data_34X
#
_chem_comp.id 34X
_chem_comp.name 1-(2-AMINO-4-PHENYLIMIDAZOL-1-YL)-3-(2-FLUOROPHENYL)UREA
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C16 H14 F N5 O"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2013-05-18
_chem_comp.pdbx_modified_date 2014-09-05
_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 311.314
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 34X
_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 4BO8
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site EBI
#
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
34X FAP FAP F 0 1 N N N N N N -3.436 0.965 -36.193 5.342 -1.141 -0.840 FAP 34X 1
34X CAO CAO C 0 1 Y N N N N N -4.521 1.056 -35.833 4.928 0.043 -0.340 CAO 34X 2
34X CAN CAN C 0 1 Y N N N N N -5.146 2.299 -35.913 5.794 1.120 -0.302 CAN 34X 3
34X CAM CAM C 0 1 Y N N N N N -6.439 2.436 -35.470 5.370 2.333 0.210 CAM 34X 4
34X CAA CAA C 0 1 Y N N N N N -7.092 1.324 -34.962 4.079 2.472 0.684 CAA 34X 5
34X CAB CAB C 0 1 Y N N N N N -6.451 0.102 -34.896 3.207 1.401 0.649 CAB 34X 6
34X CAC CAC C 0 1 Y N N N N N -5.136 -0.090 -35.351 3.627 0.184 0.131 CAC 34X 7
34X NAD NAD N 0 1 N N N N N N -4.315 -1.207 -35.326 2.744 -0.903 0.088 NAD 34X 8
34X CAE CAE C 0 1 N N N N N N -4.708 -2.435 -34.912 1.413 -0.690 0.062 CAE 34X 9
34X OAQ OAQ O 0 1 N N N N N N -3.940 -3.399 -34.852 0.981 0.443 -0.029 OAQ 34X 10
34X NAF NAF N 0 1 N N N N N N -6.011 -2.539 -34.750 0.562 -1.732 0.136 NAF 34X 11
34X NAG NAG N 0 1 Y N N N N N -6.605 -3.318 -34.230 -0.821 -1.510 0.108 NAG 34X 12
34X CAH CAH C 0 1 Y N N N N N -7.794 -2.815 -33.998 -1.448 -0.292 0.009 CAH 34X 13
34X CAR CAR C 0 1 Y N N N N N -6.562 -4.507 -33.621 -1.791 -2.462 0.168 CAR 34X 14
34X NAW NAW N 0 1 N N N N N N -5.505 -5.313 -33.622 -1.577 -3.826 0.268 NAW 34X 15
34X NAS NAS N 0 1 Y N N N N N -7.768 -4.766 -33.065 -2.962 -1.875 0.116 NAS 34X 16
34X CAI CAI C 0 1 Y N N N N N -8.489 -3.663 -33.306 -2.782 -0.534 0.018 CAI 34X 17
34X CAJ CAJ C 0 1 Y N N N N N -9.739 -3.330 -33.050 -3.855 0.487 -0.069 CAJ 34X 18
34X CAK CAK C 0 1 Y N N N N N -10.153 -2.031 -33.369 -5.193 0.098 -0.049 CAK 34X 19
34X CAL CAL C 0 1 Y N N N N N -11.456 -1.674 -33.157 -6.187 1.052 -0.130 CAL 34X 20
34X CAV CAV C 0 1 Y N N N N N -12.332 -2.591 -32.633 -5.857 2.392 -0.230 CAV 34X 21
34X CAU CAU C 0 1 Y N N N N N -11.924 -3.868 -32.326 -4.531 2.783 -0.251 CAU 34X 22
34X CAT CAT C 0 1 Y N N N N N -10.621 -4.258 -32.544 -3.528 1.839 -0.164 CAT 34X 23
34X HAN HAN H 0 1 N N N N N N -4.618 3.148 -36.320 6.804 1.014 -0.672 HAN 34X 24
34X HAM HAM H 0 1 N N N N N N -6.938 3.393 -35.517 6.048 3.172 0.239 HAM 34X 25
34X HAA HAA H 0 1 N N N N N N -8.111 1.414 -34.615 3.751 3.421 1.084 HAA 34X 26
34X HAB HAB H 0 1 N N N N N N -6.983 -0.740 -34.478 2.199 1.511 1.021 HAB 34X 27
34X HAD HAD H 0 1 N N N N N N -3.370 -1.099 -35.634 3.090 -1.809 0.078 HAD 34X 28
