data_NAD
#
_chem_comp.id NAD
_chem_comp.name NICOTINAMIDE-ADENINE-DINUCLEOTIDE
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula 'C21 H27 N7 O14 P2'
_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 2024-09-27
_chem_comp.pdbx_ambiguous_flag N
_chem_comp.pdbx_release_status REL
_chem_comp.pdbx_replaced_by ?
_chem_comp.pdbx_replaces NAH
_chem_comp.formula_weight 663.425
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code NAD
_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 1C1D
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site RCSB
_chem_comp.pdbx_pcm Y
#
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
NAD PA AP P 0 1 N N S N N N 19.222 51.636 -19.186 -0.887 -0.813 -0.676 PA NAD 1
NAD O1A AO1 O 0 1 N N N N N N 18.340 51.797 -20.358 -1.258 0.102 -1.778 O1A NAD 2
NAD O2A AO2 O 0 1 N N N N N N 18.885 52.533 -18.051 -0.249 -2.159 -1.287 O2A NAD 3
NAD O5B AO5* O 0 1 N N N N N N 20.682 52.134 -19.596 -2.200 -1.182 0.180 O5B NAD 4
NAD C5B AC5* C 0 1 N N N N N N 21.429 51.543 -20.679 -3.159 -1.706 -0.741 C5B NAD 5
NAD C4B AC4* C 0 1 N N R N N N 22.529 52.559 -20.842 -4.437 -2.079 0.012 C4B NAD 6
NAD O4B AO4* O 0 1 N N N N N N 23.479 52.131 -21.867 -5.068 -0.893 0.523 O4B NAD 7
NAD C3B AC3* C 0 1 N N S N N N 22.016 53.911 -21.339 -5.434 -2.754 -0.950 C3B NAD 8
NAD O3B AO3* O 0 1 N N N N N N 22.683 54.999 -20.645 -5.745 -4.078 -0.512 O3B NAD 9
NAD C2B AC2* C 0 1 N N R N N N 22.391 53.799 -22.811 -6.693 -1.850 -0.881 C2B NAD 10
NAD O2B AO2* O 0 1 N N N N N N 22.499 55.103 -23.391 -7.885 -2.638 -0.862 O2B NAD 11
NAD C1B AC1* C 0 1 N N R N N N 23.787 53.193 -22.650 -6.493 -1.116 0.469 C1B NAD 12
NAD N9A AN9 N 0 1 Y N N N N N 24.232 52.627 -23.888 -7.216 0.158 0.479 N9A NAD 13
NAD C8A AC8 C 0 1 Y N N N N N 23.456 52.062 -24.844 -6.723 1.368 0.089 C8A NAD 14
NAD N7A AN7 N 0 1 Y N N N N N 24.163 51.575 -25.870 -7.635 2.286 0.229 N7A NAD 15
NAD C5A AC5 C 0 1 Y N N N N N 25.468 51.899 -25.524 -8.768 1.725 0.717 C5A NAD 16
NAD C6A AC6 C 0 1 Y N N N N N 26.691 51.648 -26.178 -10.042 2.209 1.059 C6A NAD 17
NAD N6A AN6 N 0 1 N N N N N N 26.814 51.028 -27.349 -10.352 3.550 0.916 N6A NAD 18
NAD N1A AN1 N 0 1 Y N N N N N 27.815 52.074 -25.559 -10.942 1.348 1.524 N1A NAD 19
NAD C2A AC2 C 0 1 Y N N N N N 27.688 52.687 -24.351 -10.655 0.067 1.663 C2A NAD 20
NAD N3A AN3 N 0 1 Y N N N N N 26.599 52.942 -23.671 -9.476 -0.431 1.355 N3A NAD 21
NAD C4A AC4 C 0 1 Y N N N N N 25.520 52.541 -24.314 -8.514 0.352 0.878 C4A NAD 22
NAD O3 O3 O 0 1 N N N N N N 19.277 50.088 -18.799 0.191 -0.093 0.279 O3 NAD 23
NAD PN NP P 0 1 N N N N N N 19.601 49.476 -17.337 1.204 0.707 -0.683 PN NAD 24
NAD O1N NO1 O 0 1 N N N N N N 18.411 49.237 -16.475 0.556 2.042 -1.115 O1N NAD 25
NAD O2N NO2 O -1 1 N N N N N N 20.666 50.302 -16.679 1.509 -0.146 -1.934 O2N NAD 26
