data_HKS
#
_chem_comp.id HKS
_chem_comp.name 3-{[(2S)-2-amino-2-carboxyethyl]sulfanyl}-5-hydroxy-L-tyrosine
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C12 H16 N2 O6 S"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms "5-cysteinyl-3,4-dihydroxyphenylalanine; 5-Cys-DOPA"
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2018-07-10
_chem_comp.pdbx_modified_date 2020-05-27
_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 316.330
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code HKS
_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 6E13
_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
HKS C02 C1 C 0 1 N N N N N N -8.182 -28.769 -8.954 -3.878 -2.609 0.163 C02 HKS 1
HKS C04 C2 C 0 1 N N S N N N -9.552 -28.558 -9.488 -3.006 -1.419 0.469 C04 HKS 2
HKS C06 C3 C 0 1 N N N N N N -9.880 -29.040 -10.969 -2.579 -0.749 -0.839 C06 HKS 3
HKS C07 C4 C 0 1 Y N N N N N -11.342 -28.690 -11.302 -1.810 0.510 -0.530 C07 HKS 4
HKS C08 C5 C 0 1 Y N N N N N -12.323 -29.637 -11.037 -0.438 0.459 -0.377 C08 HKS 5
HKS C09 C6 C 0 1 Y N N N N N -13.653 -29.340 -11.315 0.274 1.617 -0.093 C09 HKS 6
HKS C11 C7 C 0 1 N N N N N N -15.502 -30.223 -9.355 2.398 -0.205 -0.154 C11 HKS 7
HKS C12 C8 C 0 1 N N S N N N -16.964 -30.633 -9.341 3.905 -0.431 -0.014 C12 HKS 8
HKS C13 C9 C 0 1 N N N N N N -17.828 -29.980 -10.482 4.232 -1.863 -0.349 C13 HKS 9
HKS C17 C10 C 0 1 Y N N N N N -14.041 -28.087 -11.858 -0.398 2.829 0.037 C17 HKS 10
HKS C19 C11 C 0 1 Y N N N N N -13.076 -27.149 -12.117 -1.777 2.874 -0.119 C19 HKS 11
HKS C21 C12 C 0 1 Y N N N N N -11.722 -27.442 -11.842 -2.479 1.713 -0.408 C21 HKS 12
HKS N05 N1 N 0 1 N N N N N N -9.766 -27.197 -9.421 -1.814 -1.862 1.205 N05 HKS 13
HKS N16 N2 N 0 1 N N N N N N -17.491 -30.311 -8.029 4.317 -0.144 1.367 N16 HKS 14
HKS O01 O1 O 0 1 N N N N N N -8.010 -29.591 -8.019 -5.176 -2.433 -0.132 O01 HKS 15
HKS O03 O2 O 0 1 N N N N N N -7.225 -28.096 -9.393 -3.408 -3.722 0.177 O03 HKS 16
HKS O14 O3 O 0 1 N N N N N N -18.838 -30.629 -10.912 4.327 -2.248 -1.631 O14 HKS 17
HKS O15 O4 O 0 1 N N N N N N -17.547 -28.829 -10.971 4.407 -2.666 0.538 O15 HKS 18
HKS O18 O5 O 0 1 N N N N N N -15.391 -27.690 -12.178 0.295 3.967 0.316 O18 HKS 19
HKS O20 O6 O 0 1 N N N N N N -13.548 -25.928 -12.670 -2.438 4.056 0.007 O20 HKS 20
HKS S10 S1 S 0 1 N N N N N N -14.860 -30.602 -10.940 2.024 1.552 0.104 S10 HKS 21
HKS H1 H1 H 0 1 N N N N N N -10.260 -29.073 -8.822 -3.564 -0.707 1.077 H1 HKS 22
HKS H2 H2 H 0 1 N N N N N N -9.736 -30.128 -11.042 -1.946 -1.432 -1.406 H2 HKS 23
HKS H3 H3 H 0 1 N N N N N N -9.209 -28.533 -11.678 -3.463 -0.501 -1.425 H3 HKS 24
HKS H4 H4 H 0 1 N N N N N N -12.055 -30.596 -10.619 0.082 -0.483 -0.478 H4 HKS 25
HKS H5 H5 H 0 1 N N N N N N -14.949 -30.779 -8.584 2.078 -0.501 -1.153 H5 HKS 26
HKS H6 H6 H 0 1 N N N N N N -15.413 -29.144 -9.163 1.871 -0.802 0.590 H6 HKS 27
