data_K44
#
_chem_comp.id K44
_chem_comp.name 5,6,7,8-TETRABROMO-1-METHYL-2,3-DIHYDRO-1H-IMIDAZO[1,2-A]BENZIMIDAZOLE
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C10 H7 Br4 N3"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms N1,N2-ETHYLENE-2-METHYLAMINO-4,5,6,7-TETRABROMO-BENZIMIDAZOLE
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2005-05-18
_chem_comp.pdbx_modified_date 2020-06-17
_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 488.799
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code K44
_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 1ZOH
_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
K44 C1 C1 C 0 1 Y N N N N N 22.709 8.055 18.103 -1.234 -0.402 -0.006 C1 K44 1
K44 C2 C2 C 0 1 Y N N N N N 21.685 8.671 18.836 -0.759 0.902 -0.001 C2 K44 2
K44 C3 C3 C 0 1 Y N N N N N 21.385 8.185 20.101 0.598 1.152 -0.048 C3 K44 3
K44 C4 C4 C 0 1 Y N N N N N 23.412 6.993 18.633 -0.357 -1.465 -0.059 C4 K44 4
K44 N5 N5 N 0 1 Y N N N N N 23.651 5.483 20.531 2.106 -2.041 -0.166 N5 K44 5
K44 C6 C6 C 0 1 Y N N N N N 23.091 6.516 19.887 1.020 -1.227 -0.108 C6 K44 6
K44 C7 C7 C 0 1 Y N N N N N 22.116 7.129 20.635 1.494 0.094 -0.101 C7 K44 7
K44 N8 N8 N 0 1 Y N N N N N 22.099 6.445 21.764 2.875 0.006 -0.152 N8 K44 8
K44 C9 C9 C 0 1 Y N N N N N 22.974 5.485 21.670 3.207 -1.317 -0.197 C9 K44 9
K44 N10 N10 N 0 1 N N R N N N 23.049 4.718 22.777 4.582 -1.490 -0.263 N10 K44 10
K44 C11 C11 C 0 1 N N N N N N 23.613 3.382 22.705 4.929 -2.501 0.744 C11 K44 11
K44 C12 C12 C 0 1 N N N N N N 21.367 6.473 22.994 4.107 0.813 -0.172 C12 K44 12
K44 C14 C14 C 0 1 N N N N N N 21.895 5.066 23.641 5.203 -0.221 0.176 C14 K44 13
K44 BR10 BR10 BR 0 0 N N N N N N 24.784 6.134 17.655 -1.015 -3.238 -0.065 BR10 K44 14
K44 BR11 BR11 BR 0 0 N N N N N N 23.167 8.741 16.407 -3.096 -0.724 0.060 BR11 K44 15
K44 BR12 BR12 BR 0 0 N N N N N N 20.744 10.106 18.018 -1.979 2.346 0.071 BR12 K44 16
K44 BR13 BR13 BR 0 0 N N N N N N 20.034 9.039 21.112 1.235 2.933 -0.039 BR13 K44 17
K44 H111 1H11 H 0 0 N N N N N N 24.632 3.455 22.259 4.540 -2.195 1.716 H111 K44 18
K44 H112 2H11 H 0 0 N N N N N N 23.675 2.748 23.620 4.492 -3.459 0.464 H112 K44 19
K44 H113 3H11 H 0 0 N N N N N N 23.065 2.812 21.919 6.013 -2.599 0.801 H113 K44 20
K44 H121 1H12 H 0 0 N N N N N N 20.262 6.591 22.907 4.065 1.599 0.582 H121 K44 21
K44 H122 2H12 H 0 0 N N N N N N 21.497 7.384 23.624 4.276 1.234 -1.163 H122 K44 22
K44 H141 1H14 H 0 0 N N N N N N 22.126 5.111 24.731 5.399 -0.234 1.249 H141 K44 23
K44 H142 2H14 H 0 0 N N N N N N 21.118 4.271 23.724 6.118 -0.021 -0.382 H142 K44 24
#
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
K44 C1 C2 DOUB Y N 1
K44 C1 C4 SING Y N 2
K44 C1 BR11 SING N N 3
K44 C2 C3 SING Y N 4
K44 C2 BR12 SING N N 5
K44 C3 C7 DOUB Y N 6
K44 C3 BR13 SING N N 7
K44 C4 C6 DOUB Y N 8
