data_NOU
#
_chem_comp.id NOU
_chem_comp.name "(2S)-2-amino-4-[(pyridin-2-yl)amino]butanoic acid"
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C9 H13 N3 O2"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2022-04-07
_chem_comp.pdbx_modified_date 2023-08-25
_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 195.218
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code NOU
_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 7ULU
_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
NOU C2 C1 C 0 1 Y N N N N N 13.147 3.376 -4.100 -4.499 0.888 0.332 C2 NOU 1
NOU C4 C2 C 0 1 Y N N N N N 11.667 3.704 -2.309 -2.263 0.361 0.105 C4 NOU 2
NOU C5 C3 C 0 1 Y N N N N N 12.022 2.478 -1.757 -2.575 -0.892 -0.412 C5 NOU 3
NOU C6 C4 C 0 1 Y N N N N N 12.963 1.690 -2.410 -3.903 -1.250 -0.554 C6 NOU 4
NOU C7 C5 C 0 1 Y N N N N N 13.532 2.143 -3.591 -4.879 -0.339 -0.174 C7 NOU 5
NOU C9 C6 C 0 1 N N N N N N 9.657 3.898 -0.967 0.135 -0.191 -0.134 C9 NOU 6
NOU C10 C7 C 0 1 N N N N N N 8.320 4.157 -1.649 1.495 0.459 0.129 C10 NOU 7
NOU O13 O1 O 0 1 N N N N N N 8.147 6.954 0.153 4.373 1.019 -1.087 O13 NOU 8
NOU C11 C8 C 0 1 N N S N N N 7.371 4.891 -0.711 2.609 -0.507 -0.276 C11 NOU 9
NOU C12 C9 C 0 1 N N N N N N 7.635 6.360 -0.822 3.944 0.177 -0.132 C12 NOU 10
NOU N15 N1 N 0 1 N N N N N N 5.954 4.566 -1.036 2.571 -1.691 0.593 N15 NOU 11
NOU N3 N2 N 0 1 Y N N N N N 12.239 4.123 -3.460 -3.223 1.202 0.457 N3 NOU 12
NOU N8 N3 N 0 1 N N N N N N 10.758 4.491 -1.692 -0.932 0.734 0.254 N8 NOU 13
NOU O14 O2 O 0 1 N N N N N N 7.333 6.926 -1.896 4.629 -0.031 0.841 O14 NOU 14
NOU H1 H1 H 0 1 N N N N N N 13.584 3.736 -5.020 -5.255 1.601 0.625 H1 NOU 15
NOU H2 H2 H 0 1 N N N N N N 11.573 2.143 -0.834 -1.790 -1.577 -0.699 H2 NOU 16
NOU H3 H3 H 0 1 N N N N N N 13.249 0.732 -2.001 -4.175 -2.217 -0.952 H3 NOU 17
NOU H4 H4 H 0 1 N N N N N N 14.266 1.543 -4.109 -5.926 -0.588 -0.272 H4 NOU 18
NOU H5 H5 H 0 1 N N N N N N 9.818 2.812 -0.902 0.044 -0.427 -1.194 H5 NOU 19
NOU H6 H6 H 0 1 N N N N N N 9.628 4.325 0.046 0.052 -1.108 0.450 H6 NOU 20
NOU H7 H7 H 0 1 N N N N N N 8.486 4.770 -2.547 1.578 1.375 -0.455 H7 NOU 21
NOU H8 H8 H 0 1 N N N N N N 7.870 3.196 -1.939 1.586 0.695 1.189 H8 NOU 22
NOU H9 H9 H 0 1 N N N N N N 8.260 7.873 -0.059 5.236 1.434 -0.951 H9 NOU 23
NOU H10 H10 H 0 1 N N N N N N 7.583 4.570 0.320 2.467 -0.812 -1.312 H10 NOU 24
NOU H11 H11 H 0 1 N N N N N N 5.347 5.056 -0.411 2.701 -1.434 1.560 H11 NOU 25
NOU H12 H12 H 0 1 N N N N N N 5.756 4.842 -1.977 1.711 -2.204 0.467 H12 NOU 26
NOU H14 H14 H 0 1 N N N N N N 11.262 5.056 -1.039 -0.711 1.607 0.614 H14 NOU 27
#
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
NOU C2 C7 DOUB Y N 1
NOU C2 N3 SING Y N 2
NOU C7 C6 SING Y N 3
NOU N3 C4 DOUB Y N 4
NOU C6 C5 DOUB Y N 5
NOU C4 C5 SING Y N 6
NOU C4 N8 SING N N 7
NOU O14 C12 DOUB N N 8
NOU N8 C9 SING N N 9
NOU C10 C9 SING N N 10
NOU C10 C11 SING N N 11
