data_NBP
#
_chem_comp.id NBP
_chem_comp.name "NICOTINAMIDE 8-BROMO-ADENINE DINUCLEOTIDE PHOSPHATE"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C21 H27 Br N7 O17 P3"
_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 2011-06-04
_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 822.301
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code NBP
_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 1PGN
_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
NBP PA AP P 0 1 N N S N N N 24.672 19.412 45.989 0.456 0.834 0.271 PA NBP 1
NBP O1A AO1 O 0 1 N N N N N N 26.009 19.127 45.400 0.058 0.085 1.484 O1A NBP 2
NBP O2A AO2 O 0 1 N N N N N N 24.615 19.645 47.465 1.043 2.272 0.696 O2A NBP 3
NBP O5B AO5* O 0 1 N N N N N N 23.666 18.197 45.645 -0.828 1.039 -0.678 O5B NBP 4
NBP C5B AC5* C 0 1 N N N N N N 22.936 17.610 46.740 -1.833 1.671 0.117 C5B NBP 5
NBP C4B AC4* C 0 1 N N R N N N 22.378 16.239 46.379 -3.088 1.895 -0.730 C4B NBP 6
NBP O4B AO4* O 0 1 N N N N N N 23.347 15.425 45.675 -3.674 0.630 -1.079 O4B NBP 7
NBP C3B AC3* C 0 1 N N R N N N 21.990 15.487 47.642 -4.135 2.681 0.083 C3B NBP 8
NBP O3B AO3* O 0 1 N N N N N N 20.666 14.949 47.545 -4.453 3.917 -0.561 O3B NBP 9
NBP C2B AC2* C 0 1 N N R N N N 23.008 14.362 47.653 -5.373 1.746 0.105 C2B NBP 10
NBP O2B AO2* O 0 1 N N N N N N 22.543 13.246 48.394 -6.578 2.493 -0.077 O2B NBP 11
NBP C1B AC1* C 0 1 N N R N N N 23.206 14.093 46.179 -5.105 0.824 -1.112 C1B NBP 12
NBP N9A AN9 N 0 1 Y N N N N N 24.399 13.291 45.837 -5.802 -0.455 -0.957 N9A NBP 13
NBP C8A AC8 C 0 1 Y N N N N N 25.665 13.663 46.024 -5.490 -1.442 -0.069 C8A NBP 14
NBP BR8 BR8 BR 0 0 N N N N N N 26.199 15.309 46.747 -4.068 -1.373 1.175 BR8 NBP 15
NBP N7A AN7 N 0 1 Y N N N N N 26.503 12.691 45.627 -6.318 -2.439 -0.204 N7A NBP 16
NBP C5A AC5 C 0 1 Y N N N N N 25.705 11.731 45.208 -7.209 -2.156 -1.184 C5A NBP 17
NBP C6A AC6 C 0 1 Y N N N N N 26.152 10.477 44.775 -8.300 -2.833 -1.753 C6A NBP 18
NBP N6A AN6 N 0 1 N N N N N N 27.458 10.191 44.724 -8.663 -4.092 -1.306 N6A NBP 19
NBP N1A AN1 N 0 1 Y N N N N N 25.199 9.584 44.448 -8.977 -2.238 -2.730 N1A NBP 20
NBP C2A AC2 C 0 1 Y N N N N N 23.901 9.915 44.537 -8.638 -1.037 -3.162 C2A NBP 21
NBP N3A AN3 N 0 1 Y N N N N N 23.480 11.123 44.965 -7.624 -0.365 -2.659 N3A NBP 22
NBP C4A AC4 C 0 1 Y N N N N N 24.378 12.050 45.316 -6.893 -0.878 -1.676 C4A NBP 23
NBP O3 O3 O 0 1 N N N N N N 23.970 20.605 45.180 1.585 0.007 -0.524 O3 NBP 24
NBP PN NP P 0 1 N N N N N N 22.727 21.573 45.519 2.573 -0.616 0.584 PN NBP 25
NBP O1N NO1 O 0 1 N N N N N N 22.917 22.771 44.653 1.934 -1.886 1.187 O1N NBP 26
NBP O2N NO2 O -1 1 N N N N N N 22.635 21.750 46.999 2.811 0.422 1.703 O2N NBP 27
NBP O5D NO5* O 0 1 N N N N N N 21.443 20.712 45.020 3.978 -0.996 -0.103 O5D NBP 28
NBP C5D NC5* C 0 1 N N N N N N 21.452 20.032 43.749 4.847 -1.430 0.945 C5D NBP 29
