data_NWW
#
_chem_comp.id NWW
_chem_comp.name (2~{S},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolane-2-carboxamide
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C10 H12 N6 O4"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2020-01-02
_chem_comp.pdbx_modified_date 2020-02-28
_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 280.240
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code NWW
_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 6TTV
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site PDBE
#
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
NWW C4 C1 C 0 1 Y N N N N N 10.142 -16.453 -11.385 1.914 -0.198 -0.280 C4 NWW 1
NWW C5 C2 C 0 1 Y N N N N N 9.627 -15.587 -12.348 2.834 0.765 0.167 C5 NWW 2
NWW C6 C3 C 0 1 Y N N N N N 9.325 -14.237 -11.968 4.200 0.434 0.155 C6 NWW 3
NWW C8 C4 C 0 1 Y N N N N N 9.952 -17.550 -13.261 0.855 1.635 0.336 C8 NWW 4
NWW N1 N1 N 0 1 Y N N N N N 9.563 -13.862 -10.710 4.555 -0.771 -0.279 N1 NWW 5
NWW N3 N2 N 0 1 Y N N N N N 10.345 -15.996 -10.114 2.364 -1.377 -0.696 N3 NWW 6
NWW C2 C5 C 0 1 Y N N N N N 10.057 -14.749 -9.802 3.653 -1.644 -0.690 C2 NWW 7
NWW CAW C6 C 0 1 N N N N N N 13.361 -20.709 -12.764 -3.978 1.072 -0.232 CAW NWW 8
NWW CBB C7 C 0 1 N N S N N N 11.344 -20.950 -11.198 -2.660 -0.868 0.651 CBB NWW 9
NWW CBC C8 C 0 1 N N R N N N 10.347 -19.977 -11.759 -1.131 -1.088 0.680 CBC NWW 10
NWW CBD C9 C 0 1 N N S N N N 12.728 -20.220 -11.464 -2.882 0.085 -0.544 CBD NWW 11
NWW CBE C10 C 0 1 N N R N N N 10.853 -18.813 -11.305 -0.607 -0.243 -0.502 CBE NWW 12
NWW N6 N3 N 0 1 N N N N N N 8.795 -13.270 -12.935 5.152 1.341 0.584 N6 NWW 13
NWW N7 N4 N 0 1 Y N N N N N 9.533 -16.297 -13.495 2.122 1.859 0.529 N7 NWW 14
NWW N9 N5 N 0 1 Y N N N N N 10.322 -17.657 -11.973 0.674 0.377 -0.157 N9 NWW 15
NWW NAT N6 N 0 1 N N N N N N 14.573 -21.524 -12.729 -5.241 0.640 -0.047 NAT NWW 16
NWW OAC O1 O 0 1 N N N N N N 12.841 -20.410 -13.831 -3.723 2.254 -0.147 OAC NWW 17
NWW OAD O2 O 0 1 N N N N N N 11.182 -21.059 -9.888 -3.340 -2.106 0.437 OAD NWW 18
NWW OAE O3 O 0 1 N N N N N N 8.973 -20.206 -11.196 -0.820 -2.469 0.486 OAE NWW 19
NWW OAU O4 O 0 1 N N N N N N 12.437 -18.958 -11.577 -1.622 0.770 -0.710 OAU NWW 20
NWW H1 H1 H 0 1 N N N N N N 9.986 -18.345 -13.991 0.063 2.339 0.543 H1 NWW 21
NWW H2 H2 H 0 1 N N N N N N 10.219 -14.417 -8.787 3.986 -2.612 -1.035 H2 NWW 22
NWW H3 H3 H 0 1 N N N N N N 11.313 -21.908 -11.738 -2.997 -0.404 1.578 H3 NWW 23
NWW H4 H4 H 0 1 N N N N N N 10.327 -20.036 -12.857 -0.712 -0.730 1.621 H4 NWW 24
NWW H5 H5 H 0 1 N N N N N N 13.406 -20.432 -10.624 -3.128 -0.482 -1.442 H5 NWW 25