NAD O5D NO5* O 0 1 N N N N N N 20.109 48.046 -17.867 2.573 1.007 0.109 O5D NAD 27
NAD C5D NC5* C 0 1 N N N N N N 21.466 47.904 -18.399 3.469 1.610 -0.827 C5D NAD 28
NAD C4D NC4* C 0 1 N N R N N N 21.663 46.439 -18.718 4.797 1.921 -0.135 C4D NAD 29
NAD O4D NO4* O 0 1 N N N N N N 21.549 45.687 -17.490 5.467 0.698 0.241 O4D NAD 30
NAD C3D NC3* C 0 1 N N S N N N 20.666 45.828 -19.706 5.767 2.618 -1.115 C3D NAD 31
NAD O3D NO3* O 0 1 N N N N N N 21.260 44.692 -20.357 5.745 4.033 -0.921 O3D NAD 32
NAD C2D NC2* C 0 1 N N R N N N 19.642 45.251 -18.741 7.154 2.040 -0.746 C2D NAD 33
NAD O2D NO2* O 0 1 N N N N N N 18.884 44.196 -19.362 8.031 3.082 -0.314 O2D NAD 34
NAD C1D NC1* C 0 1 N N R N N N 20.561 44.689 -17.680 6.854 1.062 0.411 C1D NAD 35
NAD N1N NN1 N 1 1 Y N N N N N 19.878 44.375 -16.435 7.708 -0.125 0.310 N1N NAD 36
NAD C2N NC2 C 0 1 Y N N N N N 19.056 45.318 -15.824 8.763 -0.222 1.093 C2N NAD 37
NAD C3N NC3 C 0 1 Y N N N N N 18.413 45.064 -14.544 9.601 -1.335 1.017 C3N NAD 38
NAD C7N NC7 C 0 1 N N N N N N 17.732 46.217 -13.899 10.789 -1.442 1.891 C7N NAD 39
NAD O7N NO7 O 0 1 N N N N N N 17.237 45.926 -12.798 11.045 -0.553 2.680 O7N NAD 40
NAD N7N NN7 N 0 1 N N N N N N 17.658 47.471 -14.438 11.588 -2.524 1.813 N7N NAD 41
NAD C4N NC4 C 0 1 Y N N N N N 18.566 43.753 -13.912 9.296 -2.352 0.104 C4N NAD 42
NAD C5N NC5 C 0 1 Y N N N N N 19.471 42.797 -14.637 8.173 -2.204 -0.690 C5N NAD 43
NAD C6N NC6 C 0 1 Y N N N N N 20.037 43.127 -15.786 7.395 -1.067 -0.559 C6N NAD 44
NAD HOA2 2HOA H 0 0 N N N N N N 19.452 52.429 -17.296 -0.021 -2.726 -0.537 HOA2 NAD 45
NAD H51A AH51 H 0 0 N N N N N N 21.763 50.491 -20.516 -3.388 -0.954 -1.495 H51A NAD 46
NAD H52A AH52 H 0 0 N N N N N N 20.843 51.313 -21.600 -2.750 -2.594 -1.225 H52A NAD 47
NAD H4B AH4* H 0 1 N N N N N N 22.987 52.650 -19.829 -4.200 -2.755 0.834 H4B NAD 48
NAD H3B AH3* H 0 1 N N N N N N 20.935 54.127 -21.169 -5.033 -2.773 -1.963 H3B NAD 49
NAD HO3A AHO3 H 0 0 N N N N N N 22.364 55.839 -20.953 -6.415 -4.423 -1.117 HO3A NAD 50
NAD H2B AH2* H 0 1 N N N N N N 21.676 53.232 -23.452 -6.711 -1.142 -1.710 H2B NAD 51
NAD HO2A AHO2 H 0 0 N N N N N N 22.732 55.033 -24.309 -7.951 -3.066 -1.726 HO2A NAD 52
NAD H1B AH1* H 0 1 N N N N N N 24.553 53.917 -22.287 -6.815 -1.745 1.299 H1B NAD 53
NAD H8A AH8 H 0 1 N N N N N N 22.355 52.004 -24.792 -5.724 1.540 -0.282 H8A NAD 54
NAD H61A AH61 H 0 0 N N N N N N 27.699 50.846 -27.822 -9.686 4.168 0.576 H61A NAD 55
NAD H62A AH62 H 0 0 N N N N N N 26.223 51.530 -28.011 -11.235 3.872 1.157 H62A NAD 56
NAD H2A AH2 H 0 1 N N N N N N 28.607 53.029 -23.846 -11.416 -0.598 2.045 H2A NAD 57
NAD H51N NH51 H 0 0 N N N N N N 21.668 48.573 -19.267 3.031 2.533 -1.206 H51N NAD 58
NAD H52N NH52 H 0 0 N N N N N N 22.248 48.313 -17.718 3.643 0.924 -1.656 H52N NAD 59
