETKDGv3 94
CO6 H43 7.292 -1.635 2.988 ETKDGv3 95
#