K44 C4 BR10 SING N N 9
K44 N5 C6 SING Y N 10
K44 N5 C9 DOUB Y N 11
K44 C6 C7 SING Y N 12
K44 C7 N8 SING Y N 13
K44 N8 C9 SING Y N 14
K44 N8 C12 SING N N 15
K44 C9 N10 SING N N 16
K44 N10 C11 SING N N 17
K44 N10 C14 SING N N 18
K44 C11 H111 SING N N 19
K44 C11 H112 SING N N 20
K44 C11 H113 SING N N 21
K44 C12 C14 SING N N 22
K44 C12 H121 SING N N 23
K44 C12 H122 SING N N 24
K44 C14 H141 SING N N 25
K44 C14 H142 SING N N 26
#
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
K44 SMILES ACDLabs 10.04 Brc1c2nc3n(c2c(Br)c(Br)c1Br)CCN3C
K44 SMILES_CANONICAL CACTVS 3.341 CN1CCn2c1nc3c(Br)c(Br)c(Br)c(Br)c23
K44 SMILES CACTVS 3.341 CN1CCn2c1nc3c(Br)c(Br)c(Br)c(Br)c23
K44 SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 C[N@@]1CCn2c1nc3c2c(c(c(c3Br)Br)Br)Br
K44 SMILES "OpenEye OEToolkits" 1.5.0 CN1CCn2c1nc3c2c(c(c(c3Br)Br)Br)Br
K44 InChI InChI 1.03 InChI=1S/C10H7Br4N3/c1-16-2-3-17-9-7(14)5(12)4(11)6(13)8(9)15-10(16)17/h2-3H2,1H3
K44 InChIKey InChI 1.03 QHCZROILDUNGRT-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
K44 "SYSTEMATIC NAME" ACDLabs 10.04 5,6,7,8-tetrabromo-1-methyl-2,3-dihydro-1H-imidazo[1,2-a]benzimidazole
K44 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 (3R)-5,6,7,8-tetrabromo-3-methyl-1,2-dihydroimidazo[1,2-a]benzimidazole
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
K44 'Create component' 2005-05-18 RCSB
K44 'Modify descriptor' 2011-06-04 RCSB
K44 'Modify synonyms' 2020-06-05 PDBE
#
_pdbx_chem_comp_synonyms.ordinal 1
_pdbx_chem_comp_synonyms.comp_id K44
_pdbx_chem_comp_synonyms.name N1,N2-ETHYLENE-2-METHYLAMINO-4,5,6,7-TETRABROMO-BENZIMIDAZOLE
_pdbx_chem_comp_synonyms.provenance ?
_pdbx_chem_comp_synonyms.type ?
#
_pdbe_chem_comp_drugbank_details.comp_id K44
_pdbe_chem_comp_drugbank_details.drugbank_id DB04721
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name N1,N2-ETHYLENE-2-METHYLAMINO-4,5,6,7-TETRABROMO-BENZIMIDAZOLE
_pdbe_chem_comp_drugbank_details.description ?
_pdbe_chem_comp_drugbank_details.cas_number ?
_pdbe_chem_comp_drugbank_details.mechanism_of_action ?
#
_pdbe_chem_comp_synonyms.comp_id K44
_pdbe_chem_comp_synonyms.name N1,N2-ETHYLENE-2-METHYLAMINO-4,5,6,7-TETRABROMO-BENZIMIDAZOLE
_pdbe_chem_comp_synonyms.provenance wwPDB
_pdbe_chem_comp_synonyms.type ?
#
_pdbe_chem_comp_drugbank_classification.comp_id K44
_pdbe_chem_comp_drugbank_classification.drugbank_id DB04721
_pdbe_chem_comp_drugbank_classification.parent Benzimidazoles
_pdbe_chem_comp_drugbank_classification.kingdom 'Organic compounds'
_pdbe_chem_comp_drugbank_classification.class Benzimidazoles
_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 benzimidazoles. These are organic compounds containing a benzene ring fused to an imidazole ring (five member ring containing a nitrogen atom, 4 carbon atoms, and two double bonds).'
