data_SCY
#
_chem_comp.id SCY
_chem_comp.name S-ACETYL-CYSTEINE
_chem_comp.type 'L-PEPTIDE LINKING'
_chem_comp.pdbx_type ATOMP
_chem_comp.formula 'C5 H9 N O3 S'
_chem_comp.mon_nstd_parent_comp_id CYS
_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 ?
_chem_comp.formula_weight 163.195
_chem_comp.one_letter_code C
_chem_comp.three_letter_code SCY
_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 1QFL
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site EBI
_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
SCY N N N 0 1 N N N Y Y N 23.142 -11.341 8.918 -1.790 -0.366 -1.376 N SCY 1
SCY CA CA C 0 1 N N R Y N N 24.392 -11.916 8.473 -0.519 0.370 -1.351 CA SCY 2
SCY CB CB C 0 1 N N N N N N 24.413 -13.486 8.741 0.267 -0.012 -0.096 CB SCY 3
SCY SG SG S 0 1 N N N N N N 24.324 -13.618 10.533 -0.701 0.406 1.374 SG SCY 4
SCY CD CD C 0 1 N N N N N N 22.632 -14.322 10.566 0.378 -0.110 2.598 CD SCY 5
SCY OCD OCD O 0 1 N N N N N N 22.483 -15.453 10.187 1.449 -0.595 2.297 OCD SCY 6
SCY CE CE C 0 1 N N N N N N 21.438 -13.488 11.075 -0.000 0.038 4.049 CE SCY 7
SCY C C C 0 1 N N N Y N Y 24.627 -11.759 7.003 0.287 0.021 -2.576 C SCY 8
SCY O O O 0 1 N N N Y N Y 25.761 -11.895 6.554 0.174 -1.069 -3.083 O SCY 9
SCY OXT OXT O 0 1 N Y N Y N Y 23.655 -11.407 6.168 1.130 0.922 -3.103 OXT SCY 10
SCY H H H 0 1 N N N Y Y N 23.128 -10.335 8.746 -2.247 -0.184 -0.495 H SCY 11
SCY H2 HN2 H 0 1 N Y N Y Y N 22.950 -11.561 9.895 -1.556 -1.348 -1.384 H2 SCY 12
SCY HA HA H 0 1 N N N Y N N 25.177 -11.369 9.045 -0.720 1.441 -1.341 HA SCY 13
SCY HB2 1HB H 0 1 N N N N N N 23.622 -14.055 8.198 1.210 0.534 -0.078 HB2 SCY 14
SCY HB3 2HB H 0 1 N N N N N N 25.279 -14.018 8.283 0.468 -1.083 -0.106 HB3 SCY 15
SCY HE1 1HE H 0 1 N N N N N N 20.408 -13.916 11.095 0.805 -0.341 4.676 HE1 SCY 16
SCY HE2 2HE H 0 1 N N N N N N 21.681 -13.122 12.099 -0.169 1.091 4.274 HE2 SCY 17
SCY HE3 3HE H 0 1 N N N N N N 21.406 -12.536 10.494 -0.911 -0.526 4.246 HE3 SCY 18
SCY HXT HXT H 0 1 N Y N Y N Y 23.804 -11.307 5.235 1.648 0.699 -3.888 HXT SCY 19
#
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
SCY N CA SING N N 1
SCY N H SING N N 2
SCY N H2 SING N N 3
SCY CA CB SING N N 4
SCY CA C SING N N 5
SCY CA HA SING N N 6
SCY CB SG SING N N 7
SCY CB HB2 SING N N 8
SCY CB HB3 SING N N 9
SCY SG CD SING N N 10
SCY CD OCD DOUB N N 11
SCY CD CE SING N N 12
SCY CE HE1 SING N N 13
SCY CE HE2 SING N N 14
SCY CE HE3 SING N N 15
SCY C O DOUB N N 16