NBP C4D NC4* C 0 1 N N R N N N 20.933 20.895 42.599 6.207 -1.809 0.357 C4D NBP 30
NBP O4D NO4* O 0 1 N N N N N N 19.940 21.872 43.019 6.869 -0.639 -0.174 O4D NBP 31
NBP C3D NC3* C 0 1 N N S N N N 22.018 21.694 41.885 7.150 -2.326 1.466 C3D NBP 32
NBP O3D NO3* O 0 1 N N N N N N 22.693 20.955 40.855 7.163 -3.755 1.485 O3D NBP 33
NBP C2D NC2* C 0 1 N N R N N N 21.153 22.749 41.196 8.540 -1.776 1.065 C2D NBP 34
NBP O2D NO2* O 0 1 N N N N N N 20.468 22.217 40.042 9.453 -2.849 0.828 O2D NBP 35
NBP C1D NC1* C 0 1 N N R N N N 20.123 23.101 42.256 8.269 -0.989 -0.236 C1D NBP 36
NBP N1N NN1 N 1 1 Y N N N N N 20.449 24.331 43.033 9.095 0.219 -0.283 N1N NBP 37
NBP C2N NC2 C 0 1 Y N N N N N 20.147 24.381 44.417 10.178 0.225 -1.032 C2N NBP 38
NBP C3N NC3 C 0 1 Y N N N N N 20.145 25.579 45.125 10.992 1.357 -1.094 C3N NBP 39
NBP C7N NC7 C 0 1 N N N N N N 19.764 25.585 46.613 12.211 1.361 -1.929 C7N NBP 40
NBP O7N NO7 O 0 1 N N N N N N 19.078 24.681 47.126 12.515 0.371 -2.566 O7N NBP 41
NBP N7N NN7 N 0 1 N N N N N N 20.198 26.611 47.333 12.986 2.463 -1.985 N7N NBP 42
NBP C4N NC4 C 0 1 Y N N N N N 20.471 26.763 44.437 10.630 2.491 -0.356 C4N NBP 43
NBP C5N NC5 C 0 1 Y N N N N N 20.812 26.738 43.078 9.479 2.436 0.410 C5N NBP 44
NBP C6N NC6 C 0 1 Y N N N N N 20.806 25.532 42.374 8.730 1.273 0.423 C6N NBP 45
NBP P2B AP2* P 0 1 N N N N N N 23.037 13.231 49.932 -7.559 2.096 1.136 P2B NBP 46
NBP O1X AOP1 O 0 1 N N N N N N 24.515 13.170 49.823 -6.869 2.329 2.425 O1X NBP 47
NBP O2X AOP2 O 0 1 N N N N N N 22.344 12.023 50.468 -8.889 3.000 1.068 O2X NBP 48
NBP O3X AOP3 O 0 1 N N N N N N 22.559 14.513 50.509 -7.959 0.541 1.016 O3X NBP 49
NBP HOA2 2HOA H 0 0 N N N N N N 23.761 19.826 47.840 1.290 2.726 -0.121 HOA2 NBP 50
NBP H51A AH51 H 0 0 N N N N N N 23.558 17.564 47.664 -2.078 1.034 0.967 H51A NBP 51
NBP H52A AH52 H 0 0 N N N N N N 22.132 18.292 47.103 -1.462 2.630 0.477 H52A NBP 52
NBP H4B AH4* H 0 1 N N N N N N 21.495 16.416 45.721 -2.830 2.447 -1.634 H4B NBP 53
NBP H3B AH3* H 0 1 N N N N N N 21.988 16.125 48.556 -3.775 2.861 1.096 H3B NBP 54
NBP HO3A AHO3 H 0 0 N N N N N N 20.423 14.479 48.334 -3.649 4.455 -0.545 HO3A NBP 55
NBP H2B AH2* H 0 1 N N N N N N 23.968 14.609 48.162 -5.410 1.170 1.029 H2B NBP 56
NBP H1B AH1* H 0 1 N N N N N N 22.372 13.484 45.757 -5.405 1.314 -2.038 H1B NBP 57
NBP H61A AH61 H 0 0 N N N N N N 27.783 9.277 44.408 -8.162 -4.517 -0.593 H61A NBP 58
NBP H62A AH62 H 0 0 N N N N N N 27.857 10.368 45.645 -9.418 -4.550 -1.707 H62A NBP 59
NBP H2A AH2 H 0 1 N N N N N N 23.148 9.162 44.246 -9.215 -0.589 -3.958 H2A NBP 60
NBP H51N NH51 H 0 0 N N N N N N 22.468 19.634 43.519 4.412 -2.297 1.442 H51N NBP 61
NBP H52N NH52 H 0 0 N N N N N N 20.888 19.071 43.809 4.975 -0.624 1.668 H52N NBP 62
NBP H4D NH4* H 0 1 N N N N N N 20.490 20.137 41.911 6.087 -2.562 -0.421 H4D NBP 63
