data_NXX
#
_chem_comp.id NXX
_chem_comp.name
1-[(2R,3R,4S,5R)-5-({[(R)-{[(R)-{[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methoxy}(hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]oxy}methyl)-3,4-dihydroxytetrahydrofuran-2-yl]-3-carboxypyridinium
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C21 H27 N6 O15 P2"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 1
_chem_comp.pdbx_initial_date 2007-09-04
_chem_comp.pdbx_modified_date 2011-06-04
_chem_comp.pdbx_ambiguous_flag ?
_chem_comp.pdbx_release_status REL
_chem_comp.pdbx_replaced_by ?
_chem_comp.pdbx_replaces ?
_chem_comp.formula_weight 665.418
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code NXX
_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 2QTR
_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
NXX O7N O7N O 0 1 N N N N N N 15.177 93.389 -3.171 -8.790 -4.880 2.503 O7N NXX 1
NXX C7N C7N C 0 1 N N N N N N 15.698 94.385 -3.705 -8.289 -4.346 1.373 C7N NXX 2
NXX O8N O8N O 0 1 N N N N N N 15.713 94.549 -4.948 -8.393 -4.944 0.321 O8N NXX 3
NXX C3N C3N C 0 1 Y N N N N N 16.327 95.427 -2.829 -7.614 -3.033 1.412 C3N NXX 4
NXX C4N C4N C 0 1 Y N N N N N 16.946 96.590 -3.347 -7.483 -2.336 2.619 C4N NXX 5
NXX C5N C5N C 0 1 Y N N N N N 17.524 97.547 -2.487 -6.841 -1.109 2.602 C5N NXX 6
NXX C6N C6N C 0 1 Y N N N N N 17.469 97.305 -1.080 -6.355 -0.617 1.405 C6N NXX 7
NXX C2N C2N C 0 1 Y N N N N N 16.298 95.234 -1.441 -7.090 -2.468 0.248 C2N NXX 8
NXX N1N N1N N 1 1 Y N N N N N 16.854 96.149 -0.625 -6.493 -1.296 0.282 N1N NXX 9
NXX C1M C1M C 0 1 N N R N N N 16.768 95.837 0.809 -5.962 -0.731 -0.961 C1M NXX 10
NXX C2M C2M C 0 1 N N R N N N 18.050 95.246 1.428 -6.932 0.332 -1.537 C2M NXX 11
NXX O2M O2M O 0 1 N N N N N N 18.271 93.860 1.157 -7.930 -0.280 -2.357 O2M NXX 12
NXX C3M C3M C 0 1 N N S N N N 17.814 95.514 2.893 -5.983 1.212 -2.385 C3M NXX 13
NXX O3M O3M O 0 1 N N N N N N 17.034 94.419 3.428 -6.039 0.827 -3.760 O3M NXX 14
NXX O4M O4M O 0 1 N N N N N N 16.467 96.999 1.575 -4.755 0.019 -0.704 O4M NXX 15
NXX C4M C4M C 0 1 N N R N N N 17.074 96.851 2.885 -4.584 0.929 -1.803 C4M NXX 16
NXX C5M C5M C 0 1 N N N N N N 17.980 98.074 3.118 -3.954 2.232 -1.307 C5M NXX 17
NXX O5M O5M O 0 1 N N N N N N 19.114 98.079 2.238 -2.621 1.977 -0.861 O5M NXX 18
NXX PN PN P 0 1 N N R N N N 20.363 99.113 2.433 -1.658 3.125 -0.271 PN NXX 19
NXX O1N O1N O 0 1 N N N N N N 21.388 98.902 1.399 -1.551 4.230 -1.251 O1N NXX 20
NXX O2N O2N O 0 1 N N N N N N 19.684 100.430 2.543 -2.274 3.688 1.106 O2N NXX 21
NXX O3A O3A O 0 1 N N N N N N 20.970 98.552 3.850 -0.197 2.510 0.006 O3A NXX 22
