data_8BB
#
_chem_comp.id 8BB
_chem_comp.name 'trans-4-{[(E)-1-amino-2-sulfanylethenyl]carbamoyl}cyclohexanecarboxylic acid'
_chem_comp.type peptide-like
_chem_comp.pdbx_type HETAIN
_chem_comp.formula 'C10 H16 N2 O3 S'
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2012-01-04
_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 244.311
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 8BB
_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 3U6B
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site RCSB
_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
8BB N N N 0 1 N N N Y Y N -55.683 25.265 28.286 3.464 -1.152 -0.576 N 8BB 1
8BB N1 N1 N 0 1 N N N Y N N -54.265 27.050 27.615 1.842 0.361 0.403 N1 8BB 2
8BB CA CA C 0 1 N N N Y N N -54.534 25.710 27.601 3.163 0.064 0.052 CA 8BB 3
8BB CB CB C 0 1 N N N N N N -53.799 24.746 27.035 4.134 0.936 0.314 CB 8BB 4
8BB SG SG S 0 1 N N N N N N -54.460 23.245 27.321 5.798 0.562 -0.128 SG 8BB 5
8BB C C88 C 0 1 N N N Y N Y -53.198 27.516 26.954 0.879 -0.571 0.257 C88 8BB 6
8BB O O89 O 0 1 N N N Y N Y -52.367 26.834 26.251 1.173 -1.699 -0.081 O89 8BB 7
8BB C90 C90 C 0 1 N N N N N N -51.778 30.988 26.355 -2.449 1.271 -0.178 C90 8BB 8
8BB C91 C91 C 0 1 N N N N N N -52.960 31.521 25.535 -3.329 0.042 -0.414 C91 8BB 9
8BB C92 C92 C 0 1 N N N N N N -54.363 31.124 26.183 -2.906 -1.079 0.538 C92 8BB 10
8BB C93 C93 C 0 1 N N N N N N -54.390 29.587 26.339 -1.442 -1.442 0.278 C93 8BB 11
8BB C94 C94 C 0 1 N N N N N N -53.113 28.999 27.062 -0.562 -0.213 0.513 C94 8BB 12
8BB C95 C95 C 0 1 N N N N N N -51.859 29.434 26.366 -0.986 0.908 -0.438 C95 8BB 13
8BB C96 C96 C 0 1 N N N N N N -52.868 33.034 25.346 -4.771 0.401 -0.157 C96 8BB 14
8BB O97 O97 O 0 1 N N N N N N -51.904 33.442 24.843 -5.063 1.523 0.179 O97 8BB 15
8BB O98 O98 O 0 1 N N N N N N -53.768 33.799 25.791 -5.729 -0.528 -0.303 O98 8BB 16
8BB H HN H 0 1 N N N Y Y N -55.761 24.272 28.197 2.769 -1.816 -0.705 HN 8BB 17
8BB H2 H2 H 0 1 N Y N Y Y N -55.609 25.508 29.253 4.367 -1.327 -0.885 H2 8BB 18
8BB HN1 HN1 H 0 1 N N N Y N N -54.861 27.678 28.115 1.618 1.238 0.752 HN1 8BB 19
8BB HB HB H 0 1 N N N N N N -52.896 24.919 26.468 3.902 1.873 0.798 HB 8BB 20
8BB HSG HSG H 0 1 N Y N N N N -53.625 22.460 26.707 6.473 1.650 0.284 HSG 8BB 21
8BB H90 H90 H 0 1 N N N N N N -51.835 31.372 27.384 -2.751 2.070 -0.856 H90 8BB 22
8BB H90A H90A H 0 0 N N N N N N -50.831 31.309 25.896 -2.562 1.607 0.853 H90A 8BB 23
8BB H91 H91 H 0 1 N N N N N N -52.918 31.053 24.541 -3.216 -0.293 -1.444 H91 8BB 24
8BB H92 H92 H 0 1 N N N N N N -54.470 31.602 27.168 -3.019 -0.743 1.568 H92 8BB 25