NBP H3D NH3* H 0 1 N N N N N N 22.819 22.039 42.579 6.849 -1.935 2.437 H3D NBP 64
NBP HO3N NHO3 H 0 0 N N N N N N 23.368 21.452 40.410 7.766 -4.019 2.194 HO3N NBP 65
NBP H2D NH2* H 0 1 N N N N N N 21.762 23.609 40.833 8.925 -1.112 1.839 H2D NBP 66
NBP HO2N NHO2 H 0 0 N N N N N N 19.930 22.872 39.613 9.534 -3.337 1.659 HO2N NBP 67
NBP H1D NH1* H 0 1 N N N N N N 19.147 23.416 41.817 8.465 -1.616 -1.106 H1D NBP 68
NBP H2N NH2 H 0 1 N N N N N N 19.904 23.453 44.963 10.444 -0.657 -1.595 H2N NBP 69
NBP H71N NH71 H 0 0 N N N N N N 20.759 27.351 46.912 13.786 2.466 -2.534 H71N NBP 70
NBP H72N NH72 H 0 0 N N N N N N 19.945 26.615 48.321 12.741 3.254 -1.481 H72N NBP 71
NBP H4N NH4 H 0 1 N N N N N N 20.459 27.727 44.972 11.234 3.386 -0.384 H4N NBP 72
NBP H5N NH5 H 0 1 N N N N N N 21.086 27.672 42.559 9.170 3.291 0.993 H5N NBP 73
NBP H6N NH6 H 0 1 N N N N N N 21.081 25.528 41.305 7.831 1.227 1.020 H6N NBP 74
NBP HOP2 2HOP H 0 0 N N N N N N 22.634 12.014 51.372 -9.448 2.731 1.811 HOP2 NBP 75
NBP HOP3 3HOP H 0 0 N N N N N N 22.849 14.504 51.413 -8.405 0.432 0.165 HOP3 NBP 76
#
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
NBP PA O1A DOUB N N 1
NBP PA O2A SING N N 2
NBP PA O5B SING N N 3
NBP PA O3 SING N N 4
NBP O2A HOA2 SING N N 5
NBP O5B C5B SING N N 6
NBP C5B C4B SING N N 7
NBP C5B H51A SING N N 8
NBP C5B H52A SING N N 9
NBP C4B O4B SING N N 10
NBP C4B C3B SING N N 11
NBP C4B H4B SING N N 12
NBP O4B C1B SING N N 13
NBP C3B O3B SING N N 14
NBP C3B C2B SING N N 15
NBP C3B H3B SING N N 16
NBP O3B HO3A SING N N 17
NBP C2B O2B SING N N 18
NBP C2B C1B SING N N 19
NBP C2B H2B SING N N 20
NBP O2B P2B SING N N 21
NBP C1B N9A SING N N 22
NBP C1B H1B SING N N 23
NBP N9A C8A SING Y N 24
NBP N9A C4A SING Y N 25
NBP C8A BR8 SING N N 26
NBP C8A N7A DOUB Y N 27
NBP N7A C5A SING Y N 28
NBP C5A C6A SING Y N 29
NBP C5A C4A DOUB Y N 30
NBP C6A N6A SING N N 31
NBP C6A N1A DOUB Y N 32
NBP N6A H61A SING N N 33
NBP N6A H62A SING N N 34
NBP N1A C2A SING Y N 35
NBP C2A N3A DOUB Y N 36
NBP C2A H2A SING N N 37
NBP N3A C4A SING Y N 38
NBP O3 PN SING N N 39
NBP PN O1N DOUB N N 40
NBP PN O2N SING N N 41
NBP PN O5D SING N N 42
NBP O5D C5D SING N N 43
NBP C5D C4D SING N N 44
NBP C5D H51N SING N N 45
NBP C5D H52N SING N N 46
NBP C4D O4D SING N N 47
NBP C4D C3D SING N N 48
NBP C4D H4D SING N N 49
NBP O4D C1D SING N N 50
NBP C3D O3D SING N N 51
NBP C3D C2D SING N N 52
NBP C3D H3D SING N N 53
NBP O3D HO3N SING N N 54
NBP C2D O2D SING N N 55
NBP C2D C1D SING N N 56
NBP C2D H2D SING N N 57
NBP O2D HO2N SING N N 58
NBP C1D N1N SING N N 59
NBP C1D H1D SING N N 60
NBP N1N C2N SING Y N 61
NBP N1N C6N DOUB Y N 62
NBP C2N C3N DOUB Y N 63
NBP C2N H2N SING N N 64
NBP C3N C7N SING N N 65
NBP C3N C4N SING Y N 66
NBP C7N O7N DOUB N N 67
NBP C7N N7N SING N N 68
NBP N7N H71N SING N N 69
NBP N7N H72N SING N N 70
NBP C4N C5N DOUB Y N 71
NBP C4N H4N SING N N 72
NBP C5N C6N SING Y N 73
