data_BDI
#
_chem_comp.id BDI
_chem_comp.name 2-BUTYL-5,6-DIHYDRO-1H-IMIDAZO[4,5-D]PYRIDAZINE-4,7-DIONE
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C9 H12 N4 O2"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2002-11-05
_chem_comp.pdbx_modified_date 2011-06-04
_chem_comp.pdbx_ambiguous_flag N
_chem_comp.pdbx_release_status REL
_chem_comp.pdbx_replaced_by ?
_chem_comp.pdbx_replaces LN4
_chem_comp.formula_weight 208.217
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code BDI
_chem_comp.pdbx_model_coordinates_details ?
_chem_comp.pdbx_model_coordinates_missing_flag N
_chem_comp.pdbx_ideal_coordinates_details ?
_chem_comp.pdbx_ideal_coordinates_missing_flag N
_chem_comp.pdbx_model_coordinates_db_code 1N2V
_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
BDI N1 N1 N 0 1 Y N N N N N 15.435 16.853 20.409 0.768 0.491 0.415 N1 BDI 1
BDI C1 C1 C 0 1 Y N N N N N 16.590 17.076 19.806 -0.402 0.543 0.993 C1 BDI 2
BDI C6 C6 C 0 1 N N N N N N 16.744 17.026 18.284 -0.637 0.837 2.452 C6 BDI 3
BDI C7 C7 C 0 1 N N N N N N 15.665 17.769 17.432 0.060 -0.223 3.305 C7 BDI 4
BDI C8 C8 C 0 1 N N N N N N 16.342 18.373 16.158 -0.177 0.074 4.787 C8 BDI 5
BDI C9 C9 C 0 1 N N N N N N 15.343 19.117 15.238 0.520 -0.986 5.640 C9 BDI 6
BDI N2 N2 N 0 1 Y N N N N N 17.490 17.322 20.605 -1.369 0.299 0.084 N2 BDI 7
BDI C2 C2 C 0 1 Y N N N N N 17.038 17.301 21.958 -0.754 0.081 -1.114 C2 BDI 8
BDI C4 C4 C 0 1 Y N N N N N 17.702 17.527 23.277 -1.220 -0.230 -2.472 C4 BDI 9
BDI N5 N5 N 0 1 Y N N N N N 16.875 17.410 24.401 -0.324 -0.389 -3.465 N5 BDI 10
BDI N4 N4 N 0 1 Y N N N N N 15.412 17.079 24.315 1.048 -0.267 -3.238 N4 BDI 11
BDI C5 C5 C 0 1 Y N N N N N 14.740 16.856 23.098 1.539 0.016 -2.016 C5 BDI 12
BDI O1 O1 O 0 1 N N N N N N 13.508 16.576 23.010 2.738 0.117 -1.847 O1 BDI 13
BDI C3 C3 C 0 1 Y N N N N N 15.646 16.983 21.839 0.610 0.204 -0.882 C3 BDI 14
BDI O3 O3 O 0 1 N N N N N N 18.900 17.796 23.331 -2.410 -0.342 -2.699 O3 BDI 15
BDI HC61 1HC6 H 0 0 N N N N N N 17.757 17.394 18.001 -1.708 0.822 2.658 HC61 BDI 16
BDI HC62 2HC6 H 0 0 N N N N N N 16.810 15.963 17.952 -0.235 1.820 2.694 HC62 BDI 17
BDI HC71 1HC7 H 0 0 N N N N N N 14.799 17.113 17.180 1.131 -0.208 3.099 HC71 BDI 18
BDI HC72 2HC7 H 0 0 N N N N N N 15.114 18.537 18.023 -0.342 -1.207 3.063 HC72 BDI 19
BDI HC81 1HC8 H 0 0 N N N N N N 17.195 19.034 16.436 -1.248 0.059 4.993 HC81 BDI 20
BDI HC82 2HC8 H 0 0 N N N N N N 16.896 17.588 15.591 0.224 1.058 5.029 HC82 BDI 21
BDI HC91 1HC9 H 0 0 N N N N N N 15.825 19.547 14.329 0.350 -0.773 6.695 HC91 BDI 22
BDI HC92 2HC9 H 0 0 N N N N N N 14.489 18.455 14.959 0.118 -1.969 5.398 HC92 BDI 23
BDI HC93 3HC9 H 0 0 N N N N N N 14.788 19.901 15.804 1.590 -0.970 5.434 HC93 BDI 24
BDI HN2 HN2 H 0 1 N N N N N N 18.418 17.505 20.224 -2.324 0.282 0.252 HN2 BDI 25