NOU N15 C11 SING N N 12
NOU C12 C11 SING N N 13
NOU C12 O13 SING N N 14
NOU C2 H1 SING N N 15
NOU C5 H2 SING N N 16
NOU C6 H3 SING N N 17
NOU C7 H4 SING N N 18
NOU C9 H5 SING N N 19
NOU C9 H6 SING N N 20
NOU C10 H7 SING N N 21
NOU C10 H8 SING N N 22
NOU O13 H9 SING N N 23
NOU C11 H10 SING N N 24
NOU N15 H11 SING N N 25
NOU N15 H12 SING N N 26
NOU N8 H14 SING N N 27
#
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
NOU SMILES ACDLabs 12.01 O=C(O)C(N)CCNc1ccccn1
NOU InChI InChI 1.03 InChI=1S/C9H13N3O2/c10-7(9(13)14)4-6-12-8-3-1-2-5-11-8/h1-3,5,7H,4,6,10H2,(H,11,12)(H,13,14)/t7-/m0/s1
NOU InChIKey InChI 1.03 QJIQHEBKRNDRHG-ZETCQYMHSA-N
NOU SMILES_CANONICAL CACTVS 3.385 N[C@@H](CCNc1ccccn1)C(O)=O
NOU SMILES CACTVS 3.385 N[CH](CCNc1ccccn1)C(O)=O
NOU SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 c1ccnc(c1)NCC[C@@H](C(=O)O)N
NOU SMILES "OpenEye OEToolkits" 2.0.7 c1ccnc(c1)NCCC(C(=O)O)N
#
loop_
_pdbx_chem_comp_identifier.comp_id
_pdbx_chem_comp_identifier.type
_pdbx_chem_comp_identifier.program
_pdbx_chem_comp_identifier.program_version
_pdbx_chem_comp_identifier.identifier
NOU "SYSTEMATIC NAME" ACDLabs 12.01 "(2S)-2-amino-4-[(pyridin-2-yl)amino]butanoic acid"
NOU "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(2~{S})-2-azanyl-4-(pyridin-2-ylamino)butanoic 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
NOU 'Create component' 2022-04-07 RCSB
NOU 'Initial release' 2023-08-30 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
NOU C2 C 14.198 0.000 1
NOU C4 C 11.600 0.000 2
NOU C5 C 11.600 1.500 3
NOU C6 C 12.899 2.250 4
NOU C7 C 14.198 1.500 5
NOU C9 C 9.002 0.000 6
NOU C10 C 7.702 -0.750 7
NOU O13 O 3.805 0.000 8
NOU C11 C 6.404 0.000 9
NOU C12 C 5.104 -0.750 10
NOU N15 N 6.404 1.500 11
NOU N3 N 12.899 -0.750 12
NOU N8 N 10.301 -0.750 13
NOU O14 O 5.104 -2.250 14
#
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
NOU C2 C7 DOUBLE NONE 1
NOU C2 N3 SINGLE NONE 2
NOU C7 C6 SINGLE NONE 3
NOU N3 C4 DOUBLE NONE 4
NOU C6 C5 DOUBLE NONE 5
NOU C4 C5 SINGLE NONE 6
NOU C4 N8 SINGLE NONE 7
NOU O14 C12 DOUBLE NONE 8
NOU N8 C9 SINGLE NONE 9
NOU C10 C9 SINGLE NONE 10
NOU C10 C11 SINGLE NONE 11
NOU C11 N15 SINGLE BEGINWEDGE 12
NOU C12 C11 SINGLE NONE 13
NOU C12 O13 SINGLE NONE 14
#
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
NOU MurckoScaffold S1 scaffold c1ccncc1 InChI=1S/C5H5N/c1-2-4-6-5-3-1/h1-5H JUJWROOIHBZHMG-UHFFFAOYSA-N
NOU peptide F1 fragment NCC=O InChI=1S/C2H5NO/c3-1-2-4/h2H,1,3H2 LYIIBVSRGJSHAV-UHFFFAOYSA-N
NOU pyridine F2 fragment c1ccncc1 InChI=1S/C5H5N/c1-2-4-6-5-3-1/h1-5H JUJWROOIHBZHMG-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
NOU C2 S1 1
NOU C4 S1 1
NOU C5 S1 1
NOU C6 S1 1
NOU C7 S1 1
NOU N3 S1 1
NOU O14 F1 1
NOU C12 F1 1
NOU C11 F1 1
NOU N15 F1 1
NOU C2 F2 1
NOU C7 F2 1
NOU C6 F2 1
NOU C5 F2 1
NOU C4 F2 1
NOU N3 F2 1
#
_pdbe_chem_comp_rdkit_properties.comp_id NOU
_pdbe_chem_comp_rdkit_properties.exactmw 195.101