NXX PA PA P 0 1 N N R N N N 21.796 99.375 5.016 1.253 3.153 0.287 PA NXX 23
NXX O1A O1A O 0 1 N N N N N N 22.524 98.399 5.946 1.857 3.733 -1.088 O1A NXX 24
NXX O2A O2A O 0 1 N N N N N N 22.645 100.438 4.314 1.123 4.251 1.271 O2A NXX 25
NXX O5B O5B O 0 1 N N N N N N 20.635 100.096 5.872 2.238 2.022 0.871 O5B NXX 26
NXX C5B C5B C 0 1 N N N N N N 19.652 99.361 6.548 3.566 2.301 1.318 C5B NXX 27
NXX C4B C4B C 0 1 N N R N N N 18.343 100.171 6.658 4.221 1.009 1.809 C4B NXX 28
NXX C3B C3B C 0 1 N N S N N N 17.866 100.863 5.388 5.614 1.317 2.392 C3B NXX 29
NXX O3B O3B O 0 1 N N N N N N 16.462 100.744 5.381 5.678 0.927 3.765 O3B NXX 30
NXX C2B C2B C 0 1 N N R N N N 18.285 102.312 5.537 6.581 0.459 1.540 C2B NXX 31
NXX O2P O2P O 0 1 N N N N N N 17.526 103.177 4.701 7.590 -0.137 2.358 O2P NXX 32
NXX C1B C1B C 0 1 N N R N N N 18.092 102.504 7.030 5.631 -0.620 0.959 C1B NXX 33
NXX O4B O4B O 0 1 N N N N N N 18.475 101.235 7.613 4.410 0.107 0.705 O4B NXX 34
NXX N9A N9A N 0 1 Y N N N N N 18.947 103.534 7.669 6.174 -1.169 -0.286 N9A NXX 35
NXX C8A C8A C 0 1 Y N N N N N 20.269 103.396 7.944 5.869 -0.757 -1.549 C8A NXX 36
NXX N7A N7A N 0 1 Y N N N N N 20.720 104.509 8.523 6.532 -1.462 -2.419 N7A NXX 37
NXX C5A C5A C 0 1 Y N N N N N 19.672 105.364 8.616 7.303 -2.368 -1.771 C5A NXX 38
NXX C4A C4A C 0 1 Y N N N N N 18.539 104.735 8.067 7.087 -2.187 -0.395 C4A NXX 39
NXX C6A C6A C 0 1 Y N N N N N 19.553 106.654 9.124 8.205 -3.366 -2.176 C6A NXX 40
NXX N6A N6A N 0 1 N N N N N N 20.667 107.239 9.647 8.463 -3.586 -3.517 N6A NXX 41
NXX N1A N1A N 0 1 Y N N N N N 18.326 107.293 9.079 8.806 -4.094 -1.240 N1A NXX 42
NXX C2A C2A C 0 1 Y N N N N N 17.222 106.672 8.543 8.566 -3.891 0.043 C2A NXX 43
NXX N3A N3A N 0 1 Y N N N N N 17.313 105.394 8.034 7.738 -2.960 0.468 N3A NXX 44
NXX HO7N HO7N H 0 0 N N N N N N 14.819 92.820 -3.842 -9.223 -5.741 2.428 HO7N NXX 45
NXX H4N H4N H 0 1 N N N N N N 16.976 96.747 -4.415 -7.872 -2.744 3.540 H4N NXX 46
NXX H5N H5N H 0 1 N N N N N N 17.994 98.436 -2.880 -6.722 -0.543 3.514 H5N NXX 47
NXX H6N H6N H 0 1 N N N N N N 17.899 98.010 -0.384 -5.854 0.340 1.389 H6N NXX 48
NXX H2N H2N H 0 1 N N N N N N 15.830 94.353 -1.027 -7.180 -2.996 -0.690 H2N NXX 49
NXX H1M H1M H 0 1 N N N N N N 15.971 95.080 0.851 -5.778 -1.519 -1.691 H1M NXX 50
NXX H2M H2M H 0 1 N N N N N N 18.964 95.694 1.011 -7.391 0.913 -0.737 H2M NXX 51
NXX HO2M HO2M H 0 0 N N N N N N 18.320 93.724 0.218 -8.561 0.344 -2.740 HO2M NXX 52
NXX H3M H3M H 0 1 N N N N N N 18.714 95.576 3.523 -6.239 2.266 -2.274 H3M NXX 53
NXX HO3M HO3M H 0 0 N N N N N N 16.863 93.786 2.741 -6.913 0.929 -4.162 HO3M NXX 54
NXX H4M H4M H 0 1 N N N N N N 16.349 96.827 3.712 -3.951 0.476 -2.565 H4M NXX 55