NAD H4D NH4* H 0 1 N N N N N N 22.665 46.381 -19.202 4.629 2.547 0.742 H4D NAD 60
NAD H3D NH3* H 0 1 N N N N N N 20.301 46.546 -20.477 5.511 2.371 -2.145 H3D NAD 61
NAD HO3N NHO3 H 0 0 N N N N N N 20.641 44.312 -20.970 6.367 4.412 -1.557 HO3N NAD 62
NAD H2D NH2* H 0 1 N N N N N N 18.882 45.980 -18.374 7.583 1.507 -1.594 H2D NAD 63
NAD HO2N NHO2 H 0 0 N N N N N N 18.244 43.835 -18.759 8.130 3.691 -1.060 HO2N NAD 64
NAD H1D NH1* H 0 1 N N N N N N 20.992 43.714 -18.006 7.003 1.554 1.373 H1D NAD 65
NAD H2N NH2 H 0 1 N N N N N N 18.913 46.272 -16.357 8.986 0.570 1.791 H2N NAD 66
NAD H71N NH71 H 0 0 N N N N N N 18.064 47.710 -15.342 12.367 -2.594 2.386 H71N NAD 67
NAD H72N NH72 H 0 0 N N N N N N 17.190 48.262 -13.995 11.382 -3.235 1.186 H72N NAD 68
NAD H4N NH4 H 0 1 N N N N N N 18.044 43.507 -12.971 9.920 -3.229 0.023 H4N NAD 69
NAD H5N NH5 H 0 1 N N N N N N 19.738 41.780 -14.302 7.906 -2.967 -1.406 H5N NAD 70
NAD H6N NH6 H 0 1 N N N N N N 20.665 42.331 -16.219 6.518 -0.948 -1.178 H6N NAD 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
NAD PA O1A DOUB N N 1
NAD PA O2A SING N N 2
NAD PA O5B SING N N 3
NAD PA O3 SING N N 4
NAD O2A HOA2 SING N N 5
NAD O5B C5B SING N N 6
NAD C5B C4B SING N N 7
NAD C5B H51A SING N N 8
NAD C5B H52A SING N N 9
NAD C4B O4B SING N N 10
NAD C4B C3B SING N N 11
NAD C4B H4B SING N N 12
NAD O4B C1B SING N N 13
NAD C3B O3B SING N N 14
NAD C3B C2B SING N N 15
NAD C3B H3B SING N N 16
NAD O3B HO3A SING N N 17
NAD C2B O2B SING N N 18
NAD C2B C1B SING N N 19
NAD C2B H2B SING N N 20
NAD O2B HO2A SING N N 21
NAD C1B N9A SING N N 22
NAD C1B H1B SING N N 23
NAD N9A C8A SING Y N 24
NAD N9A C4A SING Y N 25
NAD C8A N7A DOUB Y N 26
NAD C8A H8A SING N N 27
NAD N7A C5A SING Y N 28
NAD C5A C6A SING Y N 29
NAD C5A C4A DOUB Y N 30
NAD C6A N6A SING N N 31
NAD C6A N1A DOUB Y N 32
NAD N6A H61A SING N N 33
NAD N6A H62A SING N N 34
NAD N1A C2A SING Y N 35
NAD C2A N3A DOUB Y N 36
NAD C2A H2A SING N N 37
NAD N3A C4A SING Y N 38
NAD O3 PN SING N N 39
NAD PN O1N DOUB N N 40
NAD PN O2N SING N N 41
NAD PN O5D SING N N 42
NAD O5D C5D SING N N 43
NAD C5D C4D SING N N 44
NAD C5D H51N SING N N 45
NAD C5D H52N SING N N 46
NAD C4D O4D SING N N 47
NAD C4D C3D SING N N 48
NAD C4D H4D SING N N 49
NAD O4D C1D SING N N 50
NAD C3D O3D SING N N 51
NAD C3D C2D SING N N 52
NAD C3D H3D SING N N 53
NAD O3D HO3N SING N N 54
NAD C2D O2D SING N N 55
NAD C2D C1D SING N N 56
NAD C2D H2D SING N N 57
NAD O2D HO2N SING N N 58
NAD C1D N1N SING N N 59
NAD C1D H1D SING N N 60
NAD N1N C2N SING Y N 61
NAD N1N C6N DOUB Y N 62
NAD C2N C3N DOUB Y N 63
NAD C2N H2N SING N N 64
NAD C3N C7N SING N N 65
NAD C3N C4N SING Y N 66
NAD C7N O7N DOUB N N 67
NAD C7N N7N SING N N 68
NAD N7N H71N SING N N 69
NAD N7N H72N SING N N 70