NWW H6 H6 H 0 1 N N N N N N 10.710 -18.714 -10.219 -0.501 -0.862 -1.393 H6 NWW 26
NWW H7 H7 H 0 1 N N N N N N 8.672 -12.384 -12.488 4.880 2.218 0.898 H7 NWW 27
NWW H8 H8 H 0 1 N N N N N N 9.437 -13.173 -13.695 6.092 1.101 0.570 H8 NWW 28
NWW H9 H9 H 0 1 N N N N N N 14.986 -21.843 -13.582 -5.445 -0.306 -0.115 H9 NWW 29
NWW H10 H10 H 0 1 N N N N N N 14.990 -21.763 -11.852 -5.946 1.275 0.154 H10 NWW 30
NWW H11 H11 H 0 1 N N N N N N 11.816 -21.676 -9.540 -4.302 -2.023 0.380 H11 NWW 31
NWW H12 H12 H 0 1 N N N N N N 8.629 -21.029 -11.524 -1.126 -3.046 1.199 H12 NWW 32
#
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
NWW OAC CAW DOUB N N 1
NWW N7 C8 DOUB Y N 2
NWW N7 C5 SING Y N 3
NWW C8 N9 SING Y N 4
NWW N6 C6 SING N N 5
NWW CAW NAT SING N N 6
NWW CAW CBD SING N N 7
NWW C5 C6 DOUB Y N 8
NWW C5 C4 SING Y N 9
NWW N9 C4 SING Y N 10
NWW N9 CBE SING N N 11
NWW C6 N1 SING Y N 12
NWW CBC CBE SING N N 13
NWW CBC CBB SING N N 14
NWW CBC OAE SING N N 15
NWW OAU CBD SING N N 16
NWW OAU CBE SING N N 17
NWW CBD CBB SING N N 18
NWW C4 N3 DOUB Y N 19
NWW CBB OAD SING N N 20
NWW N1 C2 DOUB Y N 21
NWW N3 C2 SING Y N 22
NWW C8 H1 SING N N 23
NWW C2 H2 SING N N 24
NWW CBB H3 SING N N 25
NWW CBC H4 SING N N 26
NWW CBD H5 SING N N 27
NWW CBE H6 SING N N 28
NWW N6 H7 SING N N 29
NWW N6 H8 SING N N 30
NWW NAT H9 SING N N 31
NWW NAT H10 SING N N 32
NWW OAD H11 SING N N 33
NWW OAE H12 SING N N 34
#
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
NWW InChI InChI 1.03 InChI=1S/C10H12N6O4/c11-7-3-9(14-1-13-7)16(2-15-3)10-5(18)4(17)6(20-10)8(12)19/h1-2,4-6,10,17-18H,(H2,12,19)(H2,11,13,14)/t4-,5+,6-,10+/m0/s1
NWW InChIKey InChI 1.03 BLMHAOGGJQDPLX-LKCKTBJASA-N
NWW SMILES_CANONICAL CACTVS 3.385 NC(=O)[C@H]1O[C@H]([C@H](O)[C@@H]1O)n2cnc3c(N)ncnc23
NWW SMILES CACTVS 3.385 NC(=O)[CH]1O[CH]([CH](O)[CH]1O)n2cnc3c(N)ncnc23
NWW SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)C(=O)N)O)O)N
NWW SMILES "OpenEye OEToolkits" 2.0.7 c1nc(c2c(n1)n(cn2)C3C(C(C(O3)C(=O)N)O)O)N
#
_pdbx_chem_comp_identifier.comp_id NWW
_pdbx_chem_comp_identifier.type "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version 2.0.7
_pdbx_chem_comp_identifier.identifier
(2~{S},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolane-2-carboxamide
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
NWW 'Create component' 2020-01-02 PDBE
NWW 'Initial release' 2020-03-04 RCSB
#
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
NWW C4 C 5.598 -1.000 1
NWW C5 C 5.598 -2.500 2
NWW C6 C 4.299 -3.250 3
NWW C8 C 7.893 -1.750 4
NWW N1 N 3.000 -2.500 5
NWW N3 N 4.299 -0.250 6
NWW C2 C 3.000 -1.000 7
NWW CAW C 10.129 3.723 8