HKS H7 H7 H 0 1 N N N N N N -17.010 -31.723 -9.482 4.437 0.232 -0.696 H7 HKS 28
HKS H8 H8 H 0 1 N N N N N N -10.965 -26.700 -12.048 -3.552 1.748 -0.530 H8 HKS 29
HKS H9 H9 H 0 1 N N N N N N -9.565 -26.873 -8.497 -2.066 -2.249 2.102 H9 HKS 30
HKS H10 H10 H 0 1 N N N N N N -9.168 -26.733 -10.074 -1.279 -2.523 0.662 H10 HKS 31
HKS H12 H12 H 0 1 N N N N N N -16.922 -30.739 -7.327 3.837 -0.746 2.020 H12 HKS 32
HKS H13 H13 H 0 1 N N N N N N -17.487 -29.319 -7.902 5.317 -0.224 1.470 H13 HKS 33
HKS H15 H15 H 0 1 N N N N N N -7.098 -29.584 -7.755 -5.695 -3.226 -0.321 H15 HKS 34
HKS H16 H16 H 0 1 N N N N N N -19.274 -30.125 -11.589 4.538 -3.177 -1.796 H16 HKS 35
HKS H17 H17 H 0 1 N N N N N N -16.003 -28.197 -11.657 0.598 4.445 -0.468 H17 HKS 36
HKS H18 H18 H 0 1 N N N N N N -12.815 -25.342 -12.816 -2.527 4.547 -0.822 H18 HKS 37
#
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
HKS O20 C19 SING N N 1
HKS O18 C17 SING N N 2
HKS C19 C17 DOUB Y N 3
HKS C19 C21 SING Y N 4
HKS C17 C09 SING Y N 5
HKS C21 C07 DOUB Y N 6
HKS C09 C08 DOUB Y N 7
HKS C09 S10 SING N N 8
HKS C07 C08 SING Y N 9
HKS C07 C06 SING N N 10
HKS O15 C13 DOUB N N 11
HKS C06 C04 SING N N 12
HKS S10 C11 SING N N 13
HKS O14 C13 SING N N 14
HKS C13 C12 SING N N 15
HKS C04 N05 SING N N 16
HKS C04 C02 SING N N 17
HKS O03 C02 DOUB N N 18
HKS C11 C12 SING N N 19
HKS C12 N16 SING N N 20
HKS C02 O01 SING N N 21
HKS C04 H1 SING N N 22
HKS C06 H2 SING N N 23
HKS C06 H3 SING N N 24
HKS C08 H4 SING N N 25
HKS C11 H5 SING N N 26
HKS C11 H6 SING N N 27
HKS C12 H7 SING N N 28
HKS C21 H8 SING N N 29
HKS N05 H9 SING N N 30
HKS N05 H10 SING N N 31
HKS N16 H12 SING N N 32
HKS N16 H13 SING N N 33
HKS O01 H15 SING N N 34
HKS O14 H16 SING N N 35
HKS O18 H17 SING N N 36
HKS O20 H18 SING N N 37
#
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
HKS SMILES ACDLabs 12.01 C(O)(C(N)Cc1cc(SCC(N)C(O)=O)c(c(c1)O)O)=O
HKS InChI InChI 1.03 InChI=1S/C12H16N2O6S/c13-6(11(17)18)1-5-2-8(15)10(16)9(3-5)21-4-7(14)12(19)20/h2-3,6-7,15-16H,1,4,13-14H2,(H,17,18)(H,19,20)/t6-,7+/m0/s1
HKS InChIKey InChI 1.03 SXISMOAILJWTID-NKWVEPMBSA-N
HKS SMILES_CANONICAL CACTVS 3.385 N[C@H](CSc1cc(C[C@H](N)C(O)=O)cc(O)c1O)C(O)=O
HKS SMILES CACTVS 3.385 N[CH](CSc1cc(C[CH](N)C(O)=O)cc(O)c1O)C(O)=O
HKS SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 c1c(cc(c(c1O)O)SC[C@H](C(=O)O)N)C[C@@H](C(=O)O)N
HKS SMILES "OpenEye OEToolkits" 2.0.6 c1c(cc(c(c1O)O)SCC(C(=O)O)N)CC(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
HKS "SYSTEMATIC NAME" ACDLabs 12.01 3-{[(2S)-2-amino-2-carboxyethyl]sulfanyl}-5-hydroxy-L-tyrosine
HKS "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 "(2~{S})-2-azanyl-3-[3-[(2~{S})-2-azanyl-3-oxidanyl-3-oxidanylidene-propyl]sulfanyl-4,5-bis(oxidanyl)phenyl]propanoic 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
