data_R0M
#
_chem_comp.id R0M
_chem_comp.name "(2E,4E)-hepta-2,4-dienoic acid"
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C7 H10 O2"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2020-01-21
_chem_comp.pdbx_modified_date 2020-03-13
_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 126.153
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code R0M
_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 6VGN
_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
R0M C5 C1 C 0 1 N N N N N N 74.772 78.495 135.158 0.234 0.180 -0.144 C5 R0M 1
R0M C6 C2 C 0 1 N N N N N N 74.765 77.617 134.165 1.344 -0.576 0.019 C6 R0M 2
R0M C2 C3 C 0 1 N N N N N N 77.261 80.447 137.239 -3.536 -0.362 -0.383 C2 R0M 3
R0M C4 C4 C 0 1 N N N N N N 76.030 78.955 135.731 -1.083 -0.454 -0.185 C4 R0M 4
R0M C1 C5 C 0 1 N N N N N N 77.458 81.897 136.853 -4.439 0.269 0.678 C1 R0M 5
R0M C3 C6 C 0 1 N N N N N N 75.993 79.947 136.609 -2.178 0.292 -0.340 C3 R0M 6
R0M C7 C7 C 0 1 N N N N N N 73.478 77.162 133.615 2.621 0.039 0.059 C7 R0M 7
R0M O1 O1 O 0 1 N N N N N N 72.447 77.537 134.137 2.719 1.247 -0.052 O1 R0M 8
R0M O2 O2 O 0 1 N Y N N N N 73.470 76.343 132.572 3.729 -0.715 0.222 O2 R0M 9
R0M H1 H1 H 0 1 N N N N N N 73.837 78.873 135.546 0.320 1.253 -0.238 H1 R0M 10
R0M H2 H2 H 0 1 N N N N N N 75.694 77.240 133.764 1.258 -1.648 0.118 H2 R0M 11
R0M H3 H3 H 0 1 N N N N N N 77.189 80.362 138.333 -3.431 -1.429 -0.184 H3 R0M 12
R0M H4 H4 H 0 1 N N N N N N 78.112 79.850 136.880 -3.977 -0.218 -1.369 H4 R0M 13
R0M H5 H5 H 0 1 N N N N N N 76.968 78.500 135.448 -1.169 -1.527 -0.091 H5 R0M 14
R0M H6 H6 H 0 1 N N N N N N 78.385 82.276 137.309 -3.998 0.124 1.664 H6 R0M 15
R0M H7 H7 H 0 1 N N N N N N 77.528 81.979 135.758 -4.543 1.335 0.479 H7 R0M 16
R0M H8 H8 H 0 1 N N N N N N 76.604 82.491 137.211 -5.421 -0.204 0.647 H8 R0M 17
R0M H9 H9 H 0 1 N N N N N N 75.047 80.397 136.872 -2.092 1.364 -0.435 H9 R0M 18
R0M H10 H10 H 0 1 N N N N N N 72.573 76.132 132.342 4.551 -0.207 0.237 H10 R0M 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
R0M C7 O1 DOUB N N 1
R0M C7 C6 SING N N 2
R0M C6 C5 DOUB N E 3
R0M C5 C4 SING N N 4
R0M C4 C3 DOUB N E 5
R0M C3 C2 SING N N 6
R0M C1 C2 SING N N 7
R0M C7 O2 SING N N 8
R0M C5 H1 SING N N 9
R0M C6 H2 SING N N 10
R0M C2 H3 SING N N 11
R0M C2 H4 SING N N 12
R0M C4 H5 SING N N 13
R0M C1 H6 SING N N 14
R0M C1 H7 SING N N 15
R0M C1 H8 SING N N 16
R0M C3 H9 SING N N 17
R0M O2 H10 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
R0M SMILES ACDLabs 12.01 "[C@H](\C=C\CC)=[C@H]C(=O)O"
R0M InChI InChI 1.03 InChI=1S/C7H10O2/c1-2-3-4-5-6-7(8)9/h3-6H,2H2,1H3,(H,8,9)/b4-3+,6-5+
R0M InChIKey InChI 1.03 GYTGOLDQGRPDNF-VNKDHWASSA-N
R0M SMILES_CANONICAL CACTVS 3.385 CC/C=C/C=C/C(O)=O
R0M SMILES CACTVS 3.385 CCC=CC=CC(O)=O
R0M SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 CC/C=C/C=C/C(=O)O
R0M SMILES "OpenEye OEToolkits" 2.0.7 CCC=CC=CC(=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
R0M "SYSTEMATIC NAME" ACDLabs 12.01 "(2E,4E)-hepta-2,4-dienoic acid"
R0M "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(2~{E},4~{E})-hepta-2,4-dienoic 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
R0M 'Create component' 2020-01-21 RCSB