34X HAF HAF H 0 1 N N N N N N -6.548 -1.801 -35.159 0.907 -2.636 0.208 HAF 34X 29
34X HAH HAH H 0 1 N N N N N N -8.139 -1.847 -34.331 -0.969 0.674 -0.061 HAH 34X 30
34X HAW1 HAW1 H 0 0 N N N N N N -5.731 -6.160 -33.142 -0.673 -4.174 0.301 HAW1 34X 31
34X HAW2 HAW2 H 0 0 N N N N N N -5.247 -5.523 -34.565 -2.332 -4.434 0.305 HAW2 34X 32
34X HAK HAK H 0 1 N N N N N N -9.451 -1.319 -33.778 -5.452 -0.947 0.030 HAK 34X 33
34X HAT HAT H 0 1 N N N N N N -10.300 -5.265 -32.324 -2.493 2.146 -0.176 HAT 34X 34
34X HAL HAL H 0 1 N N N N N N -11.793 -0.677 -33.400 -7.225 0.752 -0.115 HAL 34X 35
34X HAV HAV H 0 1 N N N N N N -13.359 -2.305 -32.459 -6.638 3.135 -0.294 HAV 34X 36
34X HAU HAU H 0 1 N N N N N N -12.631 -4.571 -31.911 -4.279 3.830 -0.331 HAU 34X 37
#
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
34X FAP CAO SING N N 1
34X CAO CAN SING Y N 2
34X CAO CAC DOUB Y N 3
34X CAN CAM DOUB Y N 4
34X CAM CAA SING Y N 5
34X CAA CAB DOUB Y N 6
34X CAB CAC SING Y N 7
34X CAC NAD SING N N 8
34X NAD CAE SING N N 9
34X CAE OAQ DOUB N N 10
34X CAE NAF SING N N 11
34X NAF NAG SING N N 12
34X NAG CAH SING Y N 13
34X NAG CAR SING Y N 14
34X CAH CAI DOUB Y N 15
34X CAR NAW SING N N 16
34X CAR NAS DOUB Y N 17
34X NAS CAI SING Y N 18
34X CAI CAJ SING N N 19
34X CAJ CAK SING Y N 20
34X CAJ CAT DOUB Y N 21
34X CAK CAL DOUB Y N 22
34X CAL CAV SING Y N 23
34X CAV CAU DOUB Y N 24
34X CAU CAT SING Y N 25
34X CAN HAN SING N N 26
34X CAM HAM SING N N 27
34X CAA HAA SING N N 28
34X CAB HAB SING N N 29
34X NAD HAD SING N N 30
34X NAF HAF SING N N 31
34X CAH HAH SING N N 32
34X NAW HAW1 SING N N 33
34X NAW HAW2 SING N N 34
34X CAK HAK SING N N 35
34X CAT HAT SING N N 36
34X CAL HAL SING N N 37
34X CAV HAV SING N N 38
34X CAU HAU SING N N 39
#
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
34X SMILES ACDLabs 12.01 O=C(Nn1cc(nc1N)c2ccccc2)Nc3ccccc3F
34X InChI InChI 1.03 InChI=1S/C16H14FN5O/c17-12-8-4-5-9-13(12)20-16(23)21-22-10-14(19-15(22)18)11-6-2-1-3-7-11/h1-10H,(H2,18,19)(H2,20,21,23)
34X InChIKey InChI 1.03 FMZIYXRGFBYERG-UHFFFAOYSA-N
34X SMILES_CANONICAL CACTVS 3.385 Nc1nc(cn1NC(=O)Nc2ccccc2F)c3ccccc3
34X SMILES CACTVS 3.385 Nc1nc(cn1NC(=O)Nc2ccccc2F)c3ccccc3
34X SMILES_CANONICAL "OpenEye OEToolkits" 1.9.2 c1ccc(cc1)c2cn(c(n2)N)NC(=O)Nc3ccccc3F
34X SMILES "OpenEye OEToolkits" 1.9.2 c1ccc(cc1)c2cn(c(n2)N)NC(=O)Nc3ccccc3F
#
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
34X "SYSTEMATIC NAME" ACDLabs 12.01 1-(2-amino-4-phenyl-1H-imidazol-1-yl)-3-(2-fluorophenyl)urea
34X "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.9.2 1-(2-azanyl-4-phenyl-imidazol-1-yl)-3-(2-fluorophenyl)urea
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
34X 'Create component' 2013-05-18 EBI
34X 'Initial release' 2013-09-18 RCSB
34X 'Modify descriptor' 2014-09-05 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