BDI HN5 HN5 H 0 1 N N N N N N 17.343 17.567 25.293 -0.639 -0.595 -4.359 HN5 BDI 26
BDI HN4 HN4 H 0 1 N N N N N N 14.829 16.999 25.148 1.663 -0.389 -3.978 HN4 BDI 27
#
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
BDI N1 C1 DOUB Y N 1
BDI N1 C3 SING Y N 2
BDI C1 C6 SING N N 3
BDI C1 N2 SING Y N 4
BDI C6 C7 SING N N 5
BDI C6 HC61 SING N N 6
BDI C6 HC62 SING N N 7
BDI C7 C8 SING N N 8
BDI C7 HC71 SING N N 9
BDI C7 HC72 SING N N 10
BDI C8 C9 SING N N 11
BDI C8 HC81 SING N N 12
BDI C8 HC82 SING N N 13
BDI C9 HC91 SING N N 14
BDI C9 HC92 SING N N 15
BDI C9 HC93 SING N N 16
BDI N2 C2 SING Y N 17
BDI N2 HN2 SING N N 18
BDI C2 C4 SING Y N 19
BDI C2 C3 DOUB Y N 20
BDI C4 N5 SING Y N 21
BDI C4 O3 DOUB N N 22
BDI N5 N4 SING Y N 23
BDI N5 HN5 SING N N 24
BDI N4 C5 SING Y N 25
BDI N4 HN4 SING N N 26
BDI C5 O1 DOUB N N 27
BDI C5 C3 SING Y N 28
#
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
BDI SMILES ACDLabs 10.04 O=C2c1nc(nc1C(=O)NN2)CCCC
BDI SMILES_CANONICAL CACTVS 3.341 CCCCc1[nH]c2C(=O)NNC(=O)c2n1
BDI SMILES CACTVS 3.341 CCCCc1[nH]c2C(=O)NNC(=O)c2n1
BDI SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 CCCCc1[nH]c2c(n1)C(=O)NNC2=O
BDI SMILES "OpenEye OEToolkits" 1.5.0 CCCCc1[nH]c2c(n1)C(=O)NNC2=O
BDI InChI InChI 1.03 InChI=1S/C9H12N4O2/c1-2-3-4-5-10-6-7(11-5)9(15)13-12-8(6)14/h2-4H2,1H3,(H,10,11)(H,12,14)(H,13,15)
BDI InChIKey InChI 1.03 DQHJYYALMHIEAH-UHFFFAOYSA-N
#
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
BDI "SYSTEMATIC NAME" ACDLabs 10.04 2-butyl-5,6-dihydro-1H-imidazo[4,5-d]pyridazine-4,7-dione
BDI "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 2-butyl-5,6-dihydro-1H-imidazo[4,5-d]pyridazine-4,7-dione
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
BDI 'Create component' 2002-11-05 RCSB
BDI 'Modify descriptor' 2011-06-04 RCSB
#
_pdbe_chem_comp_drugbank_details.comp_id BDI
_pdbe_chem_comp_drugbank_details.drugbank_id DB02441
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name '2-Butyl-5,6-Dihydro-1h-Imidazo[4,5-D]Pyridazine-4,7-Dione'
_pdbe_chem_comp_drugbank_details.description ?
_pdbe_chem_comp_drugbank_details.cas_number ?
_pdbe_chem_comp_drugbank_details.mechanism_of_action ?
#
_pdbe_chem_comp_drugbank_classification.comp_id BDI
_pdbe_chem_comp_drugbank_classification.drugbank_id DB02441
_pdbe_chem_comp_drugbank_classification.parent Pyridazinones
_pdbe_chem_comp_drugbank_classification.kingdom 'Organic compounds'
_pdbe_chem_comp_drugbank_classification.class Diazines
_pdbe_chem_comp_drugbank_classification.superclass 'Organoheterocyclic compounds'
_pdbe_chem_comp_drugbank_classification.description
'This compound belongs to the class of organic compounds known as pyridazinones. These are compounds containing a pyridazine ring which bears a ketone.'