NWW CBB C 7.487 3.310 9
NWW CBC C 6.604 2.098 10
NWW CBD C 8.913 2.844 11
NWW CBE C 7.483 0.883 12
NWW N6 N 4.299 -4.750 13
NWW N7 N 7.018 -2.957 14
NWW N9 N 7.018 -0.543 15
NWW NAT N 11.498 3.111 16
NWW OAC O 9.974 5.215 17
NWW OAD O 7.027 4.737 18
NWW OAE O 5.104 2.100 19
NWW OAU O 8.911 1.344 20
#
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
NWW OAC CAW DOUBLE NONE 1
NWW N7 C8 DOUBLE NONE 2
NWW N7 C5 SINGLE NONE 3
NWW C8 N9 SINGLE NONE 4
NWW N6 C6 SINGLE NONE 5
NWW CAW NAT SINGLE NONE 6
NWW CBD CAW SINGLE BEGINWEDGE 7
NWW C5 C6 DOUBLE NONE 8
NWW C5 C4 SINGLE NONE 9
NWW N9 C4 SINGLE NONE 10
NWW CBE N9 SINGLE BEGINWEDGE 11
NWW C6 N1 SINGLE NONE 12
NWW CBC CBE SINGLE NONE 13
NWW CBC CBB SINGLE NONE 14
NWW CBC OAE SINGLE BEGINDASH 15
NWW OAU CBD SINGLE NONE 16
NWW OAU CBE SINGLE NONE 17
NWW CBD CBB SINGLE NONE 18
NWW C4 N3 DOUBLE NONE 19
NWW CBB OAD SINGLE BEGINDASH 20
NWW N1 C2 DOUBLE NONE 21
NWW N3 C2 SINGLE NONE 22
#
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
NWW 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
NWW 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
NWW amide F2 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
NWW imidazole F3 fragment 'c1c[nH]cn1' InChI=1S/C3H4N2/c1-2-5-3-4-1/h1-3H,(H,4,5) RAXXELZNTBOGNW-UHFFFAOYSA-N
NWW 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
NWW pyrimidine F5 fragment c1cncnc1 InChI=1S/C4H4N2/c1-2-5-4-6-3-1/h1-4H CZPWVGJYEJSRLH-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
NWW C4 S1 1
NWW C5 S1 1
NWW C6 S1 1
NWW C8 S1 1
NWW N1 S1 1
NWW N3 S1 1
NWW C2 S1 1
NWW CBB S1 1
NWW CBC S1 1
NWW CBD S1 1
NWW CBE S1 1
NWW N7 S1 1
NWW N9 S1 1
NWW OAU S1 1
NWW N1 F1 1
NWW C6 F1 1
NWW C5 F1 1
NWW C4 F1 1
NWW N3 F1 1
NWW C2 F1 1
NWW N9 F1 1
NWW C8 F1 1
NWW N7 F1 1
NWW N6 F1 1
NWW NAT F2 1
NWW CAW F2 1
NWW OAC F2 1
NWW CBD F2 1
NWW C4 F3 1
NWW C5 F3 1
NWW N7 F3 1
NWW C8 F3 1
NWW N9 F3 1
NWW N7 F4 1
NWW C8 F4 1
NWW N9 F4 1
NWW C4 F4 1
NWW C5 F4 1
NWW C6 F4 1
NWW N1 F4 1
NWW C2 F4 1
NWW N3 F4 1
NWW C5 F5 1
NWW C6 F5 1
NWW N1 F5 1
NWW C2 F5 1
NWW N3 F5 1
NWW C4 F5 1
#
_pdbe_chem_comp_rdkit_properties.comp_id NWW
_pdbe_chem_comp_rdkit_properties.exactmw 280.092
_pdbe_chem_comp_rdkit_properties.amw 280.244
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 10
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 6
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 5
_pdbe_chem_comp_rdkit_properties.NumHBD 4
_pdbe_chem_comp_rdkit_properties.NumHBA 9
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 20
_pdbe_chem_comp_rdkit_properties.NumAtoms 32
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 10
