data_OKJ
#
_chem_comp.id OKJ
_chem_comp.name (2S,3S)-3-amino-2-hydroxy-4-(4-hydroxyphenyl)butanal
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C10 H13 N O3"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2011-04-19
_chem_comp.pdbx_modified_date 2012-01-13
_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 195.215
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code OKJ
_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 3OKJ
_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
OKJ C1 C1 C 0 1 N N S N N N 11.282 -137.876 11.572 2.847 -0.070 0.445 C1 OKJ 1
OKJ O1 O1 O 0 1 N N N N N N 11.218 -137.113 10.289 3.102 1.314 0.691 O1 OKJ 2
OKJ O2 O2 O 0 1 N Y N N N N 11.039 -139.990 10.035 4.569 0.186 -1.142 O2 OKJ 3
OKJ C2 C2 C 0 1 N N N N N N 11.024 -139.357 11.317 3.773 -0.567 -0.635 C2 OKJ 4
OKJ C3 C3 C 0 1 N N S N N N 10.280 -137.079 12.598 1.396 -0.249 -0.005 C3 OKJ 5
OKJ C4 C4 C 0 1 N N N N N N 10.382 -135.503 12.323 0.456 0.255 1.091 C4 OKJ 6
OKJ C5 C5 C 0 1 Y N N N N N 9.268 -134.690 13.099 -0.967 0.193 0.600 C5 OKJ 7
OKJ C6 C6 C 0 1 Y N N N N N 9.144 -133.260 12.910 -1.519 1.277 -0.058 C6 OKJ 8
OKJ C7 C7 C 0 1 Y N N N N N 8.076 -132.522 13.593 -2.823 1.223 -0.509 C7 OKJ 9
OKJ C8 C8 C 0 1 Y N N N N N 7.154 -133.255 14.513 -3.580 0.079 -0.301 C8 OKJ 10
OKJ O3 O3 O 0 1 N N N N N N 6.174 -132.544 15.311 -4.864 0.023 -0.744 O3 OKJ 11
OKJ C9 C9 C 0 1 Y N N N N N 7.277 -134.674 14.668 -3.025 -1.008 0.359 C9 OKJ 12
OKJ C10 C10 C 0 1 Y N N N N N 8.275 -135.374 13.941 -1.718 -0.950 0.804 C10 OKJ 13
OKJ N1 N1 N 0 1 N Y N N N N 10.694 -137.201 14.064 1.134 -1.672 -0.258 N1 OKJ 14
OKJ H3 H3 H 0 1 N N N N N N 9.286 -137.518 12.427 1.226 0.319 -0.920 H3 OKJ 15
OKJ H4 H4 H 0 1 N N N N N N 11.369 -135.152 12.657 0.562 -0.370 1.977 H4 OKJ 16
OKJ H5 H5 H 0 1 N N N N N N 10.258 -135.326 11.244 0.709 1.286 1.341 H5 OKJ 17
OKJ H6 H6 H 0 1 N N N N N N 9.837 -132.737 12.267 -0.929 2.167 -0.219 H6 OKJ 18
OKJ H7 H7 H 0 1 N N N N N N 7.957 -131.461 13.433 -3.253 2.070 -1.022 H7 OKJ 19
OKJ H8 H8 H 0 1 N N N N N N 5.679 -133.165 15.832 -4.955 -0.319 -1.644 H8 OKJ 20
OKJ H9 H9 H 0 1 N N N N N N 6.615 -135.208 15.334 -3.612 -1.899 0.522 H9 OKJ 21
OKJ H10 H10 H 0 1 N N N N N N 8.306 -136.451 14.009 -1.284 -1.797 1.314 H10 OKJ 22
OKJ H11 H11 H 0 1 N Y N N N N 10.048 -136.697 14.636 1.697 -2.013 -1.023 H11 OKJ 23
OKJ H41 H41 H 0 1 N N N N N N 11.125 -137.719 9.564 2.971 1.882 -0.081 H41 OKJ 24
OKJ H43 H43 H 0 1 N N N N N N 12.271 -137.906 12.053 3.017 -0.639 1.359 H43 OKJ 25
OKJ H12 H12 H 0 1 N N N N N N 10.694 -138.165 14.331 1.285 -2.221 0.575 H12 OKJ 26
OKJ H42 H42 H 0 1 N Y N N N N 10.813 -139.979 12.175 3.725 -1.597 -0.956 H42 OKJ 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
OKJ C1 C3 SING N N 1
OKJ C1 H43 SING N N 2
OKJ O1 C1 SING N N 3
