data_OG2
#
_chem_comp.id OG2
_chem_comp.name 1-(1-adamantyl)-3-ethyl-guanidine
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C13 H23 N3"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2020-03-03
_chem_comp.pdbx_modified_date 2020-03-06
_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 221.342
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code OG2
_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 6Y7Z
_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
OG2 C1 C1 C 0 1 N N N N N N 16.774 31.900 111.160 -0.452 -0.484 0.042 C1 OG2 1
OG2 N1 N1 N 0 1 N N N N N N 16.149 31.455 109.899 0.936 -0.947 0.096 N1 OG2 2
OG2 C2 C2 C 0 1 N N N N N N 18.214 31.400 111.327 -0.768 0.326 1.302 C2 OG2 3
OG2 N2 N2 N 0 1 N N N N N N 15.178 30.127 108.279 3.269 -0.476 0.010 N2 OG2 4
OG2 C3 C3 C 0 1 N N N N N N 18.791 31.904 112.663 -2.219 0.810 1.246 C3 OG2 5
OG2 C4 C4 C 0 1 N N N N N N 17.938 31.376 113.815 -3.157 -0.396 1.166 C4 OG2 6
OG2 C5 C5 C 0 1 N N N N N N 16.504 31.883 113.660 -2.840 -1.205 -0.094 C5 OG2 7
OG2 C6 C6 C 0 1 N N N N N N 15.925 31.381 112.330 -1.390 -1.690 -0.038 C6 OG2 8
OG2 C7 C7 C 0 1 N N N N N N 16.493 33.409 113.672 -3.036 -0.324 -1.329 C7 OG2 9
OG2 C8 C8 C 0 1 N N N N N N 17.348 33.935 112.523 -2.098 0.883 -1.249 C8 OG2 10
OG2 C9 C9 C 0 1 N N N N N N 16.773 33.435 111.189 -0.648 0.398 -1.193 C9 OG2 11
OG2 C10 C10 C 0 1 N N N N N N 18.781 33.433 112.680 -2.414 1.692 0.011 C10 OG2 12
OG2 N N3 N 0 1 N N N N N N 16.191 29.183 110.117 1.709 1.240 0.072 N OG2 13
OG2 C C11 C 0 1 N N N N N N 15.810 30.231 109.461 1.967 -0.038 0.060 C OG2 14
OG2 C11 C12 C 0 1 N N N N N N 14.667 28.873 107.709 4.367 0.493 -0.028 C11 OG2 15
OG2 C12 C13 C 0 1 N N N N N N 15.754 27.881 107.325 5.703 -0.252 -0.079 C12 OG2 16
OG2 H1 H1 H 0 1 N N N N N N 15.942 32.194 109.258 1.129 -1.896 0.157 H1 OG2 17
OG2 H2 H2 H 0 1 N N N N N N 18.222 30.300 111.318 -0.629 -0.303 2.182 H2 OG2 18
OG2 H3 H3 H 0 1 N N N N N N 18.830 31.778 110.498 -0.100 1.185 1.359 H3 OG2 19
OG2 H4 H4 H 0 1 N N N N N N 15.046 30.965 107.749 3.461 -1.427 0.002 H4 OG2 20
OG2 H5 H5 H 0 1 N N N N N N 19.824 31.542 112.774 -2.444 1.387 2.143 H5 OG2 21
OG2 H6 H6 H 0 1 N N N N N N 17.942 30.276 113.800 -3.017 -1.024 2.045 H6 OG2 22
OG2 H7 H7 H 0 1 N N N N N N 18.351 31.731 114.770 -4.190 -0.051 1.126 H7 OG2 23
OG2 H8 H8 H 0 1 N N N N N N 15.890 31.505 114.491 -3.509 -2.064 -0.151 H8 OG2 24
OG2 H9 H9 H 0 1 N N N N N N 14.893 31.745 112.221 -1.165 -2.266 -0.935 H9 OG2 25
OG2 H10 H10 H 0 1 N N N N N N 15.928 30.281 112.323 -1.250 -2.318 0.842 H10 OG2 26
OG2 H11 H11 H 0 1 N N N N N N 16.901 33.771 114.627 -2.811 -0.900 -2.226 H11 OG2 27
OG2 H12 H12 H 0 1 N N N N N N 15.460 33.769 113.554 -4.069 0.022 -1.369 H12 OG2 28
OG2 H13 H13 H 0 1 N N N N N N 17.341 35.035 112.534 -2.238 1.511 -2.128 H13 OG2 29