NAD C4N C5N DOUB Y N 71
NAD C4N H4N SING N N 72
NAD C5N C6N SING Y N 73
NAD C5N H5N SING N N 74
NAD C6N H6N 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
NAD 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)[C@@H]3O)n4cnc5c(N)ncnc45)[C@@H](O)[C@H]2O'
NAD 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)[CH]3O)n4cnc5c(N)ncnc45)[CH](O)[CH]2O'
NAD 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)N'
NAD 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)N'
NAD InChI InChI 1.03 'InChI=1S/C21H27N7O14P2/c22-17-12-19(25-7-24-17)28(8-26-12)21-16(32)14(30)11(41-21)6-39-44(36,37)42-43(34,35)38-5-10-13(29)15(31)20(40-10)27-3-1-2-9(4-27)18(23)33/h1-4,7-8,10-11,13-16,20-21,29-32H,5-6H2,(H5-,22,23,24,25,33,34,35,36,37)/t10-,11-,13-,14-,15-,16-,20-,21-/m1/s1'
NAD InChIKey InChI 1.03 BAWFJGJZGIEFAR-NNYOXOHSSA-N
#
_pdbx_chem_comp_identifier.comp_id NAD
_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,3S,4R,5R)-5-(3-aminocarbonylpyridin-1-ium-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl [[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl] 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
NAD 'Create component' 1999-07-08 RCSB
NAD 'Modify descriptor' 2011-06-04 RCSB
NAD 'Modify PCM' 2024-09-27 PDBE
#
loop_
_pdbx_chem_comp_pcm.pcm_id
_pdbx_chem_comp_pcm.comp_id
_pdbx_chem_comp_pcm.modified_residue_id
_pdbx_chem_comp_pcm.type
_pdbx_chem_comp_pcm.category
_pdbx_chem_comp_pcm.position
_pdbx_chem_comp_pcm.polypeptide_position
_pdbx_chem_comp_pcm.comp_id_linking_atom
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession
_pdbx_chem_comp_pcm.first_instance_model_db_code
1 NAD LYS None 'Covalent chemical modification' 'Amino-acid side chain' 'Any position' O3B NZ ? ? 7AV7
2 NAD LYS None 'Covalent chemical modification' 'Amino-acid side chain' 'Any position' O3D NZ ? ? 6S6W
#
_pdbe_chem_comp_drugbank_details.comp_id NAD
_pdbe_chem_comp_drugbank_details.drugbank_id DB14128
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name Nadide
_pdbe_chem_comp_drugbank_details.description
"A coenzyme composed of ribosylnicotinamide 5'-diphosphate coupled to adenosine 5'-phosphate by pyrophosphate linkage. It is found widely in nature and is involved in numerous enzymatic reactions in which it serves as an electron carrier by being alternately oxidized (NAD+) and reduced (NADH). (Dorland, 27th ed)"
_pdbe_chem_comp_drugbank_details.cas_number 53-84-9
_pdbe_chem_comp_drugbank_details.mechanism_of_action ?
#
loop_
_pdbe_chem_comp_synonyms.comp_id
_pdbe_chem_comp_synonyms.name
_pdbe_chem_comp_synonyms.provenance
_pdbe_chem_comp_synonyms.type
NAD 'beta-Diphosphopyridine nucleotide' DrugBank ?
NAD beta-NAD DrugBank ?
NAD beta-NAD+ DrugBank ?
NAD 'beta-Nicotinamide adenine dinucleotide' DrugBank ?