NBP C5N H5N SING N N 74
NBP C6N H6N SING N N 75
NBP P2B O1X DOUB N N 76
NBP P2B O2X SING N N 77
NBP P2B O3X SING N N 78
NBP O2X HOP2 SING N N 79
NBP O3X HOP3 SING N N 80
#
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
NBP SMILES_CANONICAL CACTVS 3.341 NC(=O)c1ccc[n+](c1)[C@@H]2O[C@H](CO[P]([O-])(=O)O[P@](O)(=O)OC[C@H]3O[C@H]([C@H](O[P](O)(O)=O)[C@@H]3O)n4c(Br)nc5c(N)ncnc45)[C@@H](O)[C@H]2O
NBP SMILES CACTVS 3.341 NC(=O)c1ccc[n+](c1)[CH]2O[CH](CO[P]([O-])(=O)O[P](O)(=O)OC[CH]3O[CH]([CH](O[P](O)(O)=O)[CH]3O)n4c(Br)nc5c(N)ncnc45)[CH](O)[CH]2O
NBP SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 c1cc(c[n+](c1)[C@H]2[C@@H]([C@@H]([C@H](O2)CO[P@@](=O)([O-])O[P@@](=O)(O)OC[C@@H]3[C@H]([C@H]([C@@H](O3)n4c5c(c(ncn5)N)nc4Br)OP(=O)(O)O)O)O)O)C(=O)N
NBP SMILES "OpenEye OEToolkits" 1.5.0 c1cc(c[n+](c1)C2C(C(C(O2)COP(=O)([O-])OP(=O)(O)OCC3C(C(C(O3)n4c5c(c(ncn5)N)nc4Br)OP(=O)(O)O)O)O)O)C(=O)N
NBP InChI InChI 1.03 InChI=1S/C21H27BrN7O17P3/c22-21-27-11-16(23)25-7-26-18(11)29(21)20-15(45-47(34,35)36)13(31)10(44-20)6-42-49(39,40)46-48(37,38)41-5-9-12(30)14(32)19(43-9)28-3-1-2-8(4-28)17(24)33/h1-4,7,9-10,12-15,19-20,30-32H,5-6H2,(H7-,23,24,25,26,33,34,35,36,37,38,39,40)/t9-,10-,12-,13-,14-,15-,19-,20-/m1/s1
NBP InChIKey InChI 1.03 MDKMTCCUJSRQGW-NAJQWHGHSA-N
#
_pdbx_chem_comp_identifier.comp_id NBP
_pdbx_chem_comp_identifier.type "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version 1.5.0
_pdbx_chem_comp_identifier.identifier
"[[(2R,3R,4R,5R)-5-(6-amino-8-bromo-purin-9-yl)-3-hydroxy-4-phosphonooxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl] [(2R,3S,4R,5R)-5-(3-aminocarbonylpyridin-1-ium-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl 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
NBP 'Create component' 1999-07-08 RCSB
NBP 'Modify descriptor' 2011-06-04 RCSB
#
_pdbe_chem_comp_drugbank_details.comp_id NBP
_pdbe_chem_comp_drugbank_details.drugbank_id DB03962
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name 'Nicotinamide 8-bromo-adenine dinucleotide phosphate'
_pdbe_chem_comp_drugbank_details.description ?
_pdbe_chem_comp_drugbank_details.cas_number ?
_pdbe_chem_comp_drugbank_details.mechanism_of_action ?
#
_pdbe_chem_comp_drugbank_classification.comp_id NBP
_pdbe_chem_comp_drugbank_classification.drugbank_id DB03962
_pdbe_chem_comp_drugbank_classification.parent "(5'->5')-dinucleotides"
_pdbe_chem_comp_drugbank_classification.kingdom 'Organic compounds'
_pdbe_chem_comp_drugbank_classification.class "(5'->5')-dinucleotides"
_pdbe_chem_comp_drugbank_classification.superclass 'Nucleosides, nucleotides, and analogues'
_pdbe_chem_comp_drugbank_classification.description
"This compound belongs to the class of organic compounds known as (5'->5')-dinucleotides. These are dinucleotides where the two bases are connected via a (5'->5')-phosphodiester linkage."