34X FAP F 3.000 -2.453 1
34X CAO C 4.299 -3.203 2
34X CAN C 4.299 -4.702 3
34X CAM C 5.598 -5.452 4
34X CAA C 6.897 -4.702 5
34X CAB C 6.897 -3.203 6
34X CAC C 5.598 -2.453 7
34X NAD N 5.598 -0.953 8
34X CAE C 6.897 -0.203 9
34X OAQ O 8.196 -0.953 10
34X NAF N 6.897 1.297 11
34X NAG N 8.196 2.047 12
34X CAH C 9.566 1.437 13
34X CAR C 8.353 3.539 14
34X NAW N 7.238 4.543 15
34X NAS N 9.820 3.851 16
34X CAI C 10.570 2.552 17
34X CAJ C 12.062 2.395 18
34X CAK C 12.672 1.025 19
34X CAL C 14.164 0.868 20
34X CAV C 15.046 2.082 21
34X CAU C 14.435 3.452 22
34X CAT C 12.944 3.609 23
#
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
34X FAP CAO SINGLE NONE 1
34X CAO CAN DOUBLE NONE 2
34X CAO CAC SINGLE NONE 3
34X CAN CAM SINGLE NONE 4
34X CAM CAA DOUBLE NONE 5
34X CAA CAB SINGLE NONE 6
34X CAB CAC DOUBLE NONE 7
34X CAC NAD SINGLE NONE 8
34X NAD CAE SINGLE NONE 9
34X CAE OAQ DOUBLE NONE 10
34X CAE NAF SINGLE NONE 11
34X NAF NAG SINGLE NONE 12
34X NAG CAH SINGLE NONE 13
34X NAG CAR SINGLE NONE 14
34X CAH CAI DOUBLE NONE 15
34X CAR NAW SINGLE NONE 16
34X CAR NAS DOUBLE NONE 17
34X NAS CAI SINGLE NONE 18
34X CAI CAJ SINGLE NONE 19
34X CAJ CAK DOUBLE NONE 20
34X CAJ CAT SINGLE NONE 21
34X CAK CAL SINGLE NONE 22
34X CAL CAV DOUBLE NONE 23
34X CAV CAU SINGLE NONE 24
34X CAU CAT DOUBLE NONE 25
#
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
34X MurckoScaffold S1 scaffold O=C(Nc1ccccc1)Nn1cnc(-c2ccccc2)c1 InChI=1S/C16H14N4O/c21-16(18-14-9-5-2-6-10-14)19-20-11-15(17-12-20)13-7-3-1-4-8-13/h1-12H,(H2,18,19,21) FUUQXMKBAWKYDL-UHFFFAOYSA-N
34X imidazole F1 fragment 'c1c[nH]cn1' InChI=1S/C3H4N2/c1-2-5-3-4-1/h1-3H,(H,4,5) RAXXELZNTBOGNW-UHFFFAOYSA-N
34X phenyl F2 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
34X CAO S1 1
34X CAN S1 1
34X CAM S1 1
34X CAA S1 1
34X CAB S1 1
34X CAC S1 1
34X NAD S1 1
34X CAE S1 1
34X OAQ S1 1
34X NAF S1 1
34X NAG S1 1
34X CAH S1 1
34X CAR S1 1
34X NAS S1 1
34X CAI S1 1
34X CAJ S1 1
34X CAK S1 1
34X CAL S1 1
34X CAV S1 1
34X CAU S1 1
34X CAT S1 1
34X CAH F1 1
34X CAI F1 1
34X NAS F1 1
34X CAR F1 1
34X NAG F1 1
34X CAO F2 1
34X CAN F2 1
34X CAM F2 1
34X CAA F2 1
34X CAB F2 1
34X CAC F2 1
34X CAJ F2 2
34X CAK F2 2
34X CAL F2 2
34X CAV F2 2
34X CAU F2 2
34X CAT F2 2
#
_pdbe_chem_comp_rdkit_properties.comp_id 34X
_pdbe_chem_comp_rdkit_properties.exactmw 311.118
_pdbe_chem_comp_rdkit_properties.amw 311.320
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 6
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 4
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 4
_pdbe_chem_comp_rdkit_properties.NumHBD 3
_pdbe_chem_comp_rdkit_properties.NumHBA 4
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 23
_pdbe_chem_comp_rdkit_properties.NumAtoms 37
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 7
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 2
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0