NAD 'Codehydrase I' DrugBank ?
NAD 'Codehydrogenase I' DrugBank ?
NAD 'Coenzyme I' DrugBank ?
NAD 'Cozymase I' DrugBank ?
NAD 'Diphosphopyridine nucleotide' DrugBank ?
NAD DPN DrugBank ?
NAD NAD DrugBank ?
NAD NAD+ DrugBank ?
NAD Nadide DrugBank ?
NAD Nadidum DrugBank ?
NAD 'Nicotinamide adenine dinucleotide' DrugBank ?
NAD 'Nicotinamide dinucleotide' DrugBank ?
NAD 'Nicotinamide-adenine dinucleotide' DrugBank ?
NAD 'Nicotineamide adenine dinucleotide' DrugBank ?
NAD 'Oxidized diphosphopyridine nucleotide' DrugBank ?
NAD 'Pyridine, nucleotide diphosphate' DrugBank ?
#
_pdbe_chem_comp_drugbank_classification.comp_id NAD
_pdbe_chem_comp_drugbank_classification.drugbank_id DB14128
_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_
_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
NAD PA P 1.344 1.587 1
NAD O1A O 1.863 2.971 2
NAD O2A O 0.820 0.158 3
NAD O5B O 2.841 1.228 4
NAD C5B C 3.439 -0.087 5
NAD C4B C 4.988 -0.190 6
NAD O4B O 5.736 -1.488 7
NAD C3B C 5.993 0.924 8
NAD O3B O 5.683 2.390 9
NAD C2B C 7.363 0.312 10
NAD O2B O 8.664 1.062 11
NAD C1B C 7.206 -1.179 12
NAD N9A N 8.315 -2.189 13
NAD C8A C 8.154 -3.678 14
NAD N7A N 9.523 -4.294 15
NAD C5A C 10.528 -3.180 16
NAD C6A C 12.031 -3.185 17
NAD N6A N 12.777 -4.485 18
NAD N1A N 12.782 -1.887 19
NAD C2A C 12.037 -0.585 20
NAD N3A N 10.535 -0.585 21
NAD C4A C 9.784 -1.879 22
NAD O3 O -0.023 2.305 23
NAD PN P -1.511 1.895 24
NAD O1N O -1.722 3.357 25
NAD O2N O -1.304 0.387 26
NAD O5D O -3.051 1.864 27
NAD C5D C -3.916 0.706 28
NAD C4D C -5.452 0.939 29
NAD O4D O -6.460 -0.173 30
NAD C3D C -6.196 2.239 31
NAD O3D O -5.582 3.609 32
NAD C2D C -7.664 1.934 33
NAD O2D O -8.773 2.941 34
NAD C1D C -7.826 0.443 35
NAD N1N N -9.128 -0.306 36
NAD C2N C -10.422 0.450 37
NAD C3N C -11.727 -0.298 38
NAD C7N C -13.022 0.456 39
NAD O7N O -13.018 1.956 40
NAD N7N N -14.323 -0.291 41
NAD C4N C -11.727 -1.797 42
NAD C5N C -10.433 -2.553 43
NAD C6N C -9.129 -1.805 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
NAD PA O1A DOUBLE NONE 1
NAD PA O2A SINGLE BEGINWEDGE 2
NAD PA O5B SINGLE NONE 3
NAD PA O3 SINGLE NONE 4
NAD O5B C5B SINGLE NONE 5
NAD C4B C5B SINGLE BEGINDASH 6
NAD C4B O4B SINGLE NONE 7
NAD C4B C3B SINGLE NONE 8
NAD O4B C1B SINGLE NONE 9
NAD C3B O3B SINGLE BEGINWEDGE 10
NAD C3B C2B SINGLE NONE 11
NAD C2B O2B SINGLE BEGINWEDGE 12
NAD C2B C1B SINGLE NONE 13
NAD C1B N9A SINGLE BEGINDASH 14
NAD N9A C8A SINGLE NONE 15
NAD N9A C4A SINGLE NONE 16
NAD C8A N7A DOUBLE NONE 17
NAD N7A C5A SINGLE NONE 18
NAD C5A C6A SINGLE NONE 19
NAD C5A C4A DOUBLE NONE 20