#
_pdbe_chem_comp_drugbank_targets.comp_id NBP
_pdbe_chem_comp_drugbank_targets.drugbank_id DB03962
_pdbe_chem_comp_drugbank_targets.name '6-phosphogluconate dehydrogenase, decarboxylating'
_pdbe_chem_comp_drugbank_targets.organism Humans
_pdbe_chem_comp_drugbank_targets.uniprot_id P52209
_pdbe_chem_comp_drugbank_targets.pharmacologically_active unknown
_pdbe_chem_comp_drugbank_targets.ordinal 1
#
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
NBP PA P 18.026 2.210 1
NBP O1A O 16.599 1.749 2
NBP O2A O 19.453 2.671 3
NBP O5B O 18.487 0.783 4
NBP C5B C 19.954 0.469 5
NBP C4B C 20.415 -0.959 6
NBP O4B O 19.531 -2.171 7
NBP C3B C 21.840 -1.425 8
NBP O3B O 23.055 -0.545 9
NBP C2B C 21.838 -2.925 10
NBP O2B O 23.050 -3.808 11
NBP C1B C 20.410 -3.386 12
NBP N9A N 19.944 -4.812 13
NBP C8A C 20.820 -6.019 14
NBP BR8 Br 22.320 -6.019 15
NBP N7A N 19.944 -7.226 16
NBP C5A C 18.525 -6.769 17
NBP C6A C 17.226 -7.519 18
NBP N6A N 17.226 -9.019 19
NBP N1A N 15.927 -6.769 20
NBP C2A C 15.927 -5.269 21
NBP N3A N 17.226 -4.519 22
NBP C4A C 18.525 -5.269 23
NBP O3 O 17.565 3.638 24
NBP PN P 16.098 3.952 25
NBP O1N O 16.413 5.419 26
NBP O2N O 15.784 2.486 27
NBP O5D O 14.632 4.267 28
NBP C5D C 14.171 5.694 29
NBP C4D C 12.704 6.008 30
NBP O4D O 11.587 5.007 31
NBP C3D C 12.096 7.380 32
NBP O3D O 12.848 8.678 33
NBP C2D C 10.604 7.226 34
NBP O2D O 9.602 8.342 35
NBP C1D C 10.290 5.759 36
NBP N1N N 8.918 5.151 37
NBP C2N C 7.706 6.035 38
NBP C3N C 6.335 5.427 39
NBP C7N C 5.123 6.311 40
NBP O7N O 5.282 7.802 41
NBP N7N N 3.752 5.703 42
NBP C4N C 6.176 3.936 43
NBP C5N C 7.388 3.052 44
NBP C6N C 8.759 3.660 45
NBP P2B P 24.421 -3.201 46
NBP O1X O 25.793 -2.593 47
NBP O2X O 25.029 -4.572 48
NBP O3X O 23.814 -1.829 49
#
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
NBP PA O1A DOUBLE NONE 1
NBP PA O2A SINGLE BEGINDASH 2
NBP PA O5B SINGLE NONE 3
NBP PA O3 SINGLE NONE 4
NBP O5B C5B SINGLE NONE 5
NBP C4B C5B SINGLE BEGINDASH 6
NBP C4B O4B SINGLE NONE 7
NBP C4B C3B SINGLE NONE 8
NBP O4B C1B SINGLE NONE 9
NBP C3B O3B SINGLE BEGINWEDGE 10
NBP C3B C2B SINGLE NONE 11
NBP C2B O2B SINGLE BEGINWEDGE 12
NBP C2B C1B SINGLE NONE 13
NBP O2B P2B SINGLE NONE 14
NBP C1B N9A SINGLE BEGINDASH 15
NBP N9A C8A SINGLE NONE 16
NBP N9A C4A SINGLE NONE 17
NBP C8A BR8 SINGLE NONE 18
NBP C8A N7A DOUBLE NONE 19
NBP N7A C5A SINGLE NONE 20
NBP C5A C6A SINGLE NONE 21
NBP C5A C4A DOUBLE NONE 22
NBP C6A N6A SINGLE NONE 23
NBP C6A N1A DOUBLE NONE 24
NBP N1A C2A SINGLE NONE 25
NBP C2A N3A DOUBLE NONE 26
NBP N3A C4A SINGLE NONE 27
NBP O3 PN SINGLE NONE 28
NBP PN O1N DOUBLE NONE 29
NBP PN O2N SINGLE BEGINWEDGE 30
NBP PN O5D SINGLE NONE 31
NBP O5D C5D SINGLE NONE 32
NBP C4D C5D SINGLE BEGINWEDGE 33
