data_SWB
#
_chem_comp.id SWB
_chem_comp.name 3-(3-methyl-1~{H}-pyrrolo[2,3-b]pyridin-5-yl)-1~{H}-pyrrolo[3,4-b]pyrrol-6-one
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C14 H12 N4 O"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2020-12-02
_chem_comp.pdbx_modified_date 2020-12-04
_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 252.271
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code SWB
_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 7B3V
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site PDBE
#
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
SWB C1 C1 C 0 1 Y N N N N N 198.188 -31.355 83.855 4.042 -0.813 0.515 C1 SWB 1
SWB C2 C2 C 0 1 Y N N N N N 198.013 -30.001 83.754 4.946 0.159 0.320 C2 SWB 2
SWB C3 C3 C 0 1 Y N N N N N 200.170 -30.297 84.198 2.981 1.051 -0.310 C3 SWB 3
SWB C7 C4 C 0 1 Y N N N N N 202.222 -31.128 84.648 0.741 1.354 -0.779 C7 SWB 4
SWB C8 C5 C 0 1 Y N N N N N 202.670 -33.588 84.865 -0.977 -0.432 -0.430 C8 SWB 5
SWB C9 C6 C 0 1 Y N N N N N 202.303 -34.914 84.783 -1.406 -1.603 -0.988 C9 SWB 6
SWB C10 C7 C 0 1 Y N N N N N 204.465 -34.908 85.375 -3.192 -0.564 -0.173 C10 SWB 7
SWB C11 C8 C 0 1 Y N N N N N 204.055 -33.573 85.247 -2.105 0.224 0.085 C11 SWB 8
SWB C12 C9 C 0 1 N N N N N N 205.226 -32.677 85.556 -2.613 1.445 0.808 C12 SWB 9
SWB C13 C10 C 0 1 N N N N N N 205.899 -34.946 85.765 -4.390 0.095 0.354 C13 SWB 10
SWB O O1 O 0 1 N N N N N N 206.633 -35.905 85.976 -5.518 -0.355 0.283 O SWB 11
SWB N2 N1 N 0 1 Y N N N N N 203.375 -35.696 85.085 -2.744 -1.687 -0.835 N2 SWB 12
SWB N3 N2 N 0 1 N N N N N N 206.287 -33.612 85.858 -4.066 1.267 0.928 N3 SWB 13
SWB C6 C11 C 0 1 Y N N N N N 201.759 -32.443 84.614 0.426 0.054 -0.373 C6 SWB 14
SWB C5 C12 C 0 1 Y N N N N N 200.404 -32.662 84.360 1.443 -0.779 0.084 C5 SWB 15
SWB C4 C13 C 0 1 Y N N N N N 199.575 -31.564 84.140 2.742 -0.270 0.115 C4 SWB 16
SWB C C14 C 0 1 N N N N N N 197.137 -32.416 83.698 4.313 -2.199 1.040 C SWB 17
SWB N1 N3 N 0 1 Y N N N N N 201.460 -30.041 84.445 1.975 1.804 -0.737 N1 SWB 18
SWB N N4 N 0 1 Y N N N N N 199.206 -29.359 83.960 4.330 1.278 -0.172 N SWB 19
SWB H1 H1 H 0 1 N N N N N N 197.074 -29.511 83.543 6.004 0.072 0.522 H1 SWB 20
SWB H2 H2 H 0 1 N N N N N N 203.271 -30.972 84.853 -0.047 2.002 -1.134 H2 SWB 21
SWB H3 H3 H 0 1 N N N N N N 201.320 -35.275 84.520 -0.779 -2.337 -1.472 H3 SWB 22
SWB H4 H4 H 0 1 N N N N N N 205.485 -32.053 84.688 -2.160 1.512 1.797 H4 SWB 23