NXX H5M1 1H5M H 0 0 N N N N N N 18.341 98.051 4.157 -3.933 2.958 -2.119 H5M1 NXX 56
NXX H5M2 2H5M H 0 0 N N N N N N 17.389 98.980 2.917 -4.544 2.629 -0.480 H5M2 NXX 57
NXX HO2N HO2N H 0 0 N N N N N N 19.539 100.637 3.459 -2.374 3.017 1.795 HO2N NXX 58
NXX HO1A HO1A H 0 0 N N N N N N 22.675 97.579 5.490 1.970 3.068 -1.780 HO1A NXX 59
NXX H5B1 1H5B H 0 0 N N N N N N 19.454 98.432 5.994 4.147 2.713 0.493 H5B1 NXX 60
NXX H5B2 2H5B H 0 0 N N N N N N 20.014 99.134 7.562 3.530 3.023 2.134 H5B2 NXX 61
NXX H4B H4B H 0 1 N N N N N N 17.616 99.394 6.936 3.595 0.540 2.567 H4B NXX 62
NXX H3B H3B H 0 1 N N N N N N 18.275 100.444 4.457 5.848 2.376 2.284 H3B NXX 63
NXX HO3B HO3B H 0 0 N N N N N N 16.142 100.717 6.275 6.550 1.045 4.167 HO3B NXX 64
NXX H2B H2B H 0 1 N N N N N N 19.308 102.554 5.212 7.028 1.053 0.743 H2B NXX 65
NXX HO2P HO2P H 0 0 N N N N N N 17.357 103.992 5.159 8.154 0.502 2.815 HO2P NXX 66
NXX H1B H1B H 0 1 N N N N N N 17.055 102.834 7.191 5.461 -1.413 1.687 H1B NXX 67
NXX H8A H8A H 0 1 N N N N N N 20.863 102.521 7.727 5.178 0.037 -1.792 H8A NXX 68
NXX H6A1 1H6A H 0 0 N N N N N N 21.340 107.382 8.922 8.019 -3.048 -4.191 H6A1 NXX 69
NXX H6A2 2H6A H 0 0 N N N N N N 20.422 108.119 10.053 9.088 -4.279 -3.784 H6A2 NXX 70
NXX H2A H2A H 0 1 N N N N N N 16.275 107.190 8.521 9.076 -4.505 0.771 H2A NXX 71
#
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
NXX O8N C7N DOUB N N 1
NXX C7N O7N SING N N 2
NXX C7N C3N SING N N 3
NXX C4N C3N DOUB Y N 4
NXX C4N C5N SING Y N 5
NXX C3N C2N SING Y N 6
NXX C5N C6N DOUB Y N 7
NXX C2N N1N DOUB Y N 8
NXX C6N N1N SING Y N 9
NXX N1N C1M SING N N 10
NXX C1M C2M SING N N 11
NXX C1M O4M SING N N 12
NXX O2M C2M SING N N 13
NXX O1N PN DOUB N N 14
NXX C2M C3M SING N N 15
NXX O4M C4M SING N N 16
NXX O5M PN SING N N 17
NXX O5M C5M SING N N 18
NXX PN O2N SING N N 19
NXX PN O3A SING N N 20
NXX C4M C3M SING N N 21
NXX C4M C5M SING N N 22
NXX C3M O3M SING N N 23
NXX O3A PA SING N N 24
NXX O2A PA DOUB N N 25
NXX O2P C2B SING N N 26
NXX PA O5B SING N N 27
NXX PA O1A SING N N 28
NXX O3B C3B SING N N 29
NXX C3B C2B SING N N 30
NXX C3B C4B SING N N 31
NXX C2B C1B SING N N 32
NXX O5B C5B SING N N 33
NXX C5B C4B SING N N 34
NXX C4B O4B SING N N 35
NXX C1B O4B SING N N 36
NXX C1B N9A SING N N 37
NXX N9A C8A SING Y N 38
NXX N9A C4A SING Y N 39
NXX C8A N7A DOUB Y N 40
NXX N3A C4A DOUB Y N 41
NXX N3A C2A SING Y N 42
NXX C4A C5A SING Y N 43
NXX N7A C5A SING Y N 44
NXX C2A N1A DOUB Y N 45
NXX C5A C6A DOUB Y N 46
NXX N1A C6A SING Y N 47
NXX C6A N6A SING N N 48
NXX O7N HO7N SING N N 49
NXX C4N H4N SING N N 50
NXX C5N H5N SING N N 51