NBP C4D O4D SINGLE NONE 34
NBP C4D C3D SINGLE NONE 35
NBP O4D C1D SINGLE NONE 36
NBP C3D O3D SINGLE BEGINDASH 37
NBP C3D C2D SINGLE NONE 38
NBP C2D O2D SINGLE BEGINDASH 39
NBP C2D C1D SINGLE NONE 40
NBP C1D N1N SINGLE BEGINWEDGE 41
NBP N1N C2N DOUBLE NONE 42
NBP N1N C6N SINGLE NONE 43
NBP C2N C3N SINGLE NONE 44
NBP C3N C7N SINGLE NONE 45
NBP C3N C4N DOUBLE NONE 46
NBP C7N O7N DOUBLE NONE 47
NBP C7N N7N SINGLE NONE 48
NBP C4N C5N SINGLE NONE 49
NBP C5N C6N DOUBLE NONE 50
NBP P2B O1X DOUBLE NONE 51
NBP P2B O2X SINGLE NONE 52
NBP P2B O3X SINGLE NONE 53
#
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
NBP MurckoScaffold S1 scaffold 'O=[PH](OC[C@@H]1CC[C@H](n2cnc3cncnc32)O1)O[PH](=O)OC[C@@H]1CC[C@H]([n+]2ccccc2)O1' InChI=1S/C20H26N5O7P2/c26-33(28-11-15-4-6-18(30-15)24-8-2-1-3-9-24)32-34(27)29-12-16-5-7-19(31-16)25-14-23-17-10-21-13-22-20(17)25/h1-3,8-10,13-16,18-19,33-34H,4-7,11-12H2/q+1/t15-,16-,18+,19+/m0/s1 NEQSZHPXWRKWHT-RNIPGJKVSA-N
NBP 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
NBP amide F2 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
NBP imidazole F3 fragment 'c1c[nH]cn1' InChI=1S/C3H4N2/c1-2-5-3-4-1/h1-3H,(H,4,5) RAXXELZNTBOGNW-UHFFFAOYSA-N
NBP 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
NBP 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
NBP pyridine F6 fragment c1ccncc1 InChI=1S/C5H5N/c1-2-4-6-5-3-1/h1-5H JUJWROOIHBZHMG-UHFFFAOYSA-N
NBP pyrimidine F7 fragment c1cncnc1 InChI=1S/C4H4N2/c1-2-5-4-6-3-1/h1-4H CZPWVGJYEJSRLH-UHFFFAOYSA-N
NBP ribose F8 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
NBP PA S1 1
NBP O1A S1 1
NBP O5B S1 1
NBP C5B S1 1
NBP C4B S1 1
NBP O4B S1 1
NBP C3B S1 1
NBP C2B S1 1
NBP C1B S1 1
NBP N9A S1 1
NBP C8A S1 1
NBP N7A S1 1
NBP C5A S1 1
NBP C6A S1 1
NBP N1A S1 1
NBP C2A S1 1
NBP N3A S1 1
NBP C4A S1 1
NBP O3 S1 1
NBP PN S1 1
NBP O1N S1 1
NBP O5D S1 1
NBP C5D S1 1
NBP C4D S1 1
NBP O4D S1 1
NBP C3D S1 1
NBP C2D S1 1
NBP C1D S1 1
NBP N1N S1 1
NBP C2N S1 1
NBP C3N S1 1
NBP C4N S1 1
NBP C5N S1 1
NBP C6N S1 1
NBP N1A F1 1
NBP C6A F1 1
NBP C5A F1 1
NBP C4A F1 1
NBP N3A F1 1
NBP C2A F1 1
NBP N9A F1 1
NBP C8A F1 1
NBP N7A F1 1
NBP N6A F1 1
NBP N7N F2 1
NBP C7N F2 1
NBP O7N F2 1
NBP C3N F2 1
NBP C5A F3 1
NBP C4A F3 1
NBP N9A F3 1
NBP C8A F3 1
NBP N7A F3 1
NBP O2A F4 1
NBP PA F4 1
NBP O1A F4 1
NBP O5B F4 1
NBP O3 F4 1
NBP O2B F4 2
NBP P2B F4 2
NBP O1X F4 2
NBP O2X F4 2
NBP O3X F4 2
NBP O3 F4 3
NBP PN F4 3
NBP O1N F4 3
NBP O2N F4 3
NBP O5D F4 3
NBP N7A F5 1
NBP C8A F5 1
NBP N9A F5 1
NBP C4A F5 1
NBP C5A F5 1
NBP C6A F5 1
NBP N1A F5 1
NBP C2A F5 1
NBP N3A F5 1
NBP C2N F6 1
NBP C3N F6 1
NBP C4N F6 1
NBP C5N F6 1
NBP C6N F6 1
NBP N1N F6 1
NBP C5A F7 1
NBP C6A F7 1
NBP N1A F7 1
NBP C2A F7 1