OG2 H14 H14 H 0 1 N N N N N N 17.389 33.816 110.361 0.020 1.257 -1.135 H14 OG2 30
OG2 H15 H15 H 0 1 N N N N N N 15.742 33.801 111.077 -0.423 -0.178 -2.090 H15 OG2 31
OG2 H16 H16 H 0 1 N N N N N N 19.395 33.813 111.850 -3.448 2.037 -0.029 H16 OG2 32
OG2 H17 H17 H 0 1 N N N N N N 19.192 33.792 113.635 -1.746 2.551 0.068 H17 OG2 33
OG2 H18 H18 H 0 1 N N N N N N 16.728 29.422 110.926 0.796 1.549 0.178 H18 OG2 34
OG2 H19 H19 H 0 1 N N N N N N 14.085 29.115 106.808 4.267 1.120 -0.914 H19 OG2 35
OG2 H20 H20 H 0 1 N N N N N N 14.011 28.397 108.453 4.333 1.117 0.865 H20 OG2 36
OG2 H21 H21 H 0 1 N N N N N N 15.292 26.974 106.908 5.803 -0.879 0.807 H21 OG2 37
OG2 H22 H22 H 0 1 N N N N N N 16.415 28.335 106.572 5.737 -0.876 -0.972 H22 OG2 38
OG2 H23 H23 H 0 1 N N N N N N 16.341 27.617 108.217 6.520 0.469 -0.108 H23 OG2 39
#
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
OG2 C12 C11 SING N N 1
OG2 C11 N2 SING N N 2
OG2 N2 C SING N N 3
OG2 C N1 SING N N 4
OG2 C N DOUB N N 5
OG2 N1 C1 SING N N 6
OG2 C1 C9 SING N N 7
OG2 C1 C2 SING N N 8
OG2 C1 C6 SING N N 9
OG2 C9 C8 SING N N 10
OG2 C2 C3 SING N N 11
OG2 C6 C5 SING N N 12
OG2 C8 C10 SING N N 13
OG2 C8 C7 SING N N 14
OG2 C3 C10 SING N N 15
OG2 C3 C4 SING N N 16
OG2 C5 C7 SING N N 17
OG2 C5 C4 SING N N 18
OG2 N1 H1 SING N N 19
OG2 C2 H2 SING N N 20
OG2 C2 H3 SING N N 21
OG2 N2 H4 SING N N 22
OG2 C3 H5 SING N N 23
OG2 C4 H6 SING N N 24
OG2 C4 H7 SING N N 25
OG2 C5 H8 SING N N 26
OG2 C6 H9 SING N N 27
OG2 C6 H10 SING N N 28
OG2 C7 H11 SING N N 29
OG2 C7 H12 SING N N 30
OG2 C8 H13 SING N N 31
OG2 C9 H14 SING N N 32
OG2 C9 H15 SING N N 33
OG2 C10 H16 SING N N 34
OG2 C10 H17 SING N N 35
OG2 N H18 SING N N 36
OG2 C11 H19 SING N N 37
OG2 C11 H20 SING N N 38
OG2 C12 H21 SING N N 39
OG2 C12 H22 SING N N 40
OG2 C12 H23 SING N N 41
#
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
OG2 InChI InChI 1.03 InChI=1S/C13H23N3/c1-2-15-12(14)16-13-6-9-3-10(7-13)5-11(4-9)8-13/h9-11H,2-8H2,1H3,(H3,14,15,16)/t9-,10+,11-,13-
OG2 InChIKey InChI 1.03 VGBFQSVFIIHEDN-DNSLJTBWSA-N
OG2 SMILES_CANONICAL CACTVS 3.385 CCNC(=N)NC12CC3CC(CC(C3)C1)C2
OG2 SMILES CACTVS 3.385 CCNC(=N)NC12CC3CC(CC(C3)C1)C2
OG2 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "[H]/N=C(\NCC)/NC12CC3CC(C1)CC(C3)C2"
OG2 SMILES "OpenEye OEToolkits" 2.0.7 CCNC(=N)NC12CC3CC(C1)CC(C3)C2
#
_pdbx_chem_comp_identifier.comp_id OG2
_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 1-(1-adamantyl)-3-ethyl-guanidine
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
OG2 'Create component' 2020-03-03 PDBE
OG2 'Initial release' 2020-03-11 RCSB
#
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
OG2 C1 C 5.510 1.770 1
OG2 N1 N 5.510 3.218 2
OG2 C2 C 4.255 1.046 3
OG2 N2 N 8.108 3.218 4
OG2 C3 C 4.255 -0.402 5