NAD C6A N6A SINGLE NONE 21
NAD C6A N1A DOUBLE NONE 22
NAD N1A C2A SINGLE NONE 23
NAD C2A N3A DOUBLE NONE 24
NAD N3A C4A SINGLE NONE 25
NAD O3 PN SINGLE NONE 26
NAD PN O1N DOUBLE NONE 27
NAD PN O2N SINGLE BEGINWEDGE 28
NAD PN O5D SINGLE NONE 29
NAD O5D C5D SINGLE NONE 30
NAD C4D C5D SINGLE BEGINWEDGE 31
NAD C4D O4D SINGLE NONE 32
NAD C4D C3D SINGLE NONE 33
NAD O4D C1D SINGLE NONE 34
NAD C3D O3D SINGLE BEGINDASH 35
NAD C3D C2D SINGLE NONE 36
NAD C2D O2D SINGLE BEGINDASH 37
NAD C2D C1D SINGLE NONE 38
NAD C1D N1N SINGLE BEGINWEDGE 39
NAD N1N C2N DOUBLE NONE 40
NAD N1N C6N SINGLE NONE 41
NAD C2N C3N SINGLE NONE 42
NAD C3N C7N SINGLE NONE 43
NAD C3N C4N DOUBLE NONE 44
NAD C7N O7N DOUBLE NONE 45
NAD C7N N7N SINGLE NONE 46
NAD C4N C5N SINGLE NONE 47
NAD C5N C6N DOUBLE 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
NAD 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
NAD 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
NAD amide F2 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
NAD imidazole F3 fragment 'c1c[nH]cn1' InChI=1S/C3H4N2/c1-2-5-3-4-1/h1-3H,(H,4,5) RAXXELZNTBOGNW-UHFFFAOYSA-N
NAD 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
NAD 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
NAD pyridine F6 fragment c1ccncc1 InChI=1S/C5H5N/c1-2-4-6-5-3-1/h1-5H JUJWROOIHBZHMG-UHFFFAOYSA-N
NAD pyrimidine F7 fragment c1cncnc1 InChI=1S/C4H4N2/c1-2-5-4-6-3-1/h1-4H CZPWVGJYEJSRLH-UHFFFAOYSA-N
NAD 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
NAD PA S1 1
NAD O1A S1 1
NAD O5B S1 1
NAD C5B S1 1
NAD C4B S1 1
NAD O4B S1 1
NAD C3B S1 1
NAD C2B S1 1
NAD C1B S1 1
NAD N9A S1 1
NAD C8A S1 1
NAD N7A S1 1
NAD C5A S1 1
NAD C6A S1 1
NAD N1A S1 1
NAD C2A S1 1
NAD N3A S1 1
NAD C4A S1 1
NAD O3 S1 1
NAD PN S1 1
NAD O1N S1 1
NAD O5D S1 1
NAD C5D S1 1
NAD C4D S1 1
NAD O4D S1 1
NAD C3D S1 1
NAD C2D S1 1
NAD C1D S1 1
NAD N1N S1 1
NAD C2N S1 1
NAD C3N S1 1
NAD C4N S1 1
NAD C5N S1 1
NAD C6N S1 1
NAD N1A F1 1
NAD C6A F1 1
NAD C5A F1 1
NAD C4A F1 1
NAD N3A F1 1
NAD C2A F1 1
NAD N9A F1 1
NAD C8A F1 1
NAD N7A F1 1
NAD N6A F1 1
NAD N7N F2 1
NAD C7N F2 1
NAD O7N F2 1
NAD C3N F2 1
NAD C5A F3 1
NAD C4A F3 1
NAD N9A F3 1
NAD C8A F3 1
NAD N7A F3 1
NAD O2A F4 1
NAD PA F4 1
NAD O1A F4 1
NAD O5B F4 1
NAD O3 F4 1
NAD O3 F4 2
NAD PN F4 2
NAD O1N F4 2
NAD O2N F4 2
NAD O5D F4 2
NAD N7A F5 1
NAD C8A F5 1
NAD N9A F5 1
NAD C4A F5 1
NAD C5A F5 1
NAD C6A F5 1
NAD N1A F5 1
NAD C2A F5 1
NAD N3A F5 1
NAD C2N F6 1
NAD C3N F6 1
NAD C4N F6 1
NAD C5N F6 1
NAD C6N F6 1
NAD N1N F6 1
NAD C5A F7 1
NAD C6A F7 1
NAD N1A F7 1
NAD C2A F7 1
NAD N3A F7 1