NBP N3A F7 1
NBP C4A F7 1
NBP C2B F8 1
NBP C3B F8 1
NBP C4B F8 1
NBP O4B F8 1
NBP C1B F8 1
NBP C5B F8 1
NBP O5B F8 1
NBP O3B F8 1
NBP O2B F8 1
NBP C2D F8 2
NBP C3D F8 2
NBP C4D F8 2
NBP O4D F8 2
NBP C1D F8 2
NBP C5D F8 2
NBP O5D F8 2
NBP O3D F8 2
NBP O2D F8 2
#
_pdbe_chem_comp_rdkit_properties.comp_id NBP
_pdbe_chem_comp_rdkit_properties.exactmw 820.986
_pdbe_chem_comp_rdkit_properties.amw 822.305
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 24
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 10
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 20
_pdbe_chem_comp_rdkit_properties.NumHBD 8
_pdbe_chem_comp_rdkit_properties.NumHBA 22
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 49
_pdbe_chem_comp_rdkit_properties.NumAtoms 76
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 28
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.476
_pdbe_chem_comp_rdkit_properties.NumRings 5
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 3
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 2
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 2
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 5
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 3
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 0
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 10
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 319.966
_pdbe_chem_comp_rdkit_properties.tpsa 367.620
_pdbe_chem_comp_rdkit_properties.CrippenClogP -3.632
_pdbe_chem_comp_rdkit_properties.CrippenMR 152.473
_pdbe_chem_comp_rdkit_properties.chi0v 26.560
_pdbe_chem_comp_rdkit_properties.chi1v 16.681
_pdbe_chem_comp_rdkit_properties.chi2v 8.217
_pdbe_chem_comp_rdkit_properties.chi3v 8.217
_pdbe_chem_comp_rdkit_properties.chi4v 5.786
_pdbe_chem_comp_rdkit_properties.chi0n 49.290
_pdbe_chem_comp_rdkit_properties.chi1n 24.244
_pdbe_chem_comp_rdkit_properties.chi2n 5.049
_pdbe_chem_comp_rdkit_properties.chi3n 5.049
_pdbe_chem_comp_rdkit_properties.chi4n 3.259
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -2.380
_pdbe_chem_comp_rdkit_properties.kappa1 16.104
_pdbe_chem_comp_rdkit_properties.kappa2 14.327
_pdbe_chem_comp_rdkit_properties.kappa3 8.573
_pdbe_chem_comp_rdkit_properties.Phi 4.709
#
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
NBP UniChem DrugBank DB03962
NBP UniChem PDBe NBP
NBP UniChem PubChem 5288989
NBP UniChem 'Probes And Drugs' PD059542
#
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
NBP PA -0.122 1.985 1.322 ETKDGv3 1
NBP O1A 0.346 3.075 2.261 ETKDGv3 2
NBP O2A -0.392 2.654 -0.211 ETKDGv3 3
NBP O5B -1.586 1.357 1.931 ETKDGv3 4
NBP C5B -1.981 0.278 1.117 ETKDGv3 5
NBP C4B -3.305 -0.285 1.640 ETKDGv3 6