R0M 'Initial release' 2020-03-18 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
R0M C5 C 7.702 -0.090 1
R0M C6 C 6.404 0.660 2
R0M C2 C 11.600 0.660 3
R0M C4 C 9.002 0.660 4
R0M C1 C 12.899 -0.090 5
R0M C3 C 10.301 -0.090 6
R0M C7 C 5.104 -0.090 7
R0M O1 O 3.805 0.660 8
R0M O2 O 5.104 -1.590 9
#
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
R0M C7 O1 DOUBLE NONE 1
R0M C7 C6 SINGLE ENDUPRIGHT 2
R0M C6 C5 DOUBLE NONE 3
R0M C5 C4 SINGLE ENDUPRIGHT 4
R0M C4 C3 DOUBLE NONE 5
R0M C3 C2 SINGLE ENDUPRIGHT 6
R0M C1 C2 SINGLE NONE 7
R0M C7 O2 SINGLE NONE 8
#
#
#
_pdbe_chem_comp_rdkit_properties.comp_id R0M
_pdbe_chem_comp_rdkit_properties.exactmw 126.068
_pdbe_chem_comp_rdkit_properties.amw 126.155
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 2
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 1
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 4
_pdbe_chem_comp_rdkit_properties.NumHBD 1
_pdbe_chem_comp_rdkit_properties.NumHBA 2
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 9
_pdbe_chem_comp_rdkit_properties.NumAtoms 19
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 2
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.286
_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 0
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 68.642
_pdbe_chem_comp_rdkit_properties.tpsa 37.300
_pdbe_chem_comp_rdkit_properties.CrippenClogP 1.593
_pdbe_chem_comp_rdkit_properties.CrippenMR 36.207
_pdbe_chem_comp_rdkit_properties.chi0v 4.316
_pdbe_chem_comp_rdkit_properties.chi1v 1.908
_pdbe_chem_comp_rdkit_properties.chi2v 0.352
_pdbe_chem_comp_rdkit_properties.chi3v 0.352
_pdbe_chem_comp_rdkit_properties.chi4v 0.145
_pdbe_chem_comp_rdkit_properties.chi0n 14.316
_pdbe_chem_comp_rdkit_properties.chi1n 6.816
_pdbe_chem_comp_rdkit_properties.chi2n 0.352
_pdbe_chem_comp_rdkit_properties.chi3n 0.352
_pdbe_chem_comp_rdkit_properties.chi4n 0.145
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.050
_pdbe_chem_comp_rdkit_properties.kappa1 1.337
_pdbe_chem_comp_rdkit_properties.kappa2 5.094
_pdbe_chem_comp_rdkit_properties.kappa3 6.950
_pdbe_chem_comp_rdkit_properties.Phi 0.756
#
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
R0M UniChem PDBe R0M
R0M UniChem ZINC ZINC000002018107
R0M UniChem fdasrs SGE8IQ4R52
R0M UniChem SureChEMBL SCHEMBL96605
R0M UniChem 'PubChem TPHARMA' 16946435
R0M UniChem Nikkaji J1.676.415I
R0M UniChem ChemicalBook CB22519782
R0M UniChem PubChem 6433689
#
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
R0M C5 1.262 -0.082 -0.213 ETKDGv3 1
R0M C6 2.065 0.477 -1.122 ETKDGv3 2
R0M C2 -2.361 0.255 1.017 ETKDGv3 3
R0M C4 -0.134 0.360 -0.064 ETKDGv3 4
R0M C1 -3.229 -0.176 -0.162 ETKDGv3 5
R0M C3 -0.940 -0.196 0.844 ETKDGv3 6
R0M C7 3.464 0.055 -1.293 ETKDGv3 7
R0M O1 4.177 0.616 -2.166 ETKDGv3 8
R0M O2 4.007 -0.955 -0.503 ETKDGv3 9
R0M H1 1.634 -0.873 0.429 ETKDGv3 10
R0M H2 1.687 1.267 -1.761 ETKDGv3 11
R0M H3 -2.772 -0.196 1.946 ETKDGv3 12
R0M H4 -2.397 1.361 1.128 ETKDGv3 13
R0M H5 -0.512 1.152 -0.702 ETKDGv3 14
R0M H6 -4.280 0.135 0.018 ETKDGv3 15
R0M H7 -2.877 0.300 -1.101 ETKDGv3 16
R0M H8 -3.200 -1.281 -0.278 ETKDGv3 17
R0M H9 -0.564 -0.974 1.500 ETKDGv3 18
R0M H10 4.970 -1.246 -0.620 ETKDGv3 19
#