NAD C4A F7 1
NAD C2B F8 1
NAD C3B F8 1
NAD C4B F8 1
NAD O4B F8 1
NAD C1B F8 1
NAD C5B F8 1
NAD O5B F8 1
NAD O3B F8 1
NAD O2B F8 1
NAD C2D F8 2
NAD C3D F8 2
NAD C4D F8 2
NAD O4D F8 2
NAD C1D F8 2
NAD C5D F8 2
NAD O5D F8 2
NAD O3D F8 2
NAD O2D F8 2
#
_pdbe_chem_comp_rdkit_properties.comp_id NAD
_pdbe_chem_comp_rdkit_properties.exactmw 663.109
_pdbe_chem_comp_rdkit_properties.amw 663.430
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 21
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 9
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 17
_pdbe_chem_comp_rdkit_properties.NumHBD 7
_pdbe_chem_comp_rdkit_properties.NumHBA 19
_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 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 284.554
_pdbe_chem_comp_rdkit_properties.tpsa 321.090
_pdbe_chem_comp_rdkit_properties.CrippenClogP -4.512
_pdbe_chem_comp_rdkit_properties.CrippenMR 133.862
_pdbe_chem_comp_rdkit_properties.chi0v 22.029
_pdbe_chem_comp_rdkit_properties.chi1v 13.508
_pdbe_chem_comp_rdkit_properties.chi2v 6.949
_pdbe_chem_comp_rdkit_properties.chi3v 6.949
_pdbe_chem_comp_rdkit_properties.chi4v 4.582
_pdbe_chem_comp_rdkit_properties.chi0n 47.240
_pdbe_chem_comp_rdkit_properties.chi1n 23.417
_pdbe_chem_comp_rdkit_properties.chi2n 4.719
_pdbe_chem_comp_rdkit_properties.chi3n 4.719
_pdbe_chem_comp_rdkit_properties.chi4n 2.946
_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
NAD UniChem ChEMBL CHEMBL1234613
NAD UniChem DrugBank DB14128
NAD UniChem PDBe NAD
NAD UniChem PDBe NAJ
NAD UniChem 'Guide to Pharmacology' 2451
NAD UniChem ChEBI 44215
NAD UniChem eMolecules 5851218
NAD UniChem fdasrs 0U46U6E8UK
NAD UniChem SureChEMBL SCHEMBL131544
NAD UniChem HMDB HMDB0000902
NAD UniChem Selleck nad
NAD UniChem 'PubChem TPHARMA' 14790299
NAD UniChem 'PubChem TPHARMA' 14912780
NAD UniChem 'PubChem TPHARMA' 15945116
NAD UniChem PubChem 10897651
NAD UniChem PubChem 5288979
NAD UniChem PubChem 5892
NAD UniChem PubChem 73415790
NAD UniChem NMRShiftDB 60020690
NAD UniChem ACTor 159929-29-0
NAD UniChem BindingDb 213227
NAD UniChem 'EPA CompTox Dashboard' DTXSID2045236
NAD UniChem DrugCentral 4140
NAD UniChem MetaboLights MTBLC44215
NAD UniChem DailyMed NADIDE
NAD UniChem ClinicalTrials NADIDE
NAD UniChem MedChemExpress HY-B0445
NAD UniChem 'Probes And Drugs' PD001848
#
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
NAD PA -1.374 -1.767 -0.291 ETKDGv3 1
NAD O1A -1.270 -2.355 -1.682 ETKDGv3 2
NAD O2A -2.498 -2.642 0.631 ETKDGv3 3
NAD O5B -1.868 -0.138 -0.399 ETKDGv3 4
NAD C5B -3.152 -0.094 -0.978 ETKDGv3 5