#
_pdbe_chem_comp_drugbank_targets.comp_id K44
_pdbe_chem_comp_drugbank_targets.drugbank_id DB04721
_pdbe_chem_comp_drugbank_targets.name 'Casein kinase II subunit alpha'
_pdbe_chem_comp_drugbank_targets.organism Humans
_pdbe_chem_comp_drugbank_targets.uniprot_id P68400
_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
K44 C1 C 4.949 1.428 1
K44 C2 C 4.466 -0.059 2
K44 C3 C 5.521 -1.212 3
K44 C4 C 6.479 1.741 4
K44 N5 N 9.007 0.564 5
K44 C6 C 7.507 0.564 6
K44 C7 C 7.044 -0.863 7
K44 N8 N 8.257 -1.745 8
K44 C9 C 9.470 -0.863 9
K44 N10 N 10.675 -1.743 10
K44 C11 C 12.102 -1.282 11
K44 C12 C 8.722 -3.162 12
K44 C14 C 10.213 -3.160 13
K44 BR10 Br 6.960 3.162 14
K44 BR11 Br 3.950 2.546 15
K44 BR12 Br 3.000 -0.376 16
K44 BR13 Br 5.073 -2.643 17
#
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
K44 C1 C2 DOUBLE NONE 1
K44 C1 C4 SINGLE NONE 2
K44 C1 BR11 SINGLE NONE 3
K44 C2 C3 SINGLE NONE 4
K44 C2 BR12 SINGLE NONE 5
K44 C3 C7 DOUBLE NONE 6
K44 C3 BR13 SINGLE NONE 7
K44 C4 C6 DOUBLE NONE 8
K44 C4 BR10 SINGLE NONE 9
K44 N5 C6 SINGLE NONE 10
K44 N5 C9 DOUBLE NONE 11
K44 C6 C7 SINGLE NONE 12
K44 C7 N8 SINGLE NONE 13
K44 N8 C9 SINGLE NONE 14
K44 N8 C12 SINGLE NONE 15
K44 C9 N10 SINGLE NONE 16
K44 N10 C11 SINGLE NONE 17
K44 N10 C14 SINGLE NONE 18
K44 C12 C14 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
K44 MurckoScaffold S1 scaffold c1ccc2c(c1)nc1n2CCN1 InChI=1S/C9H9N3/c1-2-4-8-7(3-1)11-9-10-5-6-12(8)9/h1-4H,5-6H2,(H,10,11) DSOYHAWYIJNVGK-UHFFFAOYSA-N
K44 benzimidazole F1 fragment 'c1ccc2[nH]cnc2c1' InChI=1S/C7H6N2/c1-2-4-7-6(3-1)8-5-9-7/h1-5H,(H,8,9) HYZJCKYKOHLVJF-UHFFFAOYSA-N
K44 imidazole F2 fragment 'c1c[nH]cn1' InChI=1S/C3H4N2/c1-2-5-3-4-1/h1-3H,(H,4,5) RAXXELZNTBOGNW-UHFFFAOYSA-N
K44 phenyl F3 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-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
K44 C1 S1 1
K44 C2 S1 1
K44 C3 S1 1
K44 C4 S1 1
K44 N5 S1 1
K44 C6 S1 1
K44 C7 S1 1
K44 N8 S1 1
K44 C9 S1 1
K44 N10 S1 1
K44 C12 S1 1
K44 C14 S1 1
K44 C6 F1 1
K44 N5 F1 1
K44 C9 F1 1
K44 N8 F1 1
K44 C7 F1 1
K44 C3 F1 1
K44 C2 F1 1
K44 C1 F1 1
K44 C4 F1 1
K44 C6 F2 1
K44 C7 F2 1
K44 N8 F2 1
K44 C9 F2 1
K44 N5 F2 1
K44 C1 F3 1
K44 C2 F3 1
K44 C3 F3 1
K44 C7 F3 1
K44 C6 F3 1
K44 C4 F3 1
#
_pdbe_chem_comp_rdkit_properties.comp_id K44
_pdbe_chem_comp_rdkit_properties.exactmw 484.737
_pdbe_chem_comp_rdkit_properties.amw 488.803
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 3
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 0
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 1