SWB H5 H5 H 0 1 N N N N N N 203.371 -36.696 85.095 -3.300 -2.420 -1.142 H5 SWB 24
SWB H6 H6 H 0 1 N N N N N N 200.005 -33.665 84.334 1.233 -1.789 0.405 H6 SWB 25
SWB H7 H7 H 0 1 N N N N N N 197.082 -32.725 82.644 4.535 -2.866 0.206 H7 SWB 26
SWB H8 H8 H 0 1 N N N N N N 197.397 -33.284 84.321 5.165 -2.171 1.719 H8 SWB 27
SWB H9 H9 H 0 1 N N N N N N 196.162 -32.016 84.014 3.435 -2.564 1.573 H9 SWB 28
SWB H10 H10 H 0 1 N N N N N N 199.347 -28.369 83.940 4.779 2.110 -0.392 H10 SWB 29
SWB H11 H11 H 0 1 N N N N N N 205.011 -32.031 86.420 -2.391 2.343 0.231 H11 SWB 30
SWB H12 H12 H 0 1 N N N N N N 207.212 -33.327 86.110 -4.683 1.886 1.349 H12 SWB 31
#
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
SWB C C1 SING N N 1
SWB C2 C1 DOUB Y N 2
SWB C2 N SING Y N 3
SWB C1 C4 SING Y N 4
SWB N C3 SING Y N 5
SWB C4 C3 DOUB Y N 6
SWB C4 C5 SING Y N 7
SWB C3 N1 SING Y N 8
SWB C5 C6 DOUB Y N 9
SWB N1 C7 DOUB Y N 10
SWB C6 C7 SING Y N 11
SWB C6 C8 SING N N 12
SWB C9 C8 DOUB Y N 13
SWB C9 N2 SING Y N 14
SWB C8 C11 SING Y N 15
SWB N2 C10 SING Y N 16
SWB C11 C10 DOUB Y N 17
SWB C11 C12 SING N N 18
SWB C10 C13 SING N N 19
SWB C12 N3 SING N N 20
SWB C13 N3 SING N N 21
SWB C13 O DOUB N N 22
SWB C2 H1 SING N N 23
SWB C7 H2 SING N N 24
SWB C9 H3 SING N N 25
SWB C12 H4 SING N N 26
SWB N2 H5 SING N N 27
SWB C5 H6 SING N N 28
SWB C H7 SING N N 29
SWB C H8 SING N N 30
SWB C H9 SING N N 31
SWB N H10 SING N N 32
SWB C12 H11 SING N N 33
SWB N3 H12 SING N N 34
#
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
SWB InChI InChI 1.03 InChI=1S/C14H12N4O/c1-7-3-16-13-9(7)2-8(4-17-13)10-5-15-12-11(10)6-18-14(12)19/h2-5,15H,6H2,1H3,(H,16,17)(H,18,19)
SWB InChIKey InChI 1.03 WKBTUQDWSZYQRW-UHFFFAOYSA-N
SWB SMILES_CANONICAL CACTVS 3.385 Cc1c[nH]c2ncc(cc12)c3c[nH]c4C(=O)NCc34
SWB SMILES CACTVS 3.385 Cc1c[nH]c2ncc(cc12)c3c[nH]c4C(=O)NCc34
SWB SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 Cc1c[nH]c2c1cc(cn2)c3c[nH]c4c3CNC4=O
SWB SMILES "OpenEye OEToolkits" 2.0.7 Cc1c[nH]c2c1cc(cn2)c3c[nH]c4c3CNC4=O
#
_pdbx_chem_comp_identifier.comp_id SWB
_pdbx_chem_comp_identifier.type "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version 2.0.7
_pdbx_chem_comp_identifier.identifier
3-(3-methyl-1~{H}-pyrrolo[2,3-b]pyridin-5-yl)-4,5-dihydro-1~{H}-pyrrolo[3,4-b]pyrrol-6-one
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
SWB 'Create component' 2020-12-02 PDBE
SWB 'Initial release' 2020-12-09 RCSB
#
loop_
_software.name
_software.version
_software.description
rdkit 2023.09.6 'Core functionality.'