HKS 'Create component' 2018-07-10 RCSB
HKS 'Initial release' 2019-05-22 RCSB
HKS 'Modify synonyms' 2020-05-27 PDBE
#
loop_
_pdbx_chem_comp_synonyms.ordinal
_pdbx_chem_comp_synonyms.comp_id
_pdbx_chem_comp_synonyms.name
_pdbx_chem_comp_synonyms.provenance
_pdbx_chem_comp_synonyms.type
1 HKS 5-cysteinyl-3,4-dihydroxyphenylalanine ? ?
2 HKS 5-Cys-DOPA ? ?
#
loop_
_pdbe_chem_comp_synonyms.comp_id
_pdbe_chem_comp_synonyms.name
_pdbe_chem_comp_synonyms.provenance
_pdbe_chem_comp_synonyms.type
HKS 5-cysteinyl-3,4-dihydroxyphenylalanine wwPDB ?
HKS 5-Cys-DOPA wwPDB ?
#
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
HKS C02 C 10.301 -3.518 1
HKS C04 C 10.301 -2.018 2
HKS C06 C 11.600 -1.268 3
HKS C07 C 11.600 0.233 4
HKS C08 C 10.301 0.983 5
HKS C09 C 10.301 2.482 6
HKS C11 C 7.702 2.482 7
HKS C12 C 6.404 3.232 8
HKS C13 C 5.104 2.482 9
HKS C17 C 11.600 3.232 10
HKS C19 C 12.899 2.482 11
HKS C21 C 12.899 0.983 12
HKS N05 N 9.002 -1.268 13
HKS N16 N 6.404 4.732 14
HKS O01 O 11.600 -4.268 15
HKS O03 O 9.002 -4.268 16
HKS O14 O 5.104 0.983 17
HKS O15 O 3.805 3.232 18
HKS O18 O 11.600 4.732 19
HKS O20 O 14.198 3.232 20
HKS S10 S 9.002 3.232 21
#
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
HKS O20 C19 SINGLE NONE 1
HKS O18 C17 SINGLE NONE 2
HKS C19 C17 DOUBLE NONE 3
HKS C19 C21 SINGLE NONE 4
HKS C17 C09 SINGLE NONE 5
HKS C21 C07 DOUBLE NONE 6
HKS C09 C08 DOUBLE NONE 7
HKS C09 S10 SINGLE NONE 8
HKS C07 C08 SINGLE NONE 9
HKS C07 C06 SINGLE NONE 10
HKS O15 C13 DOUBLE NONE 11
HKS C06 C04 SINGLE NONE 12
HKS S10 C11 SINGLE NONE 13
HKS O14 C13 SINGLE NONE 14
HKS C13 C12 SINGLE NONE 15
HKS C04 N05 SINGLE BEGINWEDGE 16
HKS C04 C02 SINGLE NONE 17
HKS O03 C02 DOUBLE NONE 18
HKS C11 C12 SINGLE NONE 19
HKS C12 N16 SINGLE BEGINDASH 20
HKS C02 O01 SINGLE NONE 21
#
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
HKS MurckoScaffold S1 scaffold c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
HKS peptide F1 fragment NCC=O InChI=1S/C2H5NO/c3-1-2-4/h2H,1,3H2 LYIIBVSRGJSHAV-UHFFFAOYSA-N
HKS phenyl F2 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
HKS C07 S1 1
HKS C08 S1 1
HKS C09 S1 1
HKS C17 S1 1
HKS C19 S1 1
HKS C21 S1 1
HKS O03 F1 1
HKS C02 F1 1
HKS C04 F1 1
HKS N05 F1 1
HKS O15 F1 2
HKS C13 F1 2
HKS C12 F1 2
HKS N16 F1 2
HKS C07 F2 1
HKS C21 F2 1
HKS C19 F2 1
HKS C17 F2 1
HKS C09 F2 1
HKS C08 F2 1
#
_pdbe_chem_comp_rdkit_properties.comp_id HKS
_pdbe_chem_comp_rdkit_properties.exactmw 316.073
_pdbe_chem_comp_rdkit_properties.amw 316.335
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 8
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 8
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 11
_pdbe_chem_comp_rdkit_properties.NumHBD 6
_pdbe_chem_comp_rdkit_properties.NumHBA 9