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.400
_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 4
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 128.819
_pdbe_chem_comp_rdkit_properties.tpsa 162.400
_pdbe_chem_comp_rdkit_properties.CrippenClogP -3.296
_pdbe_chem_comp_rdkit_properties.CrippenMR 61.823
_pdbe_chem_comp_rdkit_properties.chi0v 9.316
_pdbe_chem_comp_rdkit_properties.chi1v 4.980
_pdbe_chem_comp_rdkit_properties.chi2v 2.412
_pdbe_chem_comp_rdkit_properties.chi3v 2.412
_pdbe_chem_comp_rdkit_properties.chi4v 1.548
_pdbe_chem_comp_rdkit_properties.chi0n 21.316
_pdbe_chem_comp_rdkit_properties.chi1n 10.586
_pdbe_chem_comp_rdkit_properties.chi2n 2.412
_pdbe_chem_comp_rdkit_properties.chi3n 2.412
_pdbe_chem_comp_rdkit_properties.chi4n 1.548
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -2.300
_pdbe_chem_comp_rdkit_properties.kappa1 4.912
_pdbe_chem_comp_rdkit_properties.kappa2 4.368
_pdbe_chem_comp_rdkit_properties.kappa3 1.698
_pdbe_chem_comp_rdkit_properties.Phi 1.073
#
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
NWW UniChem ChEMBL CHEMBL4778617
NWW UniChem PDBe NWW
NWW UniChem ZINC ZINC000005163032
NWW UniChem SureChEMBL SCHEMBL13889874
NWW UniChem BRENDA 143945
NWW UniChem BRENDA 42888
NWW UniChem Nikkaji J48.293E
NWW UniChem 'PubChem TPHARMA' 15344480
NWW UniChem PubChem 97692
#
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
NWW C4 -1.953 -0.045 -0.028 ETKDGv3 1
NWW C5 -2.733 1.099 -0.329 ETKDGv3 2
NWW C6 -4.042 0.983 -0.548 ETKDGv3 3
NWW C8 -0.759 1.819 0.208 ETKDGv3 4
NWW N1 -4.608 -0.347 -0.501 ETKDGv3 5
NWW N3 -2.458 -1.236 0.080 ETKDGv3 6
NWW C2 -3.868 -1.392 -0.207 ETKDGv3 7
NWW CAW 3.400 1.081 0.190 ETKDGv3 8
NWW CBB 2.158 -1.027 -0.300 ETKDGv3 9
NWW CBC 0.864 -1.562 0.261 ETKDGv3 10
NWW CBD 2.588 -0.041 0.774 ETKDGv3 11
NWW CBE 0.347 -0.375 1.074 ETKDGv3 12
NWW N6 -4.872 2.120 -0.786 ETKDGv3 13
NWW N7 -1.934 2.261 -0.161 ETKDGv3 14
NWW N9 -0.646 0.382 0.306 ETKDGv3 15
NWW NAT 4.821 0.974 0.106 ETKDGv3 16
NWW OAC 2.824 2.103 -0.273 ETKDGv3 17
NWW OAD 3.123 -2.030 -0.480 ETKDGv3 18
NWW OAE 1.098 -2.651 1.121 ETKDGv3 19
NWW OAU 1.435 0.466 1.409 ETKDGv3 20
NWW H1 0.056 2.492 0.439 ETKDGv3 21
NWW H2 -4.317 -2.375 -0.170 ETKDGv3 22
NWW H3 1.954 -0.497 -1.262 ETKDGv3 23
NWW H4 0.164 -1.852 -0.557 ETKDGv3 24
NWW H5 3.197 -0.565 1.544 ETKDGv3 25
NWW H6 -0.131 -0.726 2.015 ETKDGv3 26
NWW H7 -4.473 3.085 -0.814 ETKDGv3 27
NWW H8 -5.897 1.994 -0.939 ETKDGv3 28
NWW H9 5.313 0.121 0.454 ETKDGv3 29
NWW H10 5.383 1.746 -0.315 ETKDGv3 30
NWW H11 2.851 -2.537 -1.289 ETKDGv3 31
NWW H12 1.115 -3.466 0.555 ETKDGv3 32
#