data_WYG
#
_chem_comp.id WYG
_chem_comp.name "[(2R)-4-(7H-pyrrolo[2,3-d]pyrimidin-4-yl)morpholin-2-yl]acetic acid"
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C12 H14 N4 O3"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2020-11-17
_chem_comp.pdbx_modified_date 2022-07-08
_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 262.265
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code WYG
_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 5S6U
_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
WYG C10 C1 C 0 1 Y N N N N N -47.464 -29.243 6.559 -4.317 -1.729 -0.419 C10 WYG 1
WYG C17 C2 C 0 1 N N N N N N -47.280 -31.024 0.466 1.246 -2.010 0.594 C17 WYG 2
WYG C02 C3 C 0 1 N N N N N N -43.940 -32.007 3.064 4.704 0.287 -0.266 C02 WYG 3
WYG C03 C4 C 0 1 N N N N N N -43.934 -31.336 1.677 3.402 0.982 0.039 C03 WYG 4
WYG C04 C5 C 0 1 N N R N N N -45.112 -30.404 1.346 2.240 0.017 -0.207 C04 WYG 5
WYG C05 C6 C 0 1 N N N N N N -46.005 -29.964 2.510 0.913 0.757 -0.019 C05 WYG 6
WYG C07 C7 C 0 1 Y N N N N N -48.224 -29.049 3.012 -1.419 0.450 -0.071 C07 WYG 7
WYG C08 C8 C 0 1 Y N N N N N -48.016 -29.091 4.397 -2.621 -0.265 -0.186 C08 WYG 8
WYG C09 C9 C 0 1 Y N N N N N -46.937 -29.292 5.283 -2.976 -1.664 -0.416 C09 WYG 9
WYG C12 C10 C 0 1 Y N N N N N -49.146 -28.932 5.197 -3.836 0.434 -0.066 C12 WYG 10
WYG C14 C11 C 0 1 Y N N N N N -50.445 -28.677 3.318 -2.646 2.377 0.252 C14 WYG 11
WYG C16 C12 C 0 1 N N N N N N -47.573 -29.559 0.714 -0.091 -1.291 0.790 C16 WYG 12
WYG N06 N1 N 0 1 N N N N N N -47.143 -29.214 2.047 -0.198 -0.192 -0.181 N06 WYG 13
WYG N11 N2 N 0 1 Y N N N N N -48.767 -29.031 6.462 -4.843 -0.480 -0.214 N11 WYG 14
WYG N13 N3 N 0 1 Y N N N N N -50.327 -28.732 4.634 -3.796 1.748 0.151 N13 WYG 15
WYG N15 N4 N 0 1 Y N N N N N -49.425 -28.810 2.540 -1.482 1.760 0.147 N15 WYG 16
WYG O01 O1 O 0 1 N N N N N N -43.312 -31.513 3.989 5.865 0.945 -0.120 O01 WYG 17
WYG O18 O2 O 0 1 N N N N N N -45.876 -31.141 0.385 2.313 -1.066 0.724 O18 WYG 18
WYG O19 O3 O 0 1 N N N N N N -44.562 -33.069 3.326 4.703 -0.861 -0.641 O19 WYG 19
WYG H101 H1 H 0 0 N N N N N N -46.908 -29.358 7.478 -4.895 -2.630 -0.565 H101 WYG 20
WYG H171 H2 H 0 0 N N N N N N -47.744 -31.351 -0.476 1.355 -2.788 1.349 H171 WYG 21
WYG H172 H3 H 0 0 N N N N N N -47.665 -31.635 1.296 1.275 -2.459 -0.399 H172 WYG 22
WYG H031 H4 H 0 0 N N N N N N -43.921 -32.136 0.922 3.395 1.300 1.081 H031 WYG 23
WYG H032 H5 H 0 0 N N N N N N -43.010 -30.744 1.599 3.294 1.852 -0.608 H032 WYG 24
WYG H041 H6 H 0 0 N N N N N N -44.705 -29.500 0.870 2.299 -0.372 -1.224 H041 WYG 25
WYG H051 H7 H 0 0 N N N N N N -46.359 -30.857 3.046 0.877 1.192 0.979 H051 WYG 26