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 21
_pdbe_chem_comp_rdkit_properties.NumAtoms 37
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 9
_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 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 146.982
_pdbe_chem_comp_rdkit_properties.tpsa 167.100
_pdbe_chem_comp_rdkit_properties.CrippenClogP -1.531
_pdbe_chem_comp_rdkit_properties.CrippenMR 74.506
_pdbe_chem_comp_rdkit_properties.chi0v 10.569
_pdbe_chem_comp_rdkit_properties.chi1v 5.647
_pdbe_chem_comp_rdkit_properties.chi2v 2.556
_pdbe_chem_comp_rdkit_properties.chi3v 2.556
_pdbe_chem_comp_rdkit_properties.chi4v 1.540
_pdbe_chem_comp_rdkit_properties.chi0n 25.752
_pdbe_chem_comp_rdkit_properties.chi1n 12.252
_pdbe_chem_comp_rdkit_properties.chi2n 1.769
_pdbe_chem_comp_rdkit_properties.chi3n 1.769
_pdbe_chem_comp_rdkit_properties.chi4n 0.920
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.970
_pdbe_chem_comp_rdkit_properties.kappa1 5.041
_pdbe_chem_comp_rdkit_properties.kappa2 7.157
_pdbe_chem_comp_rdkit_properties.kappa3 4.812
_pdbe_chem_comp_rdkit_properties.Phi 1.718
#
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
HKS UniChem PDBe HKS
HKS UniChem ZINC ZINC000005783976
HKS UniChem PubChem 14178746
HKS UniChem Nikkaji J1.035.725J
#
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
HKS C02 -4.685 0.022 0.328 ETKDGv3 1
HKS C04 -3.741 -0.368 1.434 ETKDGv3 2
HKS C06 -2.570 0.633 1.570 ETKDGv3 3
HKS C07 -1.683 0.701 0.349 ETKDGv3 4
HKS C08 -0.491 -0.174 0.253 ETKDGv3 5
HKS C09 0.298 -0.135 -0.829 ETKDGv3 6
HKS C11 2.851 0.009 -0.145 ETKDGv3 7
HKS C12 4.269 -0.561 0.005 ETKDGv3 8
HKS C13 4.276 -1.705 0.981 ETKDGv3 9
HKS C17 -0.025 0.791 -1.951 ETKDGv3 10
HKS C19 -1.107 1.588 -1.863 ETKDGv3 11
HKS C21 -1.967 1.538 -0.662 ETKDGv3 12
HKS N05 -3.277 -1.747 1.253 ETKDGv3 13
HKS N16 5.179 0.485 0.474 ETKDGv3 14
HKS O01 -4.493 -0.456 -0.965 ETKDGv3 15
HKS O03 -5.629 0.823 0.565 ETKDGv3 16
HKS O14 4.009 -1.473 2.328 ETKDGv3 17
HKS O15 4.511 -2.876 0.580 ETKDGv3 18
HKS O18 0.779 0.845 -3.091 ETKDGv3 19
HKS O20 -1.446 2.471 -2.889 ETKDGv3 20
HKS S10 1.730 -1.220 -0.902 ETKDGv3 21
HKS H1 -4.314 -0.332 2.387 ETKDGv3 22
HKS H2 -1.956 0.352 2.453 ETKDGv3 23
HKS H3 -2.979 1.644 1.792 ETKDGv3 24
HKS H4 -0.258 -0.849 1.068 ETKDGv3 25
HKS H5 2.882 0.905 -0.802 ETKDGv3 26
HKS H6 2.457 0.317 0.848 ETKDGv3 27
HKS H7 4.616 -0.922 -0.991 ETKDGv3 28
HKS H8 -2.835 2.184 -0.612 ETKDGv3 29
HKS H9 -2.716 -1.827 0.375 ETKDGv3 30
HKS H10 -2.649 -1.998 2.051 ETKDGv3 31
HKS H12 6.143 0.082 0.528 ETKDGv3 32
HKS H13 5.224 1.235 -0.254 ETKDGv3 33
HKS H15 -5.111 -0.178 -1.719 ETKDGv3 34
HKS H16 4.005 -2.236 2.995 ETKDGv3 35
HKS H17 1.603 0.268 -3.203 ETKDGv3 36
HKS H18 -0.901 2.554 -3.739 ETKDGv3 37
#