SCY C OXT SING N N 17
SCY OXT HXT SING N N 18
#
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
SCY SMILES ACDLabs 10.04 'O=C(O)C(N)CSC(=O)C'
SCY SMILES_CANONICAL CACTVS 3.341 'CC(=O)SC[C@H](N)C(O)=O'
SCY SMILES CACTVS 3.341 'CC(=O)SC[CH](N)C(O)=O'
SCY SMILES_CANONICAL 'OpenEye OEToolkits' 1.5.0 'CC(=O)SC[C@@H](C(=O)O)N'
SCY SMILES 'OpenEye OEToolkits' 1.5.0 'CC(=O)SCC(C(=O)O)N'
SCY InChI InChI 1.03 'InChI=1S/C5H9NO3S/c1-3(7)10-2-4(6)5(8)9/h4H,2,6H2,1H3,(H,8,9)/t4-/m0/s1'
SCY InChIKey InChI 1.03 XCIRMLHOFVDUDP-BYPYZUCNSA-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
SCY 'SYSTEMATIC NAME' ACDLabs 10.04 S-acetyl-L-cysteine
SCY 'SYSTEMATIC NAME' 'OpenEye OEToolkits' 1.5.0 '(2R)-2-amino-3-ethanoylsulfanyl-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
SCY 'Create component' 1999-07-08 EBI
SCY 'Modify descriptor' 2011-06-04 RCSB
SCY 'Modify backbone' 2023-11-03 PDBE
SCY 'Modify PCM' 2024-09-27 PDBE
#
_pdbx_chem_comp_pcm.pcm_id 1
_pdbx_chem_comp_pcm.comp_id SCY
_pdbx_chem_comp_pcm.modified_residue_id CYS
_pdbx_chem_comp_pcm.type Acetylation
_pdbx_chem_comp_pcm.category 'Named protein modification'
_pdbx_chem_comp_pcm.position 'Amino-acid side chain'
_pdbx_chem_comp_pcm.polypeptide_position 'Any 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 ?
#
_pdbe_chem_comp_drugbank_details.comp_id SCY
_pdbe_chem_comp_drugbank_details.drugbank_id DB02039
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name S-Acetyl-Cysteine
_pdbe_chem_comp_drugbank_details.description ?
_pdbe_chem_comp_drugbank_details.cas_number ?
_pdbe_chem_comp_drugbank_details.mechanism_of_action ?
#
_pdbe_chem_comp_synonyms.comp_id SCY
_pdbe_chem_comp_synonyms.name S-Acetyl-Cysteine
_pdbe_chem_comp_synonyms.provenance DrugBank
_pdbe_chem_comp_synonyms.type ?
#
loop_
_pdbe_chem_comp_drugbank_targets.comp_id
_pdbe_chem_comp_drugbank_targets.drugbank_id
_pdbe_chem_comp_drugbank_targets.name
_pdbe_chem_comp_drugbank_targets.organism
_pdbe_chem_comp_drugbank_targets.uniprot_id
_pdbe_chem_comp_drugbank_targets.pharmacologically_active
_pdbe_chem_comp_drugbank_targets.ordinal
SCY DB02039 'Histone acetyltransferase KAT5' Humans Q92993 unknown 1
SCY DB02039 'Acetyl-CoA acetyltransferase' 'Zoogloea ramigera' P07097 unknown 2
SCY DB02039 'Beta-ketoacyl-[acyl-carrier-protein] synthase III' 'Escherichia coli (strain K12)' P0A6R0 unknown 3
#
loop_
_software.name
_software.version
_software.description
rdkit 2025.03.3 'Core functionality.'