WYG H052 H8 H 0 0 N N N N N N -45.417 -29.335 3.194 0.828 1.548 -0.764 H052 WYG 27
WYG H091 H9 H 0 0 N N N N N N -45.903 -29.453 5.016 -2.291 -2.488 -0.556 H091 WYG 28
WYG H141 H10 H 0 0 N N N N N N -51.421 -28.517 2.884 -2.652 3.443 0.427 H141 WYG 29
WYG H161 H11 H 0 0 N N N N N N -47.030 -28.945 -0.019 -0.909 -1.994 0.636 H161 WYG 30
WYG H162 H12 H 0 0 N N N N N N -48.653 -29.377 0.616 -0.143 -0.888 1.802 H162 WYG 31
WYG H111 H13 H 0 0 N N N N N N -49.386 -28.955 7.244 -5.790 -0.274 -0.177 H111 WYG 32
WYG H1 H14 H 0 1 N N N N N N -43.417 -32.049 4.766 6.675 0.458 -0.327 H1 WYG 33
#
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
WYG O18 C17 SING N N 1
WYG O18 C04 SING N N 2
WYG C17 C16 SING N N 3
WYG C16 N06 SING N N 4
WYG C04 C03 SING N N 5
WYG C04 C05 SING N N 6
WYG C03 C02 SING N N 7
WYG N06 C05 SING N N 8
WYG N06 C07 SING N N 9
WYG N15 C07 DOUB Y N 10
WYG N15 C14 SING Y N 11
WYG C07 C08 SING Y N 12
WYG C02 O19 DOUB N N 13
WYG C02 O01 SING N N 14
WYG C14 N13 DOUB Y N 15
WYG C08 C12 DOUB Y N 16
WYG C08 C09 SING Y N 17
WYG N13 C12 SING Y N 18
WYG C12 N11 SING Y N 19
WYG C09 C10 DOUB Y N 20
WYG N11 C10 SING Y N 21
WYG C10 H101 SING N N 22
WYG C17 H171 SING N N 23
WYG C17 H172 SING N N 24
WYG C03 H031 SING N N 25
WYG C03 H032 SING N N 26
WYG C04 H041 SING N N 27
WYG C05 H051 SING N N 28
WYG C05 H052 SING N N 29
WYG C09 H091 SING N N 30
WYG C14 H141 SING N N 31
WYG C16 H161 SING N N 32
WYG C16 H162 SING N N 33
WYG N11 H111 SING N N 34
WYG O01 H1 SING N N 35
#
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
WYG SMILES ACDLabs 12.01 c3cc2c(N1CC(CC(=O)O)OCC1)ncnc2n3
WYG InChI InChI 1.03 InChI=1S/C12H14N4O3/c17-10(18)5-8-6-16(3-4-19-8)12-9-1-2-13-11(9)14-7-15-12/h1-2,7-8H,3-6H2,(H,17,18)(H,13,14,15)/t8-/m1/s1
WYG InChIKey InChI 1.03 PRFABXNJKOXNTN-MRVPVSSYSA-N
WYG SMILES_CANONICAL CACTVS 3.385 OC(=O)C[C@@H]1CN(CCO1)c2ncnc3[nH]ccc23
WYG SMILES CACTVS 3.385 OC(=O)C[CH]1CN(CCO1)c2ncnc3[nH]ccc23
WYG SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 c1c[nH]c2c1c(ncn2)N3CCO[C@@H](C3)CC(=O)O
WYG SMILES "OpenEye OEToolkits" 2.0.7 c1c[nH]c2c1c(ncn2)N3CCOC(C3)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
WYG "SYSTEMATIC NAME" ACDLabs 12.01 "[(2R)-4-(7H-pyrrolo[2,3-d]pyrimidin-4-yl)morpholin-2-yl]acetic acid"
WYG "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "2-[(2~{R})-4-(7~{H}-pyrrolo[2,3-d]pyrimidin-4-yl)morpholin-2-yl]ethanoic 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
WYG 'Create component' 2020-11-17 RCSB
WYG 'Initial release' 2022-07-13 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
WYG C10 C 7.893 -3.545 1