#
_pdbe_chem_comp_drugbank_targets.comp_id BDI
_pdbe_chem_comp_drugbank_targets.drugbank_id DB02441
_pdbe_chem_comp_drugbank_targets.name 'Queuine tRNA-ribosyltransferase'
_pdbe_chem_comp_drugbank_targets.organism 'Zymomonas mobilis subsp. mobilis (strain ATCC 31821 / ZM4 / CP4)'
_pdbe_chem_comp_drugbank_targets.uniprot_id P28720
_pdbe_chem_comp_drugbank_targets.pharmacologically_active unknown
_pdbe_chem_comp_drugbank_targets.ordinal 1
#
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
BDI N1 N 7.823 1.207 1
BDI C1 C 8.698 0.000 2
BDI C6 C 10.198 0.000 3
BDI C7 C 10.948 -1.299 4
BDI C8 C 12.448 -1.299 5
BDI C9 C 13.198 -2.598 6
BDI N2 N 7.823 -1.207 7
BDI C2 C 6.404 -0.750 8
BDI C4 C 5.104 -1.500 9
BDI N5 N 3.805 -0.750 10
BDI N4 N 3.805 0.750 11
BDI C5 C 5.104 1.500 12
BDI O1 O 5.104 3.000 13
BDI C3 C 6.404 0.750 14
BDI O3 O 5.104 -3.000 15
#
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
BDI N1 C1 DOUBLE NONE 1
BDI N1 C3 SINGLE NONE 2
BDI C1 C6 SINGLE NONE 3
BDI C1 N2 SINGLE NONE 4
BDI C6 C7 SINGLE NONE 5
BDI C7 C8 SINGLE NONE 6
BDI C8 C9 SINGLE NONE 7
BDI N2 C2 SINGLE NONE 8
BDI C2 C4 SINGLE NONE 9
BDI C2 C3 DOUBLE NONE 10
BDI C4 N5 SINGLE NONE 11
BDI C4 O3 DOUBLE NONE 12
BDI N5 N4 SINGLE NONE 13
BDI N4 C5 SINGLE NONE 14
BDI C5 O1 DOUBLE NONE 15
BDI C5 C3 SINGLE 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
BDI MurckoScaffold S1 scaffold 'O=c1[nH][nH]c(=O)c2[nH]cnc12' InChI=1S/C5H4N4O2/c10-4-2-3(7-1-6-2)5(11)9-8-4/h1H,(H,6,7)(H,8,10)(H,9,11) GOKGXTNRIXSKPF-UHFFFAOYSA-N
BDI imidazole F1 fragment 'c1c[nH]cn1' InChI=1S/C3H4N2/c1-2-5-3-4-1/h1-3H,(H,4,5) RAXXELZNTBOGNW-UHFFFAOYSA-N
BDI pyridazine F2 fragment c1ccnnc1 InChI=1S/C4H4N2/c1-2-4-6-5-3-1/h1-4H PBMFSQRYOILNGV-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
BDI N1 S1 1
BDI C1 S1 1
BDI N2 S1 1
BDI C2 S1 1
BDI C4 S1 1
BDI N5 S1 1
BDI N4 S1 1
BDI C5 S1 1
BDI O1 S1 1
BDI C3 S1 1
BDI O3 S1 1
BDI C2 F1 1
BDI C3 F1 1
BDI N1 F1 1
BDI C1 F1 1
BDI N2 F1 1
BDI C2 F2 1
BDI C4 F2 1
BDI N5 F2 1
BDI N4 F2 1
BDI C5 F2 1
BDI C3 F2 1
#
_pdbe_chem_comp_rdkit_properties.comp_id BDI
_pdbe_chem_comp_rdkit_properties.exactmw 208.096
_pdbe_chem_comp_rdkit_properties.amw 208.221
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 6
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 3
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 4
_pdbe_chem_comp_rdkit_properties.NumHBD 3
_pdbe_chem_comp_rdkit_properties.NumHBA 3
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 15
_pdbe_chem_comp_rdkit_properties.NumAtoms 27
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 6
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.444