NBP O4B -4.306 0.709 1.588 ETKDGv3 7
NBP C3B -3.772 -1.489 0.831 ETKDGv3 8
NBP O3B -3.325 -2.699 1.388 ETKDGv3 9
NBP C2B -5.269 -1.368 0.904 ETKDGv3 10
NBP O2B -5.733 -1.967 2.102 ETKDGv3 11
NBP C1B -5.451 0.154 0.972 ETKDGv3 12
NBP N9A -5.637 0.735 -0.368 ETKDGv3 13
NBP C8A -5.325 2.082 -0.793 ETKDGv3 14
NBP BR8 -3.994 3.207 -0.005 ETKDGv3 15
NBP N7A -6.044 2.506 -1.791 ETKDGv3 16
NBP C5A -6.921 1.430 -2.073 ETKDGv3 17
NBP C6A -8.088 1.409 -2.965 ETKDGv3 18
NBP N6A -8.355 2.484 -3.864 ETKDGv3 19
NBP N1A -8.887 0.377 -2.909 ETKDGv3 20
NBP C2A -8.641 -0.712 -1.986 ETKDGv3 21
NBP N3A -7.608 -0.680 -1.186 ETKDGv3 22
NBP C4A -6.710 0.435 -1.255 ETKDGv3 23
NBP O3 1.035 0.737 1.235 ETKDGv3 24
NBP PN 2.544 1.439 0.871 ETKDGv3 25
NBP O1N 3.079 2.151 2.093 ETKDGv3 26
NBP O2N 2.426 2.546 -0.406 ETKDGv3 27
NBP O5D 3.644 0.213 0.440 ETKDGv3 28
NBP C5D 3.092 -0.525 -0.626 ETKDGv3 29
NBP C4D 4.124 -1.533 -1.151 ETKDGv3 30
NBP O4D 5.244 -0.835 -1.658 ETKDGv3 31
NBP C3D 4.581 -2.517 -0.061 ETKDGv3 32
NBP O3D 4.613 -3.826 -0.573 ETKDGv3 33
NBP C2D 5.977 -2.040 0.256 ETKDGv3 34
NBP O2D 6.847 -3.094 0.580 ETKDGv3 35
NBP C1D 6.396 -1.368 -1.041 ETKDGv3 36
NBP N1N 7.395 -0.312 -0.795 ETKDGv3 37
NBP C2N 7.033 0.870 -0.357 ETKDGv3 38
NBP C3N 8.041 1.923 -0.070 ETKDGv3 39
NBP C7N 7.631 3.265 0.413 ETKDGv3 40
NBP O7N 8.464 3.996 1.015 ETKDGv3 41
NBP N7N 6.305 3.760 0.205 ETKDGv3 42
NBP C4N 9.339 1.622 -0.236 ETKDGv3 43
NBP C5N 9.734 0.286 -0.710 ETKDGv3 44
NBP C6N 8.794 -0.626 -0.973 ETKDGv3 45
NBP P2B -7.328 -2.541 1.891 ETKDGv3 46
NBP O1X -7.740 -3.298 3.133 ETKDGv3 47
NBP O2X -7.404 -3.590 0.563 ETKDGv3 48
NBP O3X -8.393 -1.247 1.655 ETKDGv3 49
NBP HOA2 -0.285 1.899 -0.843 ETKDGv3 50
NBP H51A -2.130 0.609 0.065 ETKDGv3 51
NBP H52A -1.219 -0.534 1.150 ETKDGv3 52
NBP H4B -3.171 -0.583 2.705 ETKDGv3 53
NBP H3B -3.453 -1.410 -0.237 ETKDGv3 54
NBP HO3A -2.369 -2.788 1.137 ETKDGv3 55
NBP H2B -5.691 -1.831 -0.016 ETKDGv3 56
NBP H1B -6.337 0.413 1.589 ETKDGv3 57
NBP H61A -9.191 2.455 -4.489 ETKDGv3 58
NBP H62A -7.718 3.310 -3.911 ETKDGv3 59
NBP H2A -9.324 -1.550 -1.948 ETKDGv3 60
NBP H51N 2.810 0.141 -1.475 ETKDGv3 61
NBP H52N 2.190 -1.083 -0.288 ETKDGv3 62
NBP H4D 3.651 -2.089 -1.990 ETKDGv3 63
NBP H3D 3.946 -2.481 0.856 ETKDGv3 64
NBP HO3N 3.675 -4.151 -0.573 ETKDGv3 65
NBP H2D 5.942 -1.293 1.085 ETKDGv3 66
NBP HO2N 6.605 -3.384 1.497 ETKDGv3 67
NBP H1D 6.817 -2.132 -1.734 ETKDGv3 68
NBP H2N 5.990 1.079 -0.169 ETKDGv3 69
NBP H71N 5.626 3.272 -0.419 ETKDGv3 70
NBP H72N 6.023 4.679 0.612 ETKDGv3 71
NBP H4N 10.114 2.352 -0.036 ETKDGv3 72
NBP H5N 10.781 0.046 -0.843 ETKDGv3 73
NBP H6N 9.095 -1.609 -1.315 ETKDGv3 74
NBP HOP2 -8.372 -3.730 0.407 ETKDGv3 75
NBP HOP3 -8.370 -0.741 2.506 ETKDGv3 76
#