data_4TF
#
_chem_comp.id 4TF
_chem_comp.name "(1R,2S,3R,4S,5S)-5-(propoxymethyl)-7-oxabicyclo[2.2.1]heptane-2,3-dicarboxylic acid"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C12 H18 O6"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2015-05-21
_chem_comp.pdbx_modified_date 2016-04-22
_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 258.268
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 4TF
_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 4ZVZ
_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
4TF O18 O1 O 0 1 N N N N N N 29.553 19.789 28.957 -3.518 -0.750 -0.959 O18 4TF 1
4TF C16 C1 C 0 1 N N N N N N 30.383 19.016 29.486 -2.658 0.016 -1.324 C16 4TF 2
4TF O17 O2 O 0 1 N N N N N N 30.104 17.836 29.797 -2.979 1.071 -2.089 O17 4TF 3
4TF C01 C2 C 0 1 N N S N N N 31.753 19.567 29.747 -1.225 -0.210 -0.916 C01 4TF 4
4TF C06 C3 C 0 1 N N R N N N 32.243 19.462 31.197 -0.921 0.490 0.433 C06 4TF 5
4TF C07 C4 C 0 1 N N N N N N 31.345 18.633 32.081 -2.144 1.199 0.954 C07 4TF 6
4TF O09 O3 O 0 1 N N N N N N 30.291 19.153 32.501 -2.365 2.483 0.630 O09 4TF 7
4TF O08 O4 O 0 1 N N N N N N 31.655 17.446 32.369 -2.927 0.612 1.663 O08 4TF 8
4TF C02 C5 C 0 1 N N R N N N 32.842 18.830 28.977 -0.975 -1.713 -0.588 C02 4TF 9
4TF O10 O5 O 0 1 N N N N N N 33.294 17.887 29.938 -1.379 -1.769 0.820 O10 4TF 10
4TF C05 C6 C 0 1 N N S N N N 33.603 18.800 30.989 -0.536 -0.701 1.362 C05 4TF 11
4TF C03 C7 C 0 1 N N N N N N 34.038 19.768 28.866 0.572 -1.857 -0.465 C03 4TF 12
4TF C04 C8 C 0 1 N N S N N N 34.575 19.750 30.295 0.876 -1.156 0.884 C04 4TF 13
4TF C11 C9 C 0 1 N N N N N N 34.614 21.160 30.894 1.792 0.051 0.673 C11 4TF 14
4TF O12 O6 O 0 1 N N N N N N 35.920 21.482 31.373 3.077 -0.397 0.236 O12 4TF 15
4TF C13 C10 C 0 1 N N N N N N 35.917 22.261 32.571 4.014 0.658 0.009 C13 4TF 16
4TF C14 C11 C 0 1 N N N N N N 35.554 23.718 32.298 5.346 0.066 -0.453 C14 4TF 17
4TF C15 C12 C 0 1 N N N N N N 34.908 24.343 33.517 6.350 1.195 -0.696 C15 4TF 18
4TF H1 H1 H 0 1 N N N N N N 29.200 17.653 29.569 -3.911 1.177 -2.322 H1 4TF 19
4TF H2 H2 H 0 1 N N N N N N 31.772 20.626 29.451 -0.544 0.136 -1.693 H2 4TF 20
4TF H3 H3 H 0 1 N N N N N N 32.374 20.468 31.622 -0.089 1.186 0.328 H3 4TF 21
4TF H4 H4 H 0 1 N N N N N N 29.817 18.524 33.033 -3.163 2.895 0.988 H4 4TF 22
4TF H5 H5 H 0 1 N N N N N N 32.508 18.414 28.015 -1.469 -2.424 -1.250 H5 4TF 23
4TF H6 H6 H 0 1 N N N N N N 34.013 18.343 31.902 -0.640 -0.513 2.430 H6 4TF 24
4TF H7 H7 H 0 1 N N N N N N 34.783 19.386 28.152 0.860 -2.907 -0.428 H7 4TF 25