_pdbe_chem_comp_rdkit_properties.NumRings 2
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 2
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 0
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 2
_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 101.766
_pdbe_chem_comp_rdkit_properties.tpsa 94.400
_pdbe_chem_comp_rdkit_properties.CrippenClogP 1.599
_pdbe_chem_comp_rdkit_properties.CrippenMR 53.691
_pdbe_chem_comp_rdkit_properties.chi0v 7.105
_pdbe_chem_comp_rdkit_properties.chi1v 3.700
_pdbe_chem_comp_rdkit_properties.chi2v 1.533
_pdbe_chem_comp_rdkit_properties.chi3v 1.533
_pdbe_chem_comp_rdkit_properties.chi4v 0.970
_pdbe_chem_comp_rdkit_properties.chi0n 19.105
_pdbe_chem_comp_rdkit_properties.chi1n 9.542
_pdbe_chem_comp_rdkit_properties.chi2n 1.533
_pdbe_chem_comp_rdkit_properties.chi3n 1.533
_pdbe_chem_comp_rdkit_properties.chi4n 0.970
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.850
_pdbe_chem_comp_rdkit_properties.kappa1 2.839
_pdbe_chem_comp_rdkit_properties.kappa2 3.720
_pdbe_chem_comp_rdkit_properties.kappa3 1.698
_pdbe_chem_comp_rdkit_properties.Phi 0.704
#
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
BDI UniChem ChEMBL CHEMBL280051
BDI UniChem DrugBank DB02441
BDI UniChem PDBe BDI
BDI UniChem fdasrs 917N15H9XX
BDI UniChem SureChEMBL SCHEMBL4322651
BDI UniChem PubChem 3465283
BDI UniChem Nikkaji J2.026.694E
BDI UniChem BindingDb 50125763
BDI UniChem 'EPA CompTox Dashboard' DTXSID40392734
BDI UniChem BRENDA 109729
BDI UniChem 'Probes And Drugs' PD008329
#
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
BDI N1 0.325 -1.542 0.404 ETKDGv3 1
BDI C1 -0.277 -0.632 -0.304 ETKDGv3 2
BDI C6 -1.698 -0.229 -0.068 ETKDGv3 3
BDI C7 -1.764 0.942 0.916 ETKDGv3 4
BDI C8 -3.215 1.371 1.164 ETKDGv3 5
BDI C9 -3.285 2.538 2.144 ETKDGv3 6
BDI N2 0.567 0.004 -1.268 ETKDGv3 7
BDI C2 1.795 -0.667 -1.061 ETKDGv3 8
BDI C4 3.071 -0.456 -1.747 ETKDGv3 9
BDI N5 4.190 -1.263 -1.344 ETKDGv3 10
BDI N4 4.042 -2.219 -0.316 ETKDGv3 11
BDI C5 2.772 -2.393 0.335 ETKDGv3 12
BDI O1 2.628 -3.239 1.256 ETKDGv3 13
BDI C3 1.654 -1.555 -0.107 ETKDGv3 14
BDI O3 3.188 0.403 -2.660 ETKDGv3 15
BDI HC61 -2.266 -1.096 0.336 ETKDGv3 16
BDI HC62 -2.155 0.066 -1.037 ETKDGv3 17
BDI HC71 -1.300 0.639 1.881 ETKDGv3 18
BDI HC72 -1.192 1.803 0.503 ETKDGv3 19
BDI HC81 -3.792 0.516 1.580 ETKDGv3 20
BDI HC82 -3.684 1.678 0.204 ETKDGv3 21
BDI HC91 -4.346 2.826 2.304 ETKDGv3 22
BDI HC92 -2.845 2.248 3.122 ETKDGv3 23
BDI HC93 -2.736 3.415 1.740 ETKDGv3 24
BDI HN2 0.345 0.783 -1.926 ETKDGv3 25
BDI HN5 5.117 -1.142 -1.811 ETKDGv3 26
BDI HN4 4.861 -2.801 -0.028 ETKDGv3 27
#