_pdbe_chem_comp_rdkit_properties.NumHBD 0
_pdbe_chem_comp_rdkit_properties.NumHBA 3
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 17
_pdbe_chem_comp_rdkit_properties.NumAtoms 24
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 7
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.300
_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 0
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 1
_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 141.906
_pdbe_chem_comp_rdkit_properties.tpsa 21.060
_pdbe_chem_comp_rdkit_properties.CrippenClogP 3.727
_pdbe_chem_comp_rdkit_properties.CrippenMR 80.773
_pdbe_chem_comp_rdkit_properties.chi0v 14.197
_pdbe_chem_comp_rdkit_properties.chi1v 7.467
_pdbe_chem_comp_rdkit_properties.chi2v 7.054
_pdbe_chem_comp_rdkit_properties.chi3v 7.054
_pdbe_chem_comp_rdkit_properties.chi4v 3.913
_pdbe_chem_comp_rdkit_properties.chi0n 14.853
_pdbe_chem_comp_rdkit_properties.chi1n 7.795
_pdbe_chem_comp_rdkit_properties.chi2n 2.327
_pdbe_chem_comp_rdkit_properties.chi3n 2.327
_pdbe_chem_comp_rdkit_properties.chi4n 1.571
_pdbe_chem_comp_rdkit_properties.hallKierAlpha 0.410
_pdbe_chem_comp_rdkit_properties.kappa1 6.722
_pdbe_chem_comp_rdkit_properties.kappa2 4.214
_pdbe_chem_comp_rdkit_properties.kappa3 1.652
_pdbe_chem_comp_rdkit_properties.Phi 1.666
#
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
K44 UniChem DrugBank DB04721
K44 UniChem PDBe K44
K44 UniChem ZINC ZINC000012504481
K44 UniChem PubChem 5326978
K44 UniChem Nikkaji J3.021.022K
K44 UniChem 'Probes And Drugs' PD006450
#
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
K44 C1 3.497 -1.016 -0.128 ETKDGv3 1
K44 C2 3.308 -0.215 -1.215 ETKDGv3 2
K44 C3 2.022 0.535 -1.382 ETKDGv3 3
K44 C4 2.418 -1.153 0.902 ETKDGv3 4
K44 N5 0.100 -0.479 1.485 ETKDGv3 5
K44 C6 1.304 -0.443 0.724 ETKDGv3 6
K44 C7 1.103 0.386 -0.426 ETKDGv3 7
K44 N8 -0.185 0.964 -0.301 ETKDGv3 8
K44 C9 -0.689 0.358 0.871 ETKDGv3 9
K44 N10 -2.094 0.254 0.863 ETKDGv3 10
K44 C11 -2.909 -0.410 1.872 ETKDGv3 11
K44 C12 -1.276 1.037 -1.265 ETKDGv3 12
K44 C14 -2.559 0.709 -0.448 ETKDGv3 13
K44 BR10 2.588 -2.318 2.414 ETKDGv3 14
K44 BR11 5.136 -1.992 0.111 ETKDGv3 15
K44 BR12 4.674 -0.028 -2.555 ETKDGv3 16
K44 BR13 1.710 1.694 -2.877 ETKDGv3 17
K44 H111 -2.818 0.131 2.837 ETKDGv3 18
K44 H112 -2.565 -1.458 2.003 ETKDGv3 19
K44 H113 -3.975 -0.417 1.562 ETKDGv3 20
K44 H121 -1.329 2.055 -1.706 ETKDGv3 21
K44 H122 -1.128 0.281 -2.067 ETKDGv3 22
K44 H141 -3.143 -0.094 -0.948 ETKDGv3 23
K44 H142 -3.190 1.616 -0.326 ETKDGv3 24
#