4TF H8 H8 H 0 1 N N N N N N 33.728 20.780 28.566 1.073 -1.346 -1.287 H8 4TF 26
4TF H9 H9 H 0 1 N N N N N N 35.586 19.317 30.305 1.319 -1.856 1.592 H9 4TF 27
4TF H10 H10 H 0 1 N N N N N N 34.327 21.887 30.120 1.360 0.708 -0.082 H10 4TF 28
4TF H11 H11 H 0 1 N N N N N N 33.902 21.214 31.730 1.897 0.596 1.611 H11 4TF 29
4TF H12 H12 H 0 1 N N N N N N 35.182 21.836 33.270 3.628 1.328 -0.760 H12 4TF 30
4TF H13 H13 H 0 1 N N N N N N 36.919 22.222 33.024 4.165 1.215 0.933 H13 4TF 31
4TF H14 H14 H 0 1 N N N N N N 36.467 24.277 32.046 5.732 -0.604 0.316 H14 4TF 32
4TF H15 H15 H 0 1 N N N N N N 34.851 23.763 31.453 5.195 -0.491 -1.378 H15 4TF 33
4TF H16 H16 H 0 1 N N N N N N 34.654 25.391 33.301 5.964 1.865 -1.465 H16 4TF 34
4TF H17 H17 H 0 1 N N N N N N 33.992 23.789 33.771 6.501 1.753 0.228 H17 4TF 35
4TF H18 H18 H 0 1 N N N N N N 35.608 24.303 34.364 7.299 0.773 -1.026 H18 4TF 36
#
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
4TF C03 C02 SING N N 1
4TF C03 C04 SING N N 2
4TF O18 C16 DOUB N N 3
4TF C02 C01 SING N N 4
4TF C02 O10 SING N N 5
4TF C16 C01 SING N N 6
4TF C16 O17 SING N N 7
4TF C01 C06 SING N N 8
4TF O10 C05 SING N N 9
4TF C04 C11 SING N N 10
4TF C04 C05 SING N N 11
4TF C11 O12 SING N N 12
4TF C05 C06 SING N N 13
4TF C06 C07 SING N N 14
4TF O12 C13 SING N N 15
4TF C07 O08 DOUB N N 16
4TF C07 O09 SING N N 17
4TF C14 C13 SING N N 18
4TF C14 C15 SING N N 19
4TF O17 H1 SING N N 20
4TF C01 H2 SING N N 21
4TF C06 H3 SING N N 22
4TF O09 H4 SING N N 23
4TF C02 H5 SING N N 24
4TF C05 H6 SING N N 25
4TF C03 H7 SING N N 26
4TF C03 H8 SING N N 27
4TF C04 H9 SING N N 28
4TF C11 H10 SING N N 29
4TF C11 H11 SING N N 30
4TF C13 H12 SING N N 31
4TF C13 H13 SING N N 32
4TF C14 H14 SING N N 33
4TF C14 H15 SING N N 34
4TF C15 H16 SING N N 35
4TF C15 H17 SING N N 36
4TF C15 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
4TF SMILES ACDLabs 12.01 O=C(C1C(C(=O)O)C2OC1CC2COCCC)O
4TF InChI InChI 1.03 InChI=1S/C12H18O6/c1-2-3-17-5-6-4-7-8(11(13)14)9(12(15)16)10(6)18-7/h6-10H,2-5H2,1H3,(H,13,14)(H,15,16)/t6-,7+,8+,9+,10-/m0/s1
4TF InChIKey InChI 1.03 KENGHAXMPKBHLS-CHHOWFRJSA-N
4TF SMILES_CANONICAL CACTVS 3.385 CCCOC[C@@H]1C[C@H]2O[C@@H]1[C@@H]([C@@H]2C(O)=O)C(O)=O
4TF SMILES CACTVS 3.385 CCCOC[CH]1C[CH]2O[CH]1[CH]([CH]2C(O)=O)C(O)=O
4TF SMILES_CANONICAL "OpenEye OEToolkits" 1.9.2 CCCOC[C@@H]1C[C@@H]2[C@H]([C@H]([C@H]1O2)C(=O)O)C(=O)O
4TF SMILES "OpenEye OEToolkits" 1.9.2 CCCOCC1CC2C(C(C1O2)C(=O)O)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
4TF "SYSTEMATIC NAME" ACDLabs 12.01 "(1R,2S,3R,4S,5S)-5-(propoxymethyl)-7-oxabicyclo[2.2.1]heptane-2,3-dicarboxylic acid"