NAD C4B -3.617 1.362 -1.080 ETKDGv3 6
NAD O4B -4.880 1.414 -1.701 ETKDGv3 7
NAD C3B -3.740 2.029 0.282 ETKDGv3 8
NAD O3B -2.511 2.577 0.685 ETKDGv3 9
NAD C2B -4.793 3.086 0.034 ETKDGv3 10
NAD O2B -4.207 4.316 -0.315 ETKDGv3 11
NAD C1B -5.566 2.528 -1.168 ETKDGv3 12
NAD N9A -6.918 2.128 -0.778 ETKDGv3 13
NAD C8A -8.022 3.018 -0.552 ETKDGv3 14
NAD N7A -8.938 2.532 0.235 ETKDGv3 15
NAD C5A -8.445 1.245 0.588 ETKDGv3 16
NAD C6A -8.965 0.295 1.580 ETKDGv3 17
NAD N6A -10.218 0.508 2.228 ETKDGv3 18
NAD N1A -8.242 -0.756 1.861 ETKDGv3 19
NAD C2A -6.959 -0.980 1.224 ETKDGv3 20
NAD N3A -6.495 -0.125 0.351 ETKDGv3 21
NAD C4A -7.290 1.022 0.025 ETKDGv3 22
NAD O3 0.156 -1.795 0.456 ETKDGv3 23
NAD PN 0.557 -3.421 0.775 ETKDGv3 24
NAD O1N 0.427 -4.271 -0.471 ETKDGv3 25
NAD O2N -0.460 -4.037 1.978 ETKDGv3 26
NAD O5D 2.161 -3.501 1.347 ETKDGv3 27
NAD C5D 3.008 -2.932 0.376 ETKDGv3 28
NAD C4D 4.455 -2.954 0.883 ETKDGv3 29
NAD O4D 5.314 -2.539 -0.162 ETKDGv3 30
NAD C3D 4.652 -2.031 2.098 ETKDGv3 31
NAD O3D 5.425 -2.659 3.095 ETKDGv3 32
NAD C2D 5.350 -0.832 1.505 ETKDGv3 33
NAD O2D 6.260 -0.259 2.408 ETKDGv3 34
NAD C1D 6.054 -1.426 0.292 ETKDGv3 35
NAD N1N 6.187 -0.425 -0.780 ETKDGv3 36
NAD C2N 7.305 0.247 -0.915 ETKDGv3 37
NAD C3N 7.449 1.291 -1.964 ETKDGv3 38
NAD C7N 8.719 2.038 -2.133 ETKDGv3 39
NAD O7N 8.714 3.163 -2.703 ETKDGv3 40
NAD N7N 9.963 1.504 -1.672 ETKDGv3 41
NAD C4N 6.390 1.559 -2.746 ETKDGv3 42
NAD C5N 5.134 0.812 -2.572 ETKDGv3 43
NAD C6N 5.054 -0.132 -1.631 ETKDGv3 44
NAD HOA2 -3.138 -3.017 -0.025 ETKDGv3 45
NAD H51A -3.886 -0.662 -0.364 ETKDGv3 46
NAD H52A -3.130 -0.519 -2.007 ETKDGv3 47
NAD H4B -2.893 1.924 -1.714 ETKDGv3 48
NAD H3B -4.113 1.301 1.040 ETKDGv3 49
NAD HO3A -2.617 2.829 1.640 ETKDGv3 50
NAD H2B -5.448 3.205 0.929 ETKDGv3 51
NAD HO2A -4.013 4.793 0.534 ETKDGv3 52
NAD H1B -5.648 3.299 -1.966 ETKDGv3 53
NAD H8A -8.079 4.014 -0.970 ETKDGv3 54
NAD H61A -10.797 1.348 2.005 ETKDGv3 55
NAD H62A -10.571 -0.175 2.934 ETKDGv3 56
NAD H2A -6.376 -1.853 1.482 ETKDGv3 57
NAD H51N 2.965 -3.523 -0.568 ETKDGv3 58
NAD H52N 2.724 -1.877 0.161 ETKDGv3 59
NAD H4D 4.709 -4.004 1.152 ETKDGv3 60
NAD H3D 3.686 -1.720 2.555 ETKDGv3 61
NAD HO3N 6.283 -2.951 2.687 ETKDGv3 62
NAD H2D 4.583 -0.083 1.193 ETKDGv3 63
NAD HO2N 6.538 0.609 2.013 ETKDGv3 64
NAD H1D 7.059 -1.805 0.595 ETKDGv3 65
NAD H2N 8.129 0.066 -0.236 ETKDGv3 66
NAD H71N 10.834 2.074 -1.748 ETKDGv3 67
NAD H72N 10.047 0.519 -1.337 ETKDGv3 68
NAD H4N 6.442 2.313 -3.521 ETKDGv3 69
NAD H5N 4.282 1.030 -3.203 ETKDGv3 70
NAD H6N 4.122 -0.670 -1.507 ETKDGv3 71
#