pdbeccdutils 1.0.0 '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
SCY N N 4.299 1.875 1
SCY CA C 5.598 1.125 2
SCY CB C 5.598 -0.375 3
SCY SG S 4.299 -1.125 4
SCY CD C 4.299 -2.625 5
SCY OCD O 5.598 -3.375 6
SCY CE C 3.000 -3.375 7
SCY C C 6.897 1.875 8
SCY O O 8.196 1.125 9
SCY OXT O 6.897 3.375 10
#
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
SCY CA N SINGLE BEGINDASH 1
SCY CA CB SINGLE NONE 2
SCY CA C SINGLE NONE 3
SCY CB SG SINGLE NONE 4
SCY SG CD SINGLE NONE 5
SCY CD OCD DOUBLE NONE 6
SCY CD CE SINGLE NONE 7
SCY C O DOUBLE NONE 8
SCY C OXT SINGLE NONE 9
#
_pdbe_chem_comp_substructure.comp_id SCY
_pdbe_chem_comp_substructure.substructure_name peptide
_pdbe_chem_comp_substructure.id F1
_pdbe_chem_comp_substructure.substructure_type fragment
_pdbe_chem_comp_substructure.substructure_smiles NCC=O
_pdbe_chem_comp_substructure.substructure_inchis InChI=1S/C2H5NO/c3-1-2-4/h2H,1,3H2
_pdbe_chem_comp_substructure.substructure_inchikeys LYIIBVSRGJSHAV-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
SCY O F1 1
SCY C F1 1
SCY CA F1 1
SCY N F1 1
#
_pdbe_chem_comp_rdkit_properties.comp_id SCY
_pdbe_chem_comp_rdkit_properties.exactmw 163.030
_pdbe_chem_comp_rdkit_properties.amw 163.198
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 4
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 3
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 5
_pdbe_chem_comp_rdkit_properties.NumHBD 2
_pdbe_chem_comp_rdkit_properties.NumHBA 5
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 10
_pdbe_chem_comp_rdkit_properties.NumAtoms 19
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 5
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.600
_pdbe_chem_comp_rdkit_properties.NumRings 0
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 0
_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 1
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 75.627
_pdbe_chem_comp_rdkit_properties.tpsa 80.390
_pdbe_chem_comp_rdkit_properties.CrippenClogP -0.322
_pdbe_chem_comp_rdkit_properties.CrippenMR 38.750
_pdbe_chem_comp_rdkit_properties.chi0v 5.397
_pdbe_chem_comp_rdkit_properties.chi1v 2.811
_pdbe_chem_comp_rdkit_properties.chi2v 0.915
_pdbe_chem_comp_rdkit_properties.chi3v 0.915
_pdbe_chem_comp_rdkit_properties.chi4v 0.409
_pdbe_chem_comp_rdkit_properties.chi0n 13.580
_pdbe_chem_comp_rdkit_properties.chi1n 6.297
_pdbe_chem_comp_rdkit_properties.chi2n 0.434
_pdbe_chem_comp_rdkit_properties.chi3n 0.434
_pdbe_chem_comp_rdkit_properties.chi4n 0.136
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.550
_pdbe_chem_comp_rdkit_properties.kappa1 2.216
_pdbe_chem_comp_rdkit_properties.kappa2 4.295
_pdbe_chem_comp_rdkit_properties.kappa3 4.341
_pdbe_chem_comp_rdkit_properties.Phi 0.952
#
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
SCY UniChem DrugBank DB02039
SCY UniChem SureChEMBL SCHEMBL360990
SCY UniChem BRENDA 227769
SCY UniChem 'Probes And Drugs' PD060151
SCY UniChem PubChem 10130120
SCY UniChem 'PubChem TPHARMA' 15120337
#
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
SCY N -1.414 1.654 -0.881 ETKDGv3 1
SCY CA -1.623 0.335 -0.277 ETKDGv3 2
SCY CB -0.332 -0.499 -0.319 ETKDGv3 3
SCY SG 1.015 0.239 0.676 ETKDGv3 4
SCY CD 2.185 -1.062 0.275 ETKDGv3 5
SCY OCD 2.263 -2.045 0.994 ETKDGv3 6
SCY CE 3.068 -0.946 -0.926 ETKDGv3 7
SCY C -2.169 0.441 1.125 ETKDGv3 8
SCY O -2.975 -0.429 1.550 ETKDGv3 9
SCY OXT -1.754 1.467 1.971 ETKDGv3 10
SCY H -0.782 2.230 -0.281 ETKDGv3 11
SCY H2 -2.335 2.149 -0.925 ETKDGv3 12
SCY HA -2.376 -0.203 -0.895 ETKDGv3 13
SCY HB2 -0.545 -1.522 0.060 ETKDGv3 14
SCY HB3 0.004 -0.588 -1.375 ETKDGv3 15
SCY HE1 2.871 0.007 -1.462 ETKDGv3 16
SCY HE2 2.870 -1.792 -1.617 ETKDGv3 17
SCY HE3 4.132 -0.969 -0.612 ETKDGv3 18
SCY HXT -2.104 1.533 2.919 ETKDGv3 19
#