4TF "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.9.2 "(1R,2S,3R,4S,5S)-5-(propoxymethyl)-7-oxabicyclo[2.2.1]heptane-2,3-dicarboxylic 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
4TF 'Create component' 2015-05-21 RCSB
4TF 'Initial release' 2016-04-27 RCSB
#
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
4TF O18 O 3.018 3.579 1
4TF C16 C 3.152 2.090 2
4TF O17 O 4.526 1.459 3
4TF C01 C 1.934 1.189 4
4TF C06 C 1.891 -0.326 5
4TF C07 C 3.058 -1.293 6
4TF O09 O 4.465 -0.738 7
4TF O08 O 2.843 -2.772 8
4TF C02 C 0.454 1.463 9
4TF O10 O 0.141 0.481 10
4TF C05 C 0.398 -0.517 11
4TF C03 C -1.045 1.504 12
4TF C04 C -1.100 -0.471 13
4TF C11 C -2.186 -1.368 14
4TF O12 O -3.498 -0.696 15
4TF C13 C -4.735 -1.442 16
4TF C14 C -6.018 -0.697 17
4TF C15 C -7.299 -1.447 18
#
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
4TF C03 C02 SINGLE NONE 1
4TF C03 C04 SINGLE NONE 2
4TF O18 C16 DOUBLE NONE 3
4TF C02 C01 SINGLE NONE 4
4TF C02 O10 SINGLE NONE 5
4TF C01 C16 SINGLE BEGINWEDGE 6
4TF C16 O17 SINGLE NONE 7
4TF C01 C06 SINGLE NONE 8
4TF O10 C05 SINGLE NONE 9
4TF C04 C11 SINGLE BEGINDASH 10
4TF C04 C05 SINGLE NONE 11
4TF C11 O12 SINGLE NONE 12
4TF C05 C06 SINGLE NONE 13
4TF C06 C07 SINGLE BEGINWEDGE 14
4TF O12 C13 SINGLE NONE 15
4TF C07 O08 DOUBLE NONE 16
4TF C07 O09 SINGLE NONE 17
4TF C14 C13 SINGLE NONE 18
4TF C14 C15 SINGLE NONE 19
#
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
4TF MurckoScaffold S1 scaffold 'C1C[C@H]2CC[C@@H]1O2' InChI=1S/C6H10O/c1-2-6-4-3-5(1)7-6/h5-6H,1-4H2/t5-,6+ YPWFNLSXQIGJCK-OLQVQODUSA-N
4TF cyclohexane F1 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
4TF C01 S1 1
4TF C06 S1 1
4TF C02 S1 1
4TF O10 S1 1
4TF C05 S1 1
4TF C03 S1 1
4TF C04 S1 1
4TF C01 F1 1
4TF C02 F1 1
4TF C03 F1 1
4TF C04 F1 1
4TF C05 F1 1
4TF C06 F1 1
#
_pdbe_chem_comp_rdkit_properties.comp_id 4TF
_pdbe_chem_comp_rdkit_properties.exactmw 258.110
_pdbe_chem_comp_rdkit_properties.amw 258.270
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 6
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 2
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 7
_pdbe_chem_comp_rdkit_properties.NumHBD 2
_pdbe_chem_comp_rdkit_properties.NumHBA 6
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 18
_pdbe_chem_comp_rdkit_properties.NumAtoms 36
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 6
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.833
_pdbe_chem_comp_rdkit_properties.NumRings 2
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 2
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 2