OKJ O1 H41 SING N N 4
OKJ O2 C2 DOUB N N 5
OKJ C2 C1 SING N N 6
OKJ C3 N1 SING N N 7
OKJ C3 H3 SING N N 8
OKJ C4 C3 SING N N 9
OKJ C4 C5 SING N N 10
OKJ C4 H4 SING N N 11
OKJ C4 H5 SING N N 12
OKJ C5 C10 SING Y N 13
OKJ C6 C5 DOUB Y N 14
OKJ C6 C7 SING Y N 15
OKJ C6 H6 SING N N 16
OKJ C7 C8 DOUB Y N 17
OKJ C7 H7 SING N N 18
OKJ C8 C9 SING Y N 19
OKJ C8 O3 SING N N 20
OKJ O3 H8 SING N N 21
OKJ C9 H9 SING N N 22
OKJ C10 C9 DOUB Y N 23
OKJ C10 H10 SING N N 24
OKJ N1 H11 SING N N 25
OKJ N1 H12 SING N N 26
OKJ C2 H42 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
OKJ SMILES ACDLabs 12.01 O=CC(O)C(N)Cc1ccc(O)cc1
OKJ SMILES_CANONICAL CACTVS 3.370 N[C@@H](Cc1ccc(O)cc1)[C@H](O)C=O
OKJ SMILES CACTVS 3.370 N[CH](Cc1ccc(O)cc1)[CH](O)C=O
OKJ SMILES_CANONICAL "OpenEye OEToolkits" 1.7.2 c1cc(ccc1C[C@@H]([C@@H](C=O)O)N)O
OKJ SMILES "OpenEye OEToolkits" 1.7.2 c1cc(ccc1CC(C(C=O)O)N)O
OKJ InChI InChI 1.03 InChI=1S/C10H13NO3/c11-9(10(14)6-12)5-7-1-3-8(13)4-2-7/h1-4,6,9-10,13-14H,5,11H2/t9-,10+/m0/s1
OKJ InChIKey InChI 1.03 NRVTUDHUXQCQSW-VHSXEESVSA-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
OKJ "SYSTEMATIC NAME" ACDLabs 12.01 (2S,3S)-3-amino-2-hydroxy-4-(4-hydroxyphenyl)butanal
OKJ "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.2 (2S,3S)-3-azanyl-4-(4-hydroxyphenyl)-2-oxidanyl-butanal
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
OKJ 'Create component' 2011-04-19 RCSB
OKJ 'Other modification' 2011-04-26 RCSB
OKJ 'Modify aromatic_flag' 2011-06-04 RCSB
OKJ 'Modify descriptor' 2011-06-04 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
OKJ C1 C -2.873 1.028 1
OKJ O1 O -2.867 2.528 2
OKJ O2 O -5.471 1.037 3
OKJ C2 C -4.175 0.283 4
OKJ C3 C -1.577 0.274 5
OKJ C4 C -0.275 1.019 6
OKJ C5 C 1.021 0.264 7
OKJ C6 C 1.016 -1.236 8
OKJ C7 C 2.313 -1.990 9
OKJ C8 C 3.614 -1.245 10
OKJ O3 O 4.911 -2.000 11
OKJ C9 C 3.619 0.255 12
OKJ C10 C 2.323 1.010 13
OKJ N1 N -1.582 -1.226 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
OKJ C1 C3 SINGLE NONE 1
OKJ C1 O1 SINGLE BEGINWEDGE 2
OKJ O2 C2 DOUBLE NONE 3
OKJ C2 C1 SINGLE NONE 4
OKJ C3 N1 SINGLE BEGINDASH 5
OKJ C4 C3 SINGLE NONE 6
OKJ C4 C5 SINGLE NONE 7
OKJ C5 C10 DOUBLE NONE 8
OKJ C6 C5 SINGLE NONE 9
OKJ C6 C7 DOUBLE NONE 10
OKJ C7 C8 SINGLE NONE 11
OKJ C8 C9 DOUBLE NONE 12
OKJ C8 O3 SINGLE NONE 13
OKJ C10 C9 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
OKJ MurckoScaffold S1 scaffold c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
OKJ phenyl F1 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-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
OKJ C5 S1 1
OKJ C6 S1 1
OKJ C7 S1 1
OKJ C8 S1 1
OKJ C9 S1 1
OKJ C10 S1 1
OKJ C5 F1 1
OKJ C10 F1 1
OKJ C9 F1 1
OKJ C8 F1 1
OKJ C7 F1 1
OKJ C6 F1 1
#
_pdbe_chem_comp_rdkit_properties.comp_id OKJ