8BB H92A H92A H 0 0 N N N N N N -55.184 31.448 25.527 -3.533 -1.954 0.370 H92A 8BB 26
8BB H93 H93 H 0 1 N N N N N N -55.279 29.313 26.927 -1.140 -2.241 0.955 H93 8BB 27
8BB H93A H93A H 0 0 N N N N N N -54.460 29.137 25.337 -1.329 -1.778 -0.753 H93A 8BB 28
8BB H94 H94 H 0 1 N N N N N N -53.105 29.316 28.115 -0.675 0.123 1.544 H94 8BB 29
8BB H95 H95 H 0 1 N N N N N N -51.867 29.061 25.331 -0.872 0.572 -1.469 H95 8BB 30
8BB H95A H95A H 0 0 N N N N N N -50.986 29.026 26.896 -0.358 1.783 -0.270 H95A 8BB 31
8BB HO98 HO98 H 0 0 N N N N N N -53.517 34.703 25.643 -6.639 -0.251 -0.128 HO98 8BB 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
8BB N H SING N N 1
8BB CA N SING N N 2
8BB CA N1 SING N N 3
8BB CB CA DOUB N E 4
8BB CB SG SING N N 5
8BB C N1 SING N N 6
8BB C C94 SING N N 7
8BB O C DOUB N N 8
8BB C90 C95 SING N N 9
8BB C91 C90 SING N N 10
8BB C91 C92 SING N N 11
8BB C92 C93 SING N N 12
8BB C93 C94 SING N N 13
8BB C95 C94 SING N N 14
8BB C96 C91 SING N N 15
8BB C96 O98 SING N N 16
8BB O97 C96 DOUB N N 17
8BB N H2 SING N N 18
8BB N1 HN1 SING N N 19
8BB CB HB SING N N 20
8BB SG HSG SING N N 21
8BB C90 H90 SING N N 22
8BB C90 H90A SING N N 23
8BB C91 H91 SING N N 24
8BB C92 H92 SING N N 25
8BB C92 H92A SING N N 26
8BB C93 H93 SING N N 27
8BB C93 H93A SING N N 28
8BB C94 H94 SING N N 29
8BB C95 H95 SING N N 30
8BB C95 H95A SING N N 31
8BB O98 HO98 SING N N 32
#
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
8BB SMILES ACDLabs 12.01 'O=C(O)C1CCC(C(=O)NC(=C\S)\N)CC1'
8BB InChI InChI 1.03 'InChI=1S/C10H16N2O3S/c11-8(5-16)12-9(13)6-1-3-7(4-2-6)10(14)15/h5-7,16H,1-4,11H2,(H,12,13)(H,14,15)/b8-5+/t6-,7-'
8BB InChIKey InChI 1.03 CDTJVPQETGXMJI-YMPIFHGYSA-N
8BB SMILES_CANONICAL CACTVS 3.370 'N\C(NC(=O)[C@H]1CC[C@@H](CC1)C(O)=O)=C/S'
8BB SMILES CACTVS 3.370 'NC(NC(=O)[CH]1CC[CH](CC1)C(O)=O)=CS'
8BB SMILES_CANONICAL 'OpenEye OEToolkits' 1.7.6 'C1CC(CCC1C(=O)N/C(=C/S)/N)C(=O)O'
8BB SMILES 'OpenEye OEToolkits' 1.7.6 'C1CC(CCC1C(=O)NC(=CS)N)C(=O)O'
#
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
8BB 'SYSTEMATIC NAME' ACDLabs 12.01 'trans-4-{[(E)-1-amino-2-sulfanylethenyl]carbamoyl}cyclohexanecarboxylic acid'
8BB 'SYSTEMATIC NAME' 'OpenEye OEToolkits' 1.7.6 '4-[[(E)-1-azanyl-2-sulfanyl-ethenyl]carbamoyl]cyclohexane-1-carboxylic 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
8BB 'Create component' 2012-01-04 RCSB
8BB 'Modify backbone' 2023-11-03 PDBE
8BB 'Modify PCM' 2024-09-27 PDBE
#
_pdbx_chem_comp_pcm.pcm_id 1
_pdbx_chem_comp_pcm.comp_id 8BB
_pdbx_chem_comp_pcm.modified_residue_id ?