_pdbe_chem_comp_rdkit_properties.amw 195.222
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 5
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 4
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 6
_pdbe_chem_comp_rdkit_properties.NumHBD 3
_pdbe_chem_comp_rdkit_properties.NumHBA 5
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 14
_pdbe_chem_comp_rdkit_properties.NumAtoms 27
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 5
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.333
_pdbe_chem_comp_rdkit_properties.NumRings 1
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 1
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 0
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 0
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 1
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 100.482
_pdbe_chem_comp_rdkit_properties.tpsa 88.240
_pdbe_chem_comp_rdkit_properties.CrippenClogP -0.085
_pdbe_chem_comp_rdkit_properties.CrippenMR 52.131
_pdbe_chem_comp_rdkit_properties.chi0v 6.658
_pdbe_chem_comp_rdkit_properties.chi1v 3.276
_pdbe_chem_comp_rdkit_properties.chi2v 0.984
_pdbe_chem_comp_rdkit_properties.chi3v 0.984
_pdbe_chem_comp_rdkit_properties.chi4v 0.462
_pdbe_chem_comp_rdkit_properties.chi0n 19.658
_pdbe_chem_comp_rdkit_properties.chi1n 9.526
_pdbe_chem_comp_rdkit_properties.chi2n 0.984
_pdbe_chem_comp_rdkit_properties.chi3n 0.984
_pdbe_chem_comp_rdkit_properties.chi4n 0.462
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.620
_pdbe_chem_comp_rdkit_properties.kappa1 2.489
_pdbe_chem_comp_rdkit_properties.kappa2 5.184
_pdbe_chem_comp_rdkit_properties.kappa3 3.404
_pdbe_chem_comp_rdkit_properties.Phi 0.922
#
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
NOU UniChem PDBe NOU
NOU UniChem SureChEMBL SCHEMBL2240407
NOU UniChem PubChem 67330401
#
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
NOU C2 3.692 -1.243 0.909 ETKDGv3 1
NOU C4 2.066 -0.138 -0.466 ETKDGv3 2
NOU C5 3.149 0.221 -1.410 ETKDGv3 3
NOU C6 4.403 -0.162 -1.146 ETKDGv3 4
NOU C7 4.693 -0.935 0.076 ETKDGv3 5
NOU C9 -0.384 -0.069 0.167 ETKDGv3 6
NOU C10 -1.712 0.494 -0.357 ETKDGv3 7
NOU O13 -4.556 2.124 0.824 ETKDGv3 8
NOU C11 -2.879 0.275 0.631 ETKDGv3 9
NOU C12 -4.105 0.995 0.148 ETKDGv3 10
NOU N15 -3.192 -1.145 0.815 ETKDGv3 11
NOU N3 2.349 -0.823 0.608 ETKDGv3 12
NOU N8 0.717 0.266 -0.737 ETKDGv3 13
NOU O14 -4.715 0.593 -0.880 ETKDGv3 14
NOU H1 3.888 -1.810 1.809 ETKDGv3 15
NOU H2 2.931 0.788 -2.306 ETKDGv3 16
NOU H3 5.205 0.093 -1.827 ETKDGv3 17
NOU H4 5.705 -1.248 0.296 ETKDGv3 18
NOU H5 -0.453 -1.174 0.252 ETKDGv3 19
NOU H6 -0.172 0.357 1.172 ETKDGv3 20
NOU H7 -1.587 1.588 -0.523 ETKDGv3 21
NOU H8 -1.949 0.026 -1.338 ETKDGv3 22
NOU H9 -5.376 2.627 0.506 ETKDGv3 23
NOU H10 -2.598 0.708 1.618 ETKDGv3 24
NOU H11 -2.449 -1.587 1.403 ETKDGv3 25
NOU H12 -3.198 -1.632 -0.112 ETKDGv3 26
NOU H14 0.526 0.812 -1.609 ETKDGv3 27
#