NXX C6N H6N SING N N 52
NXX C2N H2N SING N N 53
NXX C1M H1M SING N N 54
NXX C2M H2M SING N N 55
NXX O2M HO2M SING N N 56
NXX C3M H3M SING N N 57
NXX O3M HO3M SING N N 58
NXX C4M H4M SING N N 59
NXX C5M H5M1 SING N N 60
NXX C5M H5M2 SING N N 61
NXX O2N HO2N SING N N 62
NXX O1A HO1A SING N N 63
NXX C5B H5B1 SING N N 64
NXX C5B H5B2 SING N N 65
NXX C4B H4B SING N N 66
NXX C3B H3B SING N N 67
NXX O3B HO3B SING N N 68
NXX C2B H2B SING N N 69
NXX O2P HO2P SING N N 70
NXX C1B H1B SING N N 71
NXX C8A H8A SING N N 72
NXX N6A H6A1 SING N N 73
NXX N6A H6A2 SING N N 74
NXX C2A H2A SING N N 75
#
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
NXX SMILES_CANONICAL CACTVS 3.341 Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P@](O)(=O)O[P@@](O)(=O)OC[C@H]4O[C@H]([C@H](O)[C@@H]4O)[n+]5cccc(c5)C(O)=O)[C@@H](O)[C@H]3O
NXX SMILES CACTVS 3.341 Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)O[P](O)(=O)OC[CH]4O[CH]([CH](O)[CH]4O)[n+]5cccc(c5)C(O)=O)[CH](O)[CH]3O
NXX 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)n4cnc5c4ncnc5N)O)O)O)O)C(=O)O
NXX SMILES "OpenEye OEToolkits" 1.5.0 c1cc(c[n+](c1)C2C(C(C(O2)COP(=O)(O)OP(=O)(O)OCC3C(C(C(O3)n4cnc5c4ncnc5N)O)O)O)O)C(=O)O
NXX InChI InChI 1.03 InChI=1S/C21H26N6O15P2/c22-17-12-18(24-7-23-17)27(8-25-12)20-16(31)14(29)11(41-20)6-39-44(36,37)42-43(34,35)38-5-10-13(28)15(30)19(40-10)26-3-1-2-9(4-26)21(32)33/h1-4,7-8,10-11,13-16,19-20,28-31H,5-6H2,(H4-,22,23,24,32,33,34,35,36,37)/p+1/t10-,11-,13-,14-,15-,16-,19-,20-/m1/s1
NXX InChIKey InChI 1.03 SENPVEZBRZQVST-HISDBWNOSA-O
#
_pdbx_chem_comp_identifier.comp_id NXX
_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
"1-[(2R,3R,4S,5R)-5-[[[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl]oxy-hydroxy-phosphoryl]oxymethyl]-3,4-dihydroxy-oxolan-2-yl]pyridin-1-ium-3-carboxylic 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
NXX 'Create component' 2007-09-04 RCSB
NXX 'Modify aromatic_flag' 2011-06-04 RCSB
NXX 'Modify descriptor' 2011-06-04 RCSB
#
_pdbe_chem_comp_drugbank_details.comp_id NXX
_pdbe_chem_comp_drugbank_details.drugbank_id DB04099
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name Deamido-Nad+
_pdbe_chem_comp_drugbank_details.description ?
_pdbe_chem_comp_drugbank_details.cas_number ?
_pdbe_chem_comp_drugbank_details.mechanism_of_action ?
#
_pdbe_chem_comp_synonyms.comp_id NXX
_pdbe_chem_comp_synonyms.name Deamido-Nad+
_pdbe_chem_comp_synonyms.provenance DrugBank
_pdbe_chem_comp_synonyms.type ?
#
_pdbe_chem_comp_drugbank_classification.comp_id NXX
_pdbe_chem_comp_drugbank_classification.drugbank_id DB04099
_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."