_pdbx_chem_comp_pcm.type None
_pdbx_chem_comp_pcm.category 'Non-standard residue'
_pdbx_chem_comp_pcm.position 'Amino-acid side chain and backbone'
_pdbx_chem_comp_pcm.polypeptide_position C-terminal
_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 ?
_pdbx_chem_comp_pcm.first_instance_model_db_code 3U6B
#
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
8BB N N -2.683 4.263 1
8BB N1 N -1.382 2.015 2
8BB CA C -2.681 2.763 3
8BB CB C -3.980 2.013 4
8BB SG S -5.279 2.761 5
8BB C C -1.381 0.515 6
8BB O O -2.679 -0.237 7
8BB C90 C 2.517 -0.232 8
8BB C91 C 2.518 -1.732 9
8BB C92 C 1.220 -2.483 10
8BB C93 C -0.080 -1.734 11
8BB C94 C -0.081 -0.234 12
8BB C95 C 1.217 0.516 13
8BB C96 C 3.818 -2.481 14
8BB O97 O 5.116 -1.730 15
8BB O98 O 3.819 -3.981 16
#
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
8BB CA N SINGLE ENDDOWNRIGHT 1
8BB CA N1 SINGLE ENDUPRIGHT 2
8BB CB CA DOUBLE NONE 3
8BB CB SG SINGLE ENDDOWNRIGHT 4
8BB C N1 SINGLE NONE 5
8BB C94 C SINGLE BEGINWEDGE 6
8BB O C DOUBLE NONE 7
8BB C90 C95 SINGLE NONE 8
8BB C91 C90 SINGLE NONE 9
8BB C91 C92 SINGLE NONE 10
8BB C92 C93 SINGLE NONE 11
8BB C93 C94 SINGLE NONE 12
8BB C95 C94 SINGLE NONE 13
8BB C91 C96 SINGLE BEGINDASH 14
8BB C96 O98 SINGLE NONE 15
8BB O97 C96 DOUBLE NONE 16
#
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
8BB MurckoScaffold S1 scaffold C1CCCCC1 InChI=1S/C6H12/c1-2-4-6-5-3-1/h1-6H2 XDTMQSROBMDMFD-UHFFFAOYSA-N
8BB amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
8BB cyclohexane F2 fragment C1CCCCC1 InChI=1S/C6H12/c1-2-4-6-5-3-1/h1-6H2 XDTMQSROBMDMFD-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
8BB C90 S1 1
8BB C91 S1 1
8BB C92 S1 1
8BB C93 S1 1
8BB C94 S1 1
8BB C95 S1 1
8BB N1 F1 1
8BB C F1 1
8BB O F1 1
8BB C94 F1 1
8BB C90 F2 1
8BB C95 F2 1
8BB C94 F2 1
8BB C93 F2 1
8BB C92 F2 1
8BB C91 F2 1
#
_pdbe_chem_comp_rdkit_properties.comp_id 8BB
_pdbe_chem_comp_rdkit_properties.exactmw 244.088
_pdbe_chem_comp_rdkit_properties.amw 244.316
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 5
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 4
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 5
_pdbe_chem_comp_rdkit_properties.NumHBD 4
_pdbe_chem_comp_rdkit_properties.NumHBA 5
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 16
_pdbe_chem_comp_rdkit_properties.NumAtoms 32
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 6
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.600
_pdbe_chem_comp_rdkit_properties.NumRings 1
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 1