_pdbe_chem_comp_rdkit_properties.NumRings 3
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 3
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 0
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 1
_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 151.188
_pdbe_chem_comp_rdkit_properties.tpsa 84.970
_pdbe_chem_comp_rdkit_properties.CrippenClogP 1.906
_pdbe_chem_comp_rdkit_properties.CrippenMR 83.885
_pdbe_chem_comp_rdkit_properties.chi0v 11.022
_pdbe_chem_comp_rdkit_properties.chi1v 5.882
_pdbe_chem_comp_rdkit_properties.chi2v 2.366
_pdbe_chem_comp_rdkit_properties.chi3v 2.366
_pdbe_chem_comp_rdkit_properties.chi4v 1.444
_pdbe_chem_comp_rdkit_properties.chi0n 25.022
_pdbe_chem_comp_rdkit_properties.chi1n 12.671
_pdbe_chem_comp_rdkit_properties.chi2n 2.366
_pdbe_chem_comp_rdkit_properties.chi3n 2.366
_pdbe_chem_comp_rdkit_properties.chi4n 1.444
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -3.350
_pdbe_chem_comp_rdkit_properties.kappa1 5.378
_pdbe_chem_comp_rdkit_properties.kappa2 6.185
_pdbe_chem_comp_rdkit_properties.kappa3 3.289
_pdbe_chem_comp_rdkit_properties.Phi 1.446
#
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
34X UniChem ChEMBL CHEMBL3989093
34X UniChem PDBe 34X
34X UniChem ZINC ZINC000009338279
34X UniChem PubChem 16393051
34X UniChem eMolecules 11872754
34X UniChem Mcule MCULE-5034949431
#
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
34X FAP 3.974 0.291 -1.564 ETKDGv3 1
34X CAO 4.783 -0.154 -0.571 ETKDGv3 2
34X CAN 6.086 0.154 -0.601 ETKDGv3 3
34X CAM 7.001 -0.382 0.427 ETKDGv3 4
34X CAA 6.532 -1.194 1.380 ETKDGv3 5
34X CAB 5.097 -1.542 1.417 ETKDGv3 6
34X CAC 4.248 -1.029 0.510 ETKDGv3 7
34X NAD 2.856 -1.380 0.564 ETKDGv3 8
34X CAE 1.796 -0.437 0.356 ETKDGv3 9
34X OAQ 2.044 0.798 0.284 ETKDGv3 10
34X NAF 0.447 -0.901 0.247 ETKDGv3 11
34X NAG -0.623 -0.002 0.112 ETKDGv3 12
34X CAH -1.772 -0.255 -0.681 ETKDGv3 13
34X CAR -1.142 0.824 1.153 ETKDGv3 14
34X NAW -0.392 1.243 2.293 ETKDGv3 15
34X NAS -2.395 1.109 1.009 ETKDGv3 16
34X CAI -2.799 0.424 -0.179 ETKDGv3 17
34X CAJ -4.188 0.437 -0.703 ETKDGv3 18
34X CAK -5.161 1.069 -0.017 ETKDGv3 19
34X CAL -6.548 1.090 -0.525 ETKDGv3 20
34X CAV -6.850 0.483 -1.677 ETKDGv3 21
34X CAU -5.796 -0.208 -2.444 ETKDGv3 22
34X CAT -4.537 -0.231 -1.988 ETKDGv3 23
34X HAN 6.479 0.781 -1.392 ETKDGv3 24
34X HAM 8.052 -0.127 0.398 ETKDGv3 25
34X HAA 7.202 -1.596 2.129 ETKDGv3 26
34X HAB 4.733 -2.197 2.199 ETKDGv3 27
34X HAD 2.597 -2.338 0.891 ETKDGv3 28
34X HAF 0.277 -1.920 0.091 ETKDGv3 29
34X HAH -1.785 -0.920 -1.533 ETKDGv3 30
34X HAW1 0.587 0.921 2.445 ETKDGv3 31
34X HAW2 -0.837 1.849 3.018 ETKDGv3 32
34X HAK -4.950 1.569 0.921 ETKDGv3 33
34X HAT -3.783 -0.737 -2.575 ETKDGv3 34
34X HAL -7.320 1.598 0.039 ETKDGv3 35
34X HAV -7.866 0.498 -2.050 ETKDGv3 36
34X HAU -6.044 -0.693 -3.380 ETKDGv3 37
#