#
loop_
_pdbe_chem_comp_drugbank_targets.comp_id
_pdbe_chem_comp_drugbank_targets.drugbank_id
_pdbe_chem_comp_drugbank_targets.name
_pdbe_chem_comp_drugbank_targets.organism
_pdbe_chem_comp_drugbank_targets.uniprot_id
_pdbe_chem_comp_drugbank_targets.pharmacologically_active
_pdbe_chem_comp_drugbank_targets.ordinal
NXX DB04099 'NH(3)-dependent NAD(+) synthetase' 'Escherichia coli (strain K12)' P18843 unknown 1
NXX DB04099 'NH(3)-dependent NAD(+) synthetase' 'Bacillus subtilis (strain 168)' P08164 unknown 2
NXX DB04099 'Nicotinamide/nicotinic acid mononucleotide adenylyltransferase 1' Humans Q9HAN9 unknown 3
NXX DB04099 'Nicotinate-nucleotide adenylyltransferase' 'Bacillus subtilis (strain 168)' P54455 unknown 4
NXX DB04099 'Nicotinamide/nicotinic acid mononucleotide adenylyltransferase 3' Humans Q96T66 unknown 5
NXX DB04099 'NH(3)-dependent NAD(+) synthetase' 'Helicobacter pylori (strain ATCC 700392 / 26695)' O25096 unknown 6
#
loop_
_software.name
_software.version
_software.description
rdkit 2025.03.3 'Core functionality.'
pdbeccdutils 1.0.0 '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
NXX O7N O 16.243 5.386 1
NXX C7N C 16.709 6.811 2
NXX O8N O 18.177 7.121 3
NXX C3N C 15.707 7.928 4
NXX C4N C 16.173 9.354 5
NXX C5N C 15.171 10.470 6
NXX C6N C 13.704 10.161 7
NXX C2N C 14.239 7.619 8
NXX N1N N 13.238 8.735 9
NXX C1M C 11.770 8.426 10
NXX C2M C 10.657 9.431 11
NXX O2M O 10.816 10.923 12
NXX C3M C 9.357 8.684 13
NXX O3M O 7.987 9.296 14
NXX O4M O 11.157 7.056 15
NXX C4M C 9.666 7.216 16
NXX C5M C 8.660 6.103 17
NXX O5M O 9.121 4.675 18
NXX PN P 8.116 3.562 19
NXX O1N O 7.003 4.568 20
NXX O2N O 9.229 2.557 21
NXX O3A O 7.110 2.449 22
NXX PA P 7.571 1.022 23
NXX O1A O 6.144 0.561 24
NXX O2A O 8.998 1.483 25
NXX O5B O 8.032 -0.405 26
NXX C5B C 7.027 -1.518 27
NXX C4B C 7.487 -2.946 28
NXX C3B C 8.913 -3.412 29
NXX O3B O 10.129 -2.532 30
NXX C2B C 8.911 -4.912 31
NXX O2P O 10.123 -5.796 32
NXX C1B C 7.483 -5.373 33
NXX O4B O 6.604 -4.158 34
NXX N9A N 7.018 -6.799 35
NXX C8A C 7.893 -8.006 36
NXX N7A N 7.018 -9.213 37
NXX C5A C 5.598 -8.756 38
NXX C4A C 5.598 -7.256 39
NXX C6A C 4.299 -9.506 40
NXX N6A N 4.299 -11.006 41
NXX N1A N 3.000 -8.756 42
NXX C2A C 3.000 -7.256 43
NXX N3A N 4.299 -6.506 44
#
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
NXX O8N C7N DOUBLE NONE 1
NXX C7N O7N SINGLE NONE 2
NXX C7N C3N SINGLE NONE 3
NXX C4N C3N DOUBLE NONE 4
NXX C4N C5N SINGLE NONE 5
NXX C3N C2N SINGLE NONE 6
NXX C5N C6N DOUBLE NONE 7
NXX C2N N1N DOUBLE NONE 8
NXX C6N N1N SINGLE NONE 9
NXX C1M N1N SINGLE BEGINDASH 10
NXX C1M C2M SINGLE NONE 11
NXX C1M O4M SINGLE NONE 12
NXX C2M O2M SINGLE BEGINWEDGE 13