WYG C17 C 3.000 1.706 2
WYG C02 C 6.897 3.955 3
WYG C03 C 6.897 2.455 4
WYG C04 C 5.598 1.706 5
WYG C05 C 5.598 0.205 6
WYG C07 C 4.299 -2.045 7
WYG C08 C 5.598 -2.795 8
WYG C09 C 7.018 -2.337 9
WYG C12 C 5.598 -4.295 10
WYG C14 C 3.000 -4.295 11
WYG C16 C 3.000 0.205 12
WYG N06 N 4.299 -0.544 13
WYG N11 N 7.018 -4.752 14
WYG N13 N 4.299 -5.045 15
WYG N15 N 3.000 -2.795 16
WYG O01 O 5.598 4.705 17
WYG O18 O 4.299 2.455 18
WYG O19 O 8.196 4.705 19
#
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
WYG O18 C17 SINGLE NONE 1
WYG O18 C04 SINGLE NONE 2
WYG C17 C16 SINGLE NONE 3
WYG C16 N06 SINGLE NONE 4
WYG C04 C03 SINGLE BEGINDASH 5
WYG C04 C05 SINGLE NONE 6
WYG C03 C02 SINGLE NONE 7
WYG N06 C05 SINGLE NONE 8
WYG N06 C07 SINGLE NONE 9
WYG N15 C07 DOUBLE NONE 10
WYG N15 C14 SINGLE NONE 11
WYG C07 C08 SINGLE NONE 12
WYG C02 O19 DOUBLE NONE 13
WYG C02 O01 SINGLE NONE 14
WYG C14 N13 DOUBLE NONE 15
WYG C08 C12 DOUBLE NONE 16
WYG C08 C09 SINGLE NONE 17
WYG N13 C12 SINGLE NONE 18
WYG C12 N11 SINGLE NONE 19
WYG C09 C10 DOUBLE NONE 20
WYG N11 C10 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
WYG MurckoScaffold S1 scaffold 'c1nc(N2CCOCC2)c2cc[nH]c2n1' InChI=1S/C10H12N4O/c1-2-11-9-8(1)10(13-7-12-9)14-3-5-15-6-4-14/h1-2,7H,3-6H2,(H,11,12,13) GIAZHSRKWYDANE-UHFFFAOYSA-N
WYG pyrimidine F1 fragment c1cncnc1 InChI=1S/C4H4N2/c1-2-5-4-6-3-1/h1-4H CZPWVGJYEJSRLH-UHFFFAOYSA-N
WYG pyrrole F2 fragment 'c1cc[nH]c1' InChI=1S/C4H5N/c1-2-4-5-3-1/h1-5H KAESVJOAVNADME-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
WYG C10 S1 1
WYG C17 S1 1
WYG C04 S1 1
WYG C05 S1 1
WYG C07 S1 1
WYG C08 S1 1
WYG C09 S1 1
WYG C12 S1 1
WYG C14 S1 1
WYG C16 S1 1
WYG N06 S1 1
WYG N11 S1 1
WYG N13 S1 1
WYG N15 S1 1
WYG O18 S1 1
WYG C08 F1 1
WYG C07 F1 1
WYG N15 F1 1
WYG C14 F1 1
WYG N13 F1 1
WYG C12 F1 1
WYG C10 F2 1
WYG C09 F2 1
WYG C08 F2 1
WYG C12 F2 1
WYG N11 F2 1
#
_pdbe_chem_comp_rdkit_properties.comp_id WYG
_pdbe_chem_comp_rdkit_properties.exactmw 262.107
_pdbe_chem_comp_rdkit_properties.amw 262.269
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 7
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 2
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 3
_pdbe_chem_comp_rdkit_properties.NumHBD 2
_pdbe_chem_comp_rdkit_properties.NumHBA 6
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 19
_pdbe_chem_comp_rdkit_properties.NumAtoms 33
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 7
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.417
_pdbe_chem_comp_rdkit_properties.NumRings 3
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 2
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 1