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 2
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 5
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 130.343
_pdbe_chem_comp_rdkit_properties.tpsa 93.060
_pdbe_chem_comp_rdkit_properties.CrippenClogP 0.602
_pdbe_chem_comp_rdkit_properties.CrippenMR 60.130
_pdbe_chem_comp_rdkit_properties.chi0v 8.449
_pdbe_chem_comp_rdkit_properties.chi1v 4.383
_pdbe_chem_comp_rdkit_properties.chi2v 2.037
_pdbe_chem_comp_rdkit_properties.chi3v 2.037
_pdbe_chem_comp_rdkit_properties.chi4v 1.429
_pdbe_chem_comp_rdkit_properties.chi0n 26.449
_pdbe_chem_comp_rdkit_properties.chi1n 13.199
_pdbe_chem_comp_rdkit_properties.chi2n 2.037
_pdbe_chem_comp_rdkit_properties.chi3n 2.037
_pdbe_chem_comp_rdkit_properties.chi4n 1.429
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.140
_pdbe_chem_comp_rdkit_properties.kappa1 3.298
_pdbe_chem_comp_rdkit_properties.kappa2 5.237
_pdbe_chem_comp_rdkit_properties.kappa3 2.220
_pdbe_chem_comp_rdkit_properties.Phi 0.960
#
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
4TF UniChem ZINC ZINC000584904934
4TF UniChem PubChem 118987232
#
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
4TF O18 -4.895 -0.382 0.232 ETKDGv3 1
4TF C16 -4.075 0.469 -0.206 ETKDGv3 2
4TF O17 -4.539 1.564 -0.929 ETKDGv3 3
4TF C01 -2.595 0.263 0.015 ETKDGv3 4
4TF C06 -1.834 -0.369 -1.174 ETKDGv3 5
4TF C07 -2.673 -0.622 -2.406 ETKDGv3 6
4TF O09 -2.985 0.418 -3.279 ETKDGv3 7
4TF O08 -3.131 -1.776 -2.622 ETKDGv3 8
4TF C02 -1.843 1.604 0.140 ETKDGv3 9
4TF O10 -1.491 1.902 -1.181 ETKDGv3 10
4TF C05 -0.776 0.727 -1.432 ETKDGv3 11
4TF C03 -0.487 1.377 0.822 ETKDGv3 12
4TF C04 0.311 0.778 -0.337 ETKDGv3 13
4TF C11 1.002 -0.555 -0.003 ETKDGv3 14
4TF O12 2.144 -0.291 0.785 ETKDGv3 15
4TF C13 2.802 -1.504 1.088 ETKDGv3 16
4TF C14 4.052 -1.217 1.921 ETKDGv3 17
4TF C15 5.084 -0.409 1.138 ETKDGv3 18
4TF H1 -5.530 1.695 -1.097 ETKDGv3 19
4TF H2 -2.460 -0.354 0.932 ETKDGv3 20
4TF H3 -1.372 -1.333 -0.881 ETKDGv3 21
4TF H4 -3.564 0.256 -4.094 ETKDGv3 22
4TF H5 -2.432 2.417 0.618 ETKDGv3 23
4TF H6 -0.345 0.708 -2.457 ETKDGv3 24
4TF H7 -0.048 2.350 1.133 ETKDGv3 25
4TF H8 -0.563 0.710 1.709 ETKDGv3 26
4TF H9 1.088 1.506 -0.664 ETKDGv3 27
4TF H10 1.296 -1.042 -0.960 ETKDGv3 28
4TF H11 0.303 -1.220 0.553 ETKDGv3 29
4TF H12 3.104 -2.041 0.159 ETKDGv3 30
4TF H13 2.137 -2.167 1.687 ETKDGv3 31
4TF H14 4.510 -2.181 2.231 ETKDGv3 32
4TF H15 3.766 -0.659 2.839 ETKDGv3 33
4TF H16 5.391 -0.959 0.222 ETKDGv3 34
4TF H17 5.982 -0.243 1.769 ETKDGv3 35
4TF H18 4.668 0.580 0.850 ETKDGv3 36
#