NXX O1N PN DOUBLE NONE 14
NXX C2M C3M SINGLE NONE 15
NXX O4M C4M SINGLE NONE 16
NXX O5M PN SINGLE NONE 17
NXX O5M C5M SINGLE NONE 18
NXX PN O2N SINGLE BEGINDASH 19
NXX PN O3A SINGLE NONE 20
NXX C4M C3M SINGLE NONE 21
NXX C4M C5M SINGLE BEGINDASH 22
NXX C3M O3M SINGLE BEGINWEDGE 23
NXX O3A PA SINGLE NONE 24
NXX O2A PA DOUBLE NONE 25
NXX C2B O2P SINGLE BEGINWEDGE 26
NXX PA O5B SINGLE NONE 27
NXX PA O1A SINGLE BEGINDASH 28
NXX C3B O3B SINGLE BEGINWEDGE 29
NXX C3B C2B SINGLE NONE 30
NXX C3B C4B SINGLE NONE 31
NXX C2B C1B SINGLE NONE 32
NXX O5B C5B SINGLE NONE 33
NXX C4B C5B SINGLE BEGINDASH 34
NXX C4B O4B SINGLE NONE 35
NXX C1B O4B SINGLE NONE 36
NXX C1B N9A SINGLE BEGINDASH 37
NXX N9A C8A SINGLE NONE 38
NXX N9A C4A SINGLE NONE 39
NXX C8A N7A DOUBLE NONE 40
NXX N3A C4A SINGLE NONE 41
NXX N3A C2A DOUBLE NONE 42
NXX C4A C5A DOUBLE NONE 43
NXX N7A C5A SINGLE NONE 44
NXX C2A N1A SINGLE NONE 45
NXX C5A C6A SINGLE NONE 46
NXX N1A C6A DOUBLE NONE 47
NXX C6A N6A SINGLE NONE 48
#
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
NXX 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
NXX 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
NXX imidazole F2 fragment 'c1c[nH]cn1' InChI=1S/C3H4N2/c1-2-5-3-4-1/h1-3H,(H,4,5) RAXXELZNTBOGNW-UHFFFAOYSA-N
NXX phosphate F3 fragment O=P(O)(O)O InChI=1S/H3O4P/c1-5(2,3)4/h(H3,1,2,3,4) NBIIXXVUZAFLBC-UHFFFAOYSA-N
NXX purine F4 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
NXX pyridine F5 fragment c1ccncc1 InChI=1S/C5H5N/c1-2-4-6-5-3-1/h1-5H JUJWROOIHBZHMG-UHFFFAOYSA-N
NXX pyrimidine F6 fragment c1cncnc1 InChI=1S/C4H4N2/c1-2-5-4-6-3-1/h1-4H CZPWVGJYEJSRLH-UHFFFAOYSA-N
NXX 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
NXX C3N S1 1
NXX C4N S1 1
NXX C5N S1 1
NXX C6N S1 1
NXX C2N S1 1
NXX N1N S1 1
NXX C1M S1 1
NXX C2M S1 1
NXX C3M S1 1
NXX O4M S1 1
NXX C4M S1 1
NXX C5M S1 1
NXX O5M S1 1
NXX PN S1 1
NXX O1N S1 1
NXX O3A S1 1
NXX PA S1 1
NXX O2A S1 1
NXX O5B S1 1
NXX C5B S1 1
NXX C4B S1 1
NXX C3B S1 1
NXX C2B S1 1
NXX C1B S1 1
NXX O4B S1 1
NXX N9A S1 1
NXX C8A S1 1
NXX N7A S1 1
NXX C5A S1 1
NXX C4A S1 1
NXX C6A S1 1
NXX N1A S1 1
NXX C2A S1 1
NXX N3A S1 1
NXX N1A F1 1
NXX C6A F1 1
NXX C5A F1 1
NXX C4A F1 1
NXX N3A F1 1
NXX C2A F1 1
NXX N9A F1 1
NXX C8A F1 1
NXX N7A F1 1
NXX N6A F1 1
NXX C5A F2 1
NXX C4A F2 1
NXX N9A F2 1
NXX C8A F2 1
NXX N7A F2 1
NXX O5M F3 1
NXX PN F3 1
NXX O1N F3 1
NXX O2N F3 1
NXX O3A F3 1
NXX O3A F3 2
NXX PA F3 2
NXX O2A F3 2
NXX O5B F3 2
NXX O1A F3 2
NXX N7A F4 1
NXX C8A F4 1
NXX N9A F4 1
NXX C4A F4 1
NXX C5A F4 1
NXX C6A F4 1
NXX N1A F4 1
NXX C2A F4 1
NXX N3A F4 1
NXX C6N F5 1
NXX C5N F5 1
NXX C4N F5 1
NXX C3N F5 1
NXX C2N F5 1