pdbeccdutils 0.8.6 '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
SWB C1 C 13.351 0.176 1
SWB C2 C 14.227 -1.031 2
SWB C3 C 11.932 -1.781 3
SWB C7 C 9.334 -1.781 4
SWB C8 C 8.035 0.469 5
SWB C9 C 7.878 1.961 6
SWB C10 C 5.661 0.974 7
SWB C11 C 6.665 -0.141 8
SWB C12 C 5.916 -1.431 9
SWB C13 C 4.300 0.363 10
SWB O O 3.000 1.111 11
SWB N2 N 6.411 2.272 12
SWB N3 N 4.457 -1.119 13
SWB C6 C 9.334 -0.281 14
SWB C5 C 10.633 0.469 15
SWB C4 C 11.932 -0.281 16
SWB C C 13.817 1.602 17
SWB N1 N 10.633 -2.531 18
SWB N N 13.351 -2.238 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
SWB C C1 SINGLE NONE 1
SWB C2 C1 DOUBLE NONE 2
SWB C2 N SINGLE NONE 3
SWB C1 C4 SINGLE NONE 4
SWB N C3 SINGLE NONE 5
SWB C4 C3 DOUBLE NONE 6
SWB C4 C5 SINGLE NONE 7
SWB C3 N1 SINGLE NONE 8
SWB C5 C6 DOUBLE NONE 9
SWB N1 C7 DOUBLE NONE 10
SWB C6 C7 SINGLE NONE 11
SWB C6 C8 SINGLE NONE 12
SWB C9 C8 DOUBLE NONE 13
SWB C9 N2 SINGLE NONE 14
SWB C8 C11 SINGLE NONE 15
SWB N2 C10 SINGLE NONE 16
SWB C11 C10 DOUBLE NONE 17
SWB C11 C12 SINGLE NONE 18
SWB C10 C13 SINGLE NONE 19
SWB C12 N3 SINGLE NONE 20
SWB C13 N3 SINGLE NONE 21
SWB C13 O DOUBLE NONE 22
#
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
SWB MurckoScaffold S1 scaffold 'O=C1NCc2c(-c3cnc4[nH]ccc4c3)c[nH]c21' InChI=1S/C13H10N4O/c18-13-11-10(6-17-13)9(5-15-11)8-3-7-1-2-14-12(7)16-4-8/h1-5,15H,6H2,(H,14,16)(H,17,18) GLIFFNANWZLDQI-UHFFFAOYSA-N
SWB amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
SWB pyridine F2 fragment c1ccncc1 InChI=1S/C5H5N/c1-2-4-6-5-3-1/h1-5H JUJWROOIHBZHMG-UHFFFAOYSA-N
SWB pyrrole F3 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
SWB C1 S1 1
SWB C2 S1 1
SWB C3 S1 1
SWB C7 S1 1
SWB C8 S1 1
SWB C9 S1 1
SWB C10 S1 1
SWB C11 S1 1
SWB C12 S1 1
SWB C13 S1 1
SWB O S1 1
SWB N2 S1 1
SWB N3 S1 1
SWB C6 S1 1
SWB C5 S1 1
SWB C4 S1 1
SWB N1 S1 1
SWB N S1 1
SWB N3 F1 1
SWB C13 F1 1
SWB O F1 1
SWB C10 F1 1
SWB C3 F2 1
SWB C4 F2 1
SWB C5 F2 1
SWB C6 F2 1
SWB C7 F2 1
SWB N1 F2 1
SWB C2 F3 1
SWB C1 F3 1
SWB C4 F3 1
SWB C3 F3 1
SWB N F3 1
SWB C9 F3 2
SWB C8 F3 2
SWB C11 F3 2
SWB C10 F3 2
SWB N2 F3 2
#
_pdbe_chem_comp_rdkit_properties.comp_id SWB
_pdbe_chem_comp_rdkit_properties.exactmw 252.101
_pdbe_chem_comp_rdkit_properties.amw 252.277
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 5
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 3
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 2
_pdbe_chem_comp_rdkit_properties.NumHBD 3
_pdbe_chem_comp_rdkit_properties.NumHBA 2
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 19
_pdbe_chem_comp_rdkit_properties.NumAtoms 31
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 5
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.143