OG2 C4 C 3.000 -1.127 6
OG2 C5 C 4.473 -1.055 7
OG2 C6 C 4.473 0.513 8
OG2 C7 C 5.831 -1.770 9
OG2 C8 C 6.764 -0.402 10
OG2 C9 C 6.764 1.046 11
OG2 C10 C 5.510 -0.857 12
OG2 N N 6.809 5.468 13
OG2 C C 6.809 3.968 14
OG2 C11 C 9.407 3.968 15
OG2 C12 C 10.706 3.218 16
OG2 H18 H 5.510 6.218 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
OG2 C12 C11 SINGLE NONE 1
OG2 C11 N2 SINGLE NONE 2
OG2 N2 C SINGLE ENDUPRIGHT 3
OG2 C N1 SINGLE ENDUPRIGHT 4
OG2 C N DOUBLE NONE 5
OG2 C1 N1 SINGLE BEGINWEDGE 6
OG2 C1 C9 SINGLE NONE 7
OG2 C1 C2 SINGLE NONE 8
OG2 C1 C6 SINGLE NONE 9
OG2 C9 C8 SINGLE NONE 10
OG2 C2 C3 SINGLE NONE 11
OG2 C6 C5 SINGLE NONE 12
OG2 C8 C10 SINGLE NONE 13
OG2 C8 C7 SINGLE NONE 14
OG2 C3 C10 SINGLE NONE 15
OG2 C3 C4 SINGLE NONE 16
OG2 C5 C7 SINGLE NONE 17
OG2 C5 C4 SINGLE NONE 18
#
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
OG2 MurckoScaffold S1 scaffold C1C2CC3CC1CC(C2)C3 InChI=1S/C10H16/c1-7-2-9-4-8(1)5-10(3-7)6-9/h7-10H,1-6H2 ORILYTVJVMAKLC-UHFFFAOYSA-N
OG2 cyclohexane F1 fragment C1CCCCC1 InChI=1S/C6H12/c1-2-4-6-5-3-1/h1-6H2 XDTMQSROBMDMFD-UHFFFAOYSA-N
OG2 Z2856434901 F2 fragment CNCCC1CCCCC1 InChI=1S/C9H19N/c1-10-8-7-9-5-3-2-4-6-9/h9-10H,2-8H2,1H3 KCYFTGSOYOWCJF-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
OG2 C1 S1 1
OG2 C2 S1 1
OG2 C3 S1 1
OG2 C4 S1 1
OG2 C5 S1 1
OG2 C6 S1 1
OG2 C7 S1 1
OG2 C8 S1 1
OG2 C9 S1 1
OG2 C10 S1 1
OG2 C1 F1 1
OG2 C9 F1 1
OG2 C8 F1 1
OG2 C10 F1 1
OG2 C3 F1 1
OG2 C2 F1 1
OG2 C1 F1 2
OG2 C9 F1 2
OG2 C8 F1 2
OG2 C7 F1 2
OG2 C5 F1 2
OG2 C6 F1 2
OG2 C1 F1 3
OG2 C2 F1 3
OG2 C3 F1 3
OG2 C4 F1 3
OG2 C5 F1 3
OG2 C6 F1 3
OG2 C3 F1 4
OG2 C10 F1 4
OG2 C8 F1 4
OG2 C7 F1 4
OG2 C5 F1 4
OG2 C4 F1 4
OG2 C F2 1
OG2 N1 F2 1
OG2 C1 F2 1
OG2 C9 F2 1
OG2 C8 F2 1
OG2 C10 F2 1
OG2 C3 F2 1
OG2 C4 F2 1
OG2 C5 F2 1
OG2 C7 F2 1
OG2 C F2 2
OG2 N1 F2 2
OG2 C1 F2 2
OG2 C2 F2 2
OG2 C3 F2 2
OG2 C10 F2 2
OG2 C8 F2 2
OG2 C7 F2 2
OG2 C5 F2 2
OG2 C4 F2 2
OG2 C F2 3
OG2 N1 F2 3
OG2 C1 F2 3
OG2 C6 F2 3
OG2 C5 F2 3
OG2 C7 F2 3
OG2 C8 F2 3
OG2 C10 F2 3
OG2 C3 F2 3
OG2 C4 F2 3
#
_pdbe_chem_comp_rdkit_properties.comp_id OG2
_pdbe_chem_comp_rdkit_properties.exactmw 221.189
_pdbe_chem_comp_rdkit_properties.amw 221.348
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 3
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 3
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 3
_pdbe_chem_comp_rdkit_properties.NumHBD 3
_pdbe_chem_comp_rdkit_properties.NumHBA 1
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 16
_pdbe_chem_comp_rdkit_properties.NumAtoms 39
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 3
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.923
_pdbe_chem_comp_rdkit_properties.NumRings 4
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 4