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 1
_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 0
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 121.912
_pdbe_chem_comp_rdkit_properties.tpsa 92.420
_pdbe_chem_comp_rdkit_properties.CrippenClogP 0.681
_pdbe_chem_comp_rdkit_properties.CrippenMR 62.483
_pdbe_chem_comp_rdkit_properties.chi0v 8.344
_pdbe_chem_comp_rdkit_properties.chi1v 4.146
_pdbe_chem_comp_rdkit_properties.chi2v 1.524
_pdbe_chem_comp_rdkit_properties.chi3v 1.524
_pdbe_chem_comp_rdkit_properties.chi4v 0.742
_pdbe_chem_comp_rdkit_properties.chi0n 23.527
_pdbe_chem_comp_rdkit_properties.chi1n 11.395
_pdbe_chem_comp_rdkit_properties.chi2n 1.342
_pdbe_chem_comp_rdkit_properties.chi3n 1.342
_pdbe_chem_comp_rdkit_properties.chi4n 0.696
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.170
_pdbe_chem_comp_rdkit_properties.kappa1 2.984
_pdbe_chem_comp_rdkit_properties.kappa2 5.789
_pdbe_chem_comp_rdkit_properties.kappa3 3.445
_pdbe_chem_comp_rdkit_properties.Phi 1.080
#
_pdbe_chem_comp_external_mappings.comp_id 8BB
_pdbe_chem_comp_external_mappings.source UniChem
_pdbe_chem_comp_external_mappings.resource PDBe
_pdbe_chem_comp_external_mappings.resource_id 8BB
#
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
8BB N 4.088 0.931 -0.669 ETKDGv3 1
8BB N1 2.028 -0.388 -0.211 ETKDGv3 2
8BB CA 3.455 -0.325 -0.377 ETKDGv3 3
8BB CB 4.177 -1.440 -0.196 ETKDGv3 4
8BB SG 5.966 -1.490 -0.324 ETKDGv3 5
8BB C 1.111 0.467 -0.914 ETKDGv3 6
8BB O 1.501 1.136 -1.909 ETKDGv3 7
8BB C90 -2.118 -1.221 0.191 ETKDGv3 8
8BB C91 -2.899 -0.029 0.780 ETKDGv3 9
8BB C92 -1.969 1.082 1.348 ETKDGv3 10
8BB C93 -0.489 0.904 0.969 ETKDGv3 11
8BB C94 -0.343 0.526 -0.515 ETKDGv3 12
8BB C95 -1.073 -0.799 -0.860 ETKDGv3 13
8BB C96 -3.885 0.514 -0.225 ETKDGv3 14
8BB O97 -3.495 1.224 -1.191 ETKDGv3 15
8BB O98 -5.235 0.201 -0.101 ETKDGv3 16
8BB H 3.551 1.823 -0.598 ETKDGv3 17
8BB H2 5.101 1.004 -0.909 ETKDGv3 18
8BB HN1 1.632 -1.135 0.403 ETKDGv3 19
8BB HB 3.674 -2.370 0.040 ETKDGv3 20
8BB HSG 6.124 -1.198 1.044 ETKDGv3 21
8BB H90 -1.595 -1.744 1.022 ETKDGv3 22
8BB H90A -2.821 -1.956 -0.258 ETKDGv3 23
8BB H91 -3.497 -0.427 1.630 ETKDGv3 24
8BB H92 -2.305 2.089 1.016 ETKDGv3 25
8BB H92A -2.040 1.085 2.458 ETKDGv3 26
8BB H93 -0.040 0.116 1.612 ETKDGv3 27
8BB H93A 0.053 1.854 1.173 ETKDGv3 28
8BB H94 -0.821 1.342 -1.103 ETKDGv3 29
8BB H95 -0.352 -1.638 -0.974 ETKDGv3 30
8BB H95A -1.575 -0.684 -1.845 ETKDGv3 31
8BB HO98 -5.912 0.545 -0.771 ETKDGv3 32
#