_pdbe_chem_comp_rdkit_properties.NumRings 4
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 3
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 1
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 0
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 4
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 3
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 0
_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 0
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 125.642
_pdbe_chem_comp_rdkit_properties.tpsa 73.570
_pdbe_chem_comp_rdkit_properties.CrippenClogP 1.137
_pdbe_chem_comp_rdkit_properties.CrippenMR 67.462
_pdbe_chem_comp_rdkit_properties.chi0v 9.197
_pdbe_chem_comp_rdkit_properties.chi1v 5.243
_pdbe_chem_comp_rdkit_properties.chi2v 2.759
_pdbe_chem_comp_rdkit_properties.chi3v 2.759
_pdbe_chem_comp_rdkit_properties.chi4v 1.858
_pdbe_chem_comp_rdkit_properties.chi0n 21.197
_pdbe_chem_comp_rdkit_properties.chi1n 11.085
_pdbe_chem_comp_rdkit_properties.chi2n 2.759
_pdbe_chem_comp_rdkit_properties.chi3n 2.759
_pdbe_chem_comp_rdkit_properties.chi4n 1.858
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -2.560
_pdbe_chem_comp_rdkit_properties.kappa1 3.965
_pdbe_chem_comp_rdkit_properties.kappa2 3.475
_pdbe_chem_comp_rdkit_properties.kappa3 1.351
_pdbe_chem_comp_rdkit_properties.Phi 0.725
#
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
SWB UniChem ChEMBL CHEMBL4748121
SWB UniChem PubChem 155804539
#
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
SWB C1 3.691 0.199 0.142 ETKDGv3 1
SWB C2 4.433 -0.808 0.608 ETKDGv3 2
SWB C3 2.340 -1.563 0.394 ETKDGv3 3
SWB C7 0.008 -1.816 0.087 ETKDGv3 4
SWB C8 -1.376 0.210 -0.715 ETKDGv3 5
SWB C9 -1.583 1.325 -1.424 ETKDGv3 6
SWB C10 -3.585 0.549 -0.804 ETKDGv3 7
SWB C11 -2.697 -0.291 -0.323 ETKDGv3 8
SWB C12 -3.144 -0.879 0.991 ETKDGv3 9
SWB C13 -4.681 0.630 0.127 ETKDGv3 10
SWB O -5.658 1.420 0.053 ETKDGv3 11
SWB N2 -2.976 1.612 -1.518 ETKDGv3 12
SWB N3 -4.452 -0.261 1.206 ETKDGv3 13
SWB C6 -0.067 -0.379 -0.342 ETKDGv3 14
SWB C5 1.072 0.351 -0.372 ETKDGv3 15
SWB C4 2.327 -0.304 0.021 ETKDGv3 16
SWB C 4.147 1.607 -0.062 ETKDGv3 17
SWB N1 1.148 -2.355 0.432 ETKDGv3 18
SWB N 3.638 -1.983 0.781 ETKDGv3 19
SWB H1 5.485 -0.746 0.855 ETKDGv3 20
SWB H2 -0.884 -2.426 0.105 ETKDGv3 21
SWB H3 -0.815 1.962 -1.841 ETKDGv3 22
SWB H4 -2.449 -0.594 1.809 ETKDGv3 23
SWB H5 -3.407 2.529 -1.771 ETKDGv3 24
SWB H6 1.080 1.396 -0.651 ETKDGv3 25
SWB H7 3.591 2.064 -0.907 ETKDGv3 26
SWB H8 3.958 2.194 0.860 ETKDGv3 27
SWB H9 5.232 1.631 -0.296 ETKDGv3 28
SWB H10 3.931 -2.910 1.160 ETKDGv3 29
SWB H11 -3.246 -1.982 0.915 ETKDGv3 30
SWB H12 -5.062 -0.382 2.045 ETKDGv3 31
#