NXX N1N F5 1
NXX C5A F6 1
NXX C4A F6 1
NXX N3A F6 1
NXX C2A F6 1
NXX N1A F6 1
NXX C6A F6 1
NXX C2M F7 1
NXX C3M F7 1
NXX C4M F7 1
NXX O4M F7 1
NXX C1M F7 1
NXX C5M F7 1
NXX O5M F7 1
NXX O3M F7 1
NXX O2M F7 1
NXX C2B F7 2
NXX C3B F7 2
NXX C4B F7 2
NXX O4B F7 2
NXX C1B F7 2
NXX C5B F7 2
NXX O5B F7 2
NXX O3B F7 2
NXX O2P F7 2
#
_pdbe_chem_comp_rdkit_properties.comp_id NXX
_pdbe_chem_comp_rdkit_properties.exactmw 665.100
_pdbe_chem_comp_rdkit_properties.amw 665.422
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 21
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 9
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 18
_pdbe_chem_comp_rdkit_properties.NumHBD 8
_pdbe_chem_comp_rdkit_properties.NumHBA 20
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 44
_pdbe_chem_comp_rdkit_properties.NumAtoms 71
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 23
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_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 284.066
_pdbe_chem_comp_rdkit_properties.tpsa 312.470
_pdbe_chem_comp_rdkit_properties.CrippenClogP -3.280
_pdbe_chem_comp_rdkit_properties.CrippenMR 134.522
_pdbe_chem_comp_rdkit_properties.chi0v 21.990
_pdbe_chem_comp_rdkit_properties.chi1v 13.488
_pdbe_chem_comp_rdkit_properties.chi2v 6.939
_pdbe_chem_comp_rdkit_properties.chi3v 6.939
_pdbe_chem_comp_rdkit_properties.chi4v 4.577
_pdbe_chem_comp_rdkit_properties.chi0n 47.201
_pdbe_chem_comp_rdkit_properties.chi1n 23.319
_pdbe_chem_comp_rdkit_properties.chi2n 4.709
_pdbe_chem_comp_rdkit_properties.chi3n 4.709
_pdbe_chem_comp_rdkit_properties.chi4n 2.941
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -3.010
_pdbe_chem_comp_rdkit_properties.kappa1 12.648
_pdbe_chem_comp_rdkit_properties.kappa2 12.410
_pdbe_chem_comp_rdkit_properties.kappa3 6.650
_pdbe_chem_comp_rdkit_properties.Phi 3.568
#
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
NXX UniChem DrugBank DB04099
NXX UniChem 'KEGG LIGAND' C00857
NXX UniChem ChEBI 18304
NXX UniChem ZINC ZINC000008216447
NXX UniChem HMDB HMDB0001179
NXX UniChem 'PubChem TPHARMA' 57280724
NXX UniChem NMRShiftDB 60020891
NXX UniChem Nikkaji J2.686.411I
NXX UniChem MetaboLights MTBLC18304
NXX UniChem BRENDA 1300
NXX UniChem BRENDA 136900
NXX UniChem BRENDA 1467
NXX UniChem BRENDA 20434
NXX UniChem BRENDA 208342
NXX UniChem BRENDA 51843
NXX UniChem BRENDA 6713
NXX UniChem 'Probes And Drugs' PD059385
NXX UniChem Nikkaji J713.045G
NXX UniChem PubChem 165491
NXX UniChem Nikkaji J667.336H
#
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
NXX O7N 3.145 3.427 2.184 ETKDGv3 1
NXX C7N 3.474 2.183 1.652 ETKDGv3 2
NXX O8N 2.564 1.330 1.465 ETKDGv3 3