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 4
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 0
_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 4
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 130.375
_pdbe_chem_comp_rdkit_properties.tpsa 47.910
_pdbe_chem_comp_rdkit_properties.CrippenClogP 2.089
_pdbe_chem_comp_rdkit_properties.CrippenMR 65.442
_pdbe_chem_comp_rdkit_properties.chi0v 7.842
_pdbe_chem_comp_rdkit_properties.chi1v 4.368
_pdbe_chem_comp_rdkit_properties.chi2v 2.091
_pdbe_chem_comp_rdkit_properties.chi3v 2.091
_pdbe_chem_comp_rdkit_properties.chi4v 1.602
_pdbe_chem_comp_rdkit_properties.chi0n 30.842
_pdbe_chem_comp_rdkit_properties.chi1n 15.710
_pdbe_chem_comp_rdkit_properties.chi2n 2.091
_pdbe_chem_comp_rdkit_properties.chi3n 2.091
_pdbe_chem_comp_rdkit_properties.chi4n 1.602
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.730
_pdbe_chem_comp_rdkit_properties.kappa1 1.917
_pdbe_chem_comp_rdkit_properties.kappa2 3.641
_pdbe_chem_comp_rdkit_properties.kappa3 1.701
_pdbe_chem_comp_rdkit_properties.Phi 0.436
#
_pdbe_chem_comp_external_mappings.comp_id OG2
_pdbe_chem_comp_external_mappings.source UniChem
_pdbe_chem_comp_external_mappings.resource PDBe
_pdbe_chem_comp_external_mappings.resource_id OG2
#
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
OG2 C1 -0.348 0.594 -0.615 ETKDGv3 1
OG2 N1 0.797 1.177 -1.336 ETKDGv3 2
OG2 C2 -0.412 -0.944 -0.819 ETKDGv3 3
OG2 N2 2.752 -0.346 -1.140 ETKDGv3 4
OG2 C3 -1.633 -1.528 -0.074 ETKDGv3 5
OG2 C4 -2.928 -0.893 -0.622 ETKDGv3 6
OG2 C5 -2.884 0.635 -0.406 ETKDGv3 7
OG2 C6 -1.666 1.220 -1.153 ETKDGv3 8
OG2 C7 -2.757 0.942 1.101 ETKDGv3 9
OG2 C8 -1.461 0.308 1.651 ETKDGv3 10
OG2 C9 -0.242 0.898 0.906 ETKDGv3 11
OG2 C10 -1.507 -1.221 1.435 ETKDGv3 12
OG2 N 2.872 1.928 -0.498 ETKDGv3 13
OG2 C 2.160 0.946 -0.954 ETKDGv3 14
OG2 C11 3.978 -0.761 -0.463 ETKDGv3 15
OG2 C12 3.720 -0.973 1.025 ETKDGv3 16
OG2 H1 0.627 1.978 -1.987 ETKDGv3 17
OG2 H2 0.501 -1.430 -0.416 ETKDGv3 18
OG2 H3 -0.476 -1.186 -1.903 ETKDGv3 19
OG2 H4 2.307 -1.010 -1.813 ETKDGv3 20
OG2 H5 -1.668 -2.629 -0.226 ETKDGv3 21
OG2 H6 -3.812 -1.324 -0.103 ETKDGv3 22
OG2 H7 -3.035 -1.121 -1.705 ETKDGv3 23
OG2 H8 -3.817 1.092 -0.801 ETKDGv3 24
OG2 H9 -1.766 1.021 -2.243 ETKDGv3 25
OG2 H10 -1.647 2.325 -1.020 ETKDGv3 26
OG2 H11 -2.741 2.042 1.265 ETKDGv3 27
OG2 H12 -3.638 0.539 1.647 ETKDGv3 28
OG2 H13 -1.373 0.527 2.737 ETKDGv3 29
OG2 H14 0.690 0.457 1.325 ETKDGv3 30
OG2 H15 -0.192 1.996 1.073 ETKDGv3 31
OG2 H16 -2.370 -1.656 1.985 ETKDGv3 32
OG2 H17 -0.584 -1.690 1.843 ETKDGv3 33
OG2 H18 2.467 2.883 -0.376 ETKDGv3 34
OG2 H19 4.773 0.002 -0.609 ETKDGv3 35
OG2 H20 4.335 -1.717 -0.903 ETKDGv3 36
OG2 H21 4.646 -1.340 1.516 ETKDGv3 37
OG2 H22 3.417 -0.019 1.506 ETKDGv3 38
OG2 H23 2.914 -1.724 1.169 ETKDGv3 39
#