_pdbe_chem_comp_rdkit_properties.exactmw 195.090
_pdbe_chem_comp_rdkit_properties.amw 195.218
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 4
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 4
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 7
_pdbe_chem_comp_rdkit_properties.NumHBD 3
_pdbe_chem_comp_rdkit_properties.NumHBA 4
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 14
_pdbe_chem_comp_rdkit_properties.NumAtoms 27
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 4
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.300
_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 0
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 0
_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 2
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 100.535
_pdbe_chem_comp_rdkit_properties.tpsa 83.550
_pdbe_chem_comp_rdkit_properties.CrippenClogP -0.695
_pdbe_chem_comp_rdkit_properties.CrippenMR 50.981
_pdbe_chem_comp_rdkit_properties.chi0v 6.672
_pdbe_chem_comp_rdkit_properties.chi1v 3.336
_pdbe_chem_comp_rdkit_properties.chi2v 1.153
_pdbe_chem_comp_rdkit_properties.chi3v 1.153
_pdbe_chem_comp_rdkit_properties.chi4v 0.587
_pdbe_chem_comp_rdkit_properties.chi0n 19.672
_pdbe_chem_comp_rdkit_properties.chi1n 9.547
_pdbe_chem_comp_rdkit_properties.chi2n 1.153
_pdbe_chem_comp_rdkit_properties.chi3n 1.153
_pdbe_chem_comp_rdkit_properties.chi4n 0.587
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.390
_pdbe_chem_comp_rdkit_properties.kappa1 2.592
_pdbe_chem_comp_rdkit_properties.kappa2 4.737
_pdbe_chem_comp_rdkit_properties.kappa3 2.829
_pdbe_chem_comp_rdkit_properties.Phi 0.877
#
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
OKJ UniChem PDBe OKJ
OKJ UniChem ZINC ZINC000098209264
#
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
OKJ C1 -1.855 0.210 0.899 ETKDGv3 1
OKJ O1 -2.588 -0.412 1.923 ETKDGv3 2
OKJ O2 -2.015 2.314 -0.193 ETKDGv3 3
OKJ C2 -2.591 1.444 0.439 ETKDGv3 4
OKJ C3 -1.638 -0.808 -0.253 ETKDGv3 5
OKJ C4 -0.600 -0.333 -1.298 ETKDGv3 6
OKJ C5 0.779 -0.164 -0.708 ETKDGv3 7
OKJ C6 1.313 1.196 -0.443 ETKDGv3 8
OKJ C7 2.528 1.350 0.099 ETKDGv3 9
OKJ C8 3.348 0.164 0.435 ETKDGv3 10
OKJ O3 4.612 0.317 0.998 ETKDGv3 11
OKJ C9 2.870 -1.064 0.195 ETKDGv3 12
OKJ C10 1.529 -1.237 -0.400 ETKDGv3 13
OKJ N1 -2.909 -1.103 -0.922 ETKDGv3 14
OKJ H3 -1.254 -1.752 0.199 ETKDGv3 15
OKJ H4 -0.936 0.612 -1.774 ETKDGv3 16
OKJ H5 -0.537 -1.083 -2.116 ETKDGv3 17
OKJ H6 0.723 2.070 -0.685 ETKDGv3 18
OKJ H7 2.910 2.344 0.291 ETKDGv3 19
OKJ H8 4.994 1.236 1.188 ETKDGv3 20
OKJ H9 3.463 -1.937 0.438 ETKDGv3 21
OKJ H10 1.160 -2.239 -0.581 ETKDGv3 22
OKJ H11 -2.748 -1.861 -1.625 ETKDGv3 23
OKJ H41 -2.484 0.148 2.736 ETKDGv3 24
OKJ H43 -0.866 0.516 1.311 ETKDGv3 25
OKJ H12 -3.571 -1.507 -0.220 ETKDGv3 26
OKJ H42 -3.638 1.578 0.693 ETKDGv3 27
#