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 1
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 3
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 1
_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 128.589
_pdbe_chem_comp_rdkit_properties.tpsa 91.340
_pdbe_chem_comp_rdkit_properties.CrippenClogP -0.171
_pdbe_chem_comp_rdkit_properties.CrippenMR 65.065
_pdbe_chem_comp_rdkit_properties.chi0v 9.014
_pdbe_chem_comp_rdkit_properties.chi1v 4.829
_pdbe_chem_comp_rdkit_properties.chi2v 2.053
_pdbe_chem_comp_rdkit_properties.chi3v 2.053
_pdbe_chem_comp_rdkit_properties.chi4v 1.347
_pdbe_chem_comp_rdkit_properties.chi0n 23.014
_pdbe_chem_comp_rdkit_properties.chi1n 11.684
_pdbe_chem_comp_rdkit_properties.chi2n 2.053
_pdbe_chem_comp_rdkit_properties.chi3n 2.053
_pdbe_chem_comp_rdkit_properties.chi4n 1.347
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -2.150
_pdbe_chem_comp_rdkit_properties.kappa1 3.923
_pdbe_chem_comp_rdkit_properties.kappa2 4.848
_pdbe_chem_comp_rdkit_properties.kappa3 2.366
_pdbe_chem_comp_rdkit_properties.Phi 1.001
#
_pdbe_chem_comp_external_mappings.comp_id WYG
_pdbe_chem_comp_external_mappings.source UniChem
_pdbe_chem_comp_external_mappings.resource PubChem
_pdbe_chem_comp_external_mappings.resource_id 164513206
#
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
WYG C10 -4.455 -1.083 1.069 ETKDGv3 1
WYG C17 1.576 -1.169 1.395 ETKDGv3 2
WYG C02 4.540 1.466 0.131 ETKDGv3 3
WYG C03 3.106 1.882 0.031 ETKDGv3 4
WYG C04 2.175 0.664 0.100 ETKDGv3 5
WYG C05 0.713 1.099 -0.114 ETKDGv3 6
WYG C07 -1.336 -0.239 -0.726 ETKDGv3 7
WYG C08 -2.641 -0.671 -0.182 ETKDGv3 8
WYG C09 -3.155 -0.810 1.180 ETKDGv3 9
WYG C12 -3.654 -0.850 -1.001 ETKDGv3 10
WYG C14 -2.388 -0.241 -2.893 ETKDGv3 11
WYG C16 0.075 -0.886 1.279 ETKDGv3 12
WYG N06 -0.175 -0.047 0.105 ETKDGv3 13
WYG N11 -4.853 -1.129 -0.301 ETKDGv3 14
WYG N13 -3.539 -0.625 -2.410 ETKDGv3 15
WYG N15 -1.254 -0.043 -2.017 ETKDGv3 16
WYG O01 5.217 1.034 -1.005 ETKDGv3 17
WYG O18 2.317 0.036 1.364 ETKDGv3 18
WYG O19 5.124 1.471 1.248 ETKDGv3 19
WYG H101 -5.131 -1.222 1.902 ETKDGv3 20
WYG H171 1.769 -1.678 2.363 ETKDGv3 21
WYG H172 1.905 -1.864 0.589 ETKDGv3 22
WYG H031 2.958 2.414 -0.934 ETKDGv3 23
WYG H032 2.865 2.592 0.853 ETKDGv3 24
WYG H041 2.465 -0.034 -0.722 ETKDGv3 25
WYG H051 0.598 1.504 -1.143 ETKDGv3 26
WYG H052 0.445 1.901 0.608 ETKDGv3 27
WYG H091 -2.620 -0.685 2.110 ETKDGv3 28
WYG H141 -2.283 -0.068 -3.955 ETKDGv3 29
WYG H161 -0.465 -1.854 1.195 ETKDGv3 30
WYG H162 -0.266 -0.353 2.192 ETKDGv3 31
WYG H111 -5.815 -1.248 -0.688 ETKDGv3 32
WYG H1 6.183 0.734 -0.952 ETKDGv3 33
#