NXX C3N 4.876 1.862 1.307 ETKDGv3 4
NXX C4N 5.856 2.760 1.491 ETKDGv3 5
NXX C5N 7.244 2.417 1.143 ETKDGv3 6
NXX C6N 7.519 1.212 0.636 ETKDGv3 7
NXX C2N 5.229 0.532 0.748 ETKDGv3 8
NXX N1N 6.467 0.245 0.420 ETKDGv3 9
NXX C1M 6.826 -1.084 -0.106 ETKDGv3 10
NXX C2M 7.038 -2.081 1.025 ETKDGv3 11
NXX O2M 8.375 -2.081 1.454 ETKDGv3 12
NXX C3M 6.638 -3.386 0.385 ETKDGv3 13
NXX O3M 7.740 -3.972 -0.262 ETKDGv3 14
NXX O4M 5.820 -1.577 -0.967 ETKDGv3 15
NXX C4M 5.599 -2.937 -0.648 ETKDGv3 16
NXX C5M 4.170 -3.108 -0.117 ETKDGv3 17
NXX O5M 3.262 -2.573 -1.052 ETKDGv3 18
NXX PN 1.692 -2.640 -0.388 ETKDGv3 19
NXX O1N 1.318 -4.082 -0.119 ETKDGv3 20
NXX O2N 1.649 -1.747 1.054 ETKDGv3 21
NXX O3A 0.618 -1.981 -1.533 ETKDGv3 22
NXX PA -0.873 -1.706 -0.757 ETKDGv3 23
NXX O1A -1.366 -3.081 0.103 ETKDGv3 24
NXX O2A -0.740 -0.533 0.191 ETKDGv3 25
NXX O5B -2.028 -1.333 -1.955 ETKDGv3 26
NXX C5B -3.284 -1.184 -1.334 ETKDGv3 27
NXX C4B -4.326 -0.769 -2.380 ETKDGv3 28
NXX C3B -4.049 0.633 -2.942 ETKDGv3 29
NXX O3B -4.304 0.687 -4.328 ETKDGv3 30
NXX C2B -5.001 1.502 -2.155 ETKDGv3 31
NXX O2P -5.487 2.583 -2.908 ETKDGv3 32
NXX C1B -6.121 0.532 -1.802 ETKDGv3 33
NXX O4B -5.607 -0.783 -1.782 ETKDGv3 34
NXX N9A -6.706 0.856 -0.502 ETKDGv3 35
NXX C8A -6.116 0.615 0.785 ETKDGv3 36
NXX N7A -6.552 1.409 1.720 ETKDGv3 37
NXX C5A -7.481 2.255 1.052 ETKDGv3 38
NXX C4A -7.555 1.951 -0.215 ETKDGv3 39
NXX C6A -8.152 3.463 1.548 ETKDGv3 40
NXX N6A -8.086 3.839 2.923 ETKDGv3 41
NXX N1A -8.810 4.196 0.689 ETKDGv3 42
NXX C2A -8.871 3.840 -0.715 ETKDGv3 43
NXX N3A -8.261 2.770 -1.155 ETKDGv3 44
NXX HO7N 2.186 3.653 2.422 ETKDGv3 45
NXX H4N 5.650 3.743 1.897 ETKDGv3 46
NXX H5N 8.036 3.137 1.301 ETKDGv3 47
NXX H6N 8.545 0.966 0.389 ETKDGv3 48
NXX H2N 4.443 -0.200 0.617 ETKDGv3 49
NXX H1M 7.761 -1.008 -0.708 ETKDGv3 50
NXX H2M 6.353 -1.852 1.877 ETKDGv3 51
NXX HO2M 8.404 -2.638 2.276 ETKDGv3 52
NXX H3M 6.224 -4.085 1.150 ETKDGv3 53
NXX HO3M 7.475 -4.902 -0.483 ETKDGv3 54
NXX H4M 5.695 -3.541 -1.577 ETKDGv3 55
NXX H5M1 4.094 -2.584 0.862 ETKDGv3 56
NXX H5M2 3.975 -4.195 0.031 ETKDGv3 57
NXX HO2N 1.789 -2.409 1.777 ETKDGv3 58
NXX HO1A -1.505 -3.774 -0.590 ETKDGv3 59
NXX H5B1 -3.253 -0.408 -0.535 ETKDGv3 60
NXX H5B2 -3.611 -2.152 -0.891 ETKDGv3 61
NXX H4B -4.310 -1.521 -3.200 ETKDGv3 62
NXX H3B -3.000 0.961 -2.769 ETKDGv3 63
NXX HO3B -5.234 0.377 -4.486 ETKDGv3 64
NXX H2B -4.497 1.866 -1.228 ETKDGv3 65
NXX HO2P -4.745 3.239 -2.967 ETKDGv3 66
NXX H1B -6.920 0.576 -2.576 ETKDGv3 67
NXX H8A -5.360 -0.137 0.965 ETKDGv3 68
NXX H6A1 -8.565 4.704 3.257 ETKDGv3 69
NXX H6A2 -7.560 3.254 3.610 ETKDGv3 70
NXX H2A -9.414 4.471 -1.405 ETKDGv3 71
#