data_YH0
#
_chem_comp.id YH0
_chem_comp.name "2-(4-{[2-(1H-benzimidazol-2-yl)ethyl]carbamoyl}phenyl)-1H-benzimidazole-7-carboxamide"
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C24 H20 N6 O2"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2023-02-02
_chem_comp.pdbx_modified_date 2024-02-02
_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 424.455
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code YH0
_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 8G0H
_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
YH0 N1 N1 N 0 1 Y N N N N N 13.581 5.757 124.490 -5.085 0.463 0.043 N1 YH0 1
YH0 C7 C1 C 0 1 Y N N N N N 13.869 4.994 128.142 -8.591 -0.882 -0.081 C7 YH0 2
YH0 C8 C2 C 0 1 Y N N N N N 12.202 6.800 122.713 -2.620 -0.100 -0.007 C8 YH0 3
YH0 N2 N2 N 0 1 Y N N N N N 11.553 6.479 125.098 -4.545 -1.652 -0.152 N2 YH0 4
YH0 C9 C3 C 0 1 Y N N N N N 10.967 6.623 122.097 -1.661 -1.111 -0.100 C9 YH0 5
YH0 O1 O1 O 0 1 N N N N N N 12.225 8.141 117.846 1.863 2.040 0.186 O1 YH0 6
YH0 C1 C4 C 0 1 Y N N N N N 14.300 5.037 126.814 -7.616 0.110 0.013 C1 YH0 7
YH0 C5 C5 C 0 1 Y N N N N N 11.727 5.955 127.566 -6.897 -2.575 -0.248 C5 YH0 8
YH0 C6 C6 C 0 1 Y N N N N N 12.606 5.443 128.510 -8.225 -2.210 -0.209 C6 YH0 9
YH0 N3 N3 N 0 1 N N N N N N 10.461 9.255 118.674 2.441 -0.096 -0.006 N3 YH0 10
YH0 C4 C7 C 0 1 Y N N N N N 12.159 6.007 126.247 -5.898 -1.599 -0.154 C4 YH0 11
YH0 C3 C8 C 0 1 Y N N N N N 12.445 6.317 124.084 -4.059 -0.441 -0.040 C3 YH0 12
YH0 C2 C9 C 0 1 Y N N N N N 13.419 5.561 125.857 -6.260 -0.247 -0.024 C2 YH0 13
YH0 N4 N4 N 0 1 Y N N N N N 9.736 10.156 114.221 7.070 -1.212 0.803 N4 YH0 14
YH0 N N5 N 0 1 N N N N N N 16.161 4.783 125.286 -9.311 1.865 0.183 N YH0 15
YH0 C C10 C 0 1 N N N N N N 15.681 4.554 126.503 -8.007 1.526 0.149 C YH0 16
YH0 O O2 O 0 1 N N N N N N 16.332 3.962 127.372 -7.153 2.388 0.230 O YH0 17
YH0 C10 C11 C 0 1 Y N N N N N 10.731 7.126 120.830 -0.322 -0.794 -0.069 C10 YH0 18
YH0 C11 C12 C 0 1 Y N N N N N 11.725 7.817 120.143 0.078 0.539 0.055 C11 YH0 19
YH0 C12 C13 C 0 1 Y N N N N N 12.964 7.982 120.755 -0.882 1.550 0.147 C12 YH0 20
YH0 C13 C14 C 0 1 Y N N N N N 13.199 7.479 122.021 -2.221 1.232 0.122 C13 YH0 21
YH0 C14 C15 C 0 1 N N N N N N 11.490 8.412 118.791 1.516 0.880 0.083 C14 YH0 22
YH0 C15 C16 C 0 1 N N N N N N 10.108 9.904 117.418 3.866 0.242 0.022 C15 YH0 23
YH0 C16 C17 C 0 1 N N N N N N 9.596 8.923 116.390 4.696 -1.038 -0.094 C16 YH0 24
YH0 C17 C18 C 0 1 Y N N N N N 9.029 9.612 115.194 6.163 -0.690 -0.066 C17 YH0 25
YH0 C18 C19 C 0 1 Y N N N N N 8.788 10.643 113.318 8.293 -0.641 0.511 C18 YH0 26
YH0 C19 C20 C 0 1 Y N N N N N 7.509 10.367 113.796 8.065 0.236 -0.563 C19 YH0 27
YH0 C20 C21 C 0 1 Y N N N N N 6.370 10.715 113.084 9.131 0.970 -1.089 C20 YH0 28
YH0 C21 C22 C 0 1 Y N N N N N 6.535 11.353 111.863 10.382 0.831 -0.557 C21 YH0 29
YH0 C22 C23 C 0 1 Y N N N N N 7.805 11.637 111.374 10.607 -0.034 0.503 C22 YH0 30
YH0 C23 C24 C 0 1 Y N N N N N 8.940 11.291 112.095 9.569 -0.766 1.042 C23 YH0 31
YH0 N5 N6 N 0 1 Y N N N N N 7.694 9.711 114.998 6.744 0.153 -0.868 N5 YH0 32
YH0 H1 H1 H 0 1 N N N N N N 14.379 5.527 123.933 -4.999 1.424 0.135 H1 YH0 33
YH0 H2 H2 H 0 1 N N N N N N 14.532 4.603 128.900 -9.636 -0.612 -0.051 H2 YH0 34
YH0 H4 H4 H 0 1 N N N N N N 10.184 6.087 122.613 -1.970 -2.141 -0.196 H4 YH0 35
YH0 H5 H5 H 0 1 N N N N N N 10.743 6.300 127.847 -6.627 -3.615 -0.347 H5 YH0 36
YH0 H6 H6 H 0 1 N N N N N N 12.304 5.393 129.546 -8.990 -2.970 -0.279 H6 YH0 37
YH0 H7 H7 H 0 1 N N N N N N 9.908 9.450 119.484 2.164 -1.022 -0.088 H7 YH0 38
YH0 H8 H8 H 0 1 N N N N N N 10.732 10.208 114.147 6.891 -1.861 1.501 H8 YH0 39
YH0 H9 H9 H 0 1 N N N N N N 17.081 4.473 125.045 -9.993 1.177 0.118 H9 YH0 40
YH0 H10 H10 H 0 1 N N N N N N 15.603 5.265 124.611 -9.569 2.796 0.273 H10 YH0 41
YH0 H11 H11 H 0 1 N N N N N N 9.765 6.981 120.369 0.420 -1.576 -0.140 H11 YH0 42
YH0 H12 H12 H 0 1 N N N N N N 13.751 8.509 120.235 -0.573 2.580 0.243 H12 YH0 43
YH0 H13 H13 H 0 1 N N N N N N 14.168 7.615 122.478 -2.963 2.013 0.193 H13 YH0 44
YH0 H14 H14 H 0 1 N N N N N N 11.001 10.405 117.015 4.099 0.903 -0.813 H14 YH0 45
YH0 H15 H15 H 0 1 N N N N N N 9.325 10.652 117.614 4.103 0.744 0.960 H15 YH0 46
YH0 H16 H16 H 0 1 N N N N N N 8.811 8.305 116.849 4.464 -1.699 0.741 H16 YH0 47
YH0 H17 H17 H 0 1 N N N N N N 10.428 8.279 116.068 4.460 -1.540 -1.032 H17 YH0 48
YH0 H18 H18 H 0 1 N N N N N N 5.385 10.496 113.469 8.966 1.647 -1.915 H18 YH0 49
YH0 H19 H19 H 0 1 N N N N N N 5.666 11.632 111.285 11.203 1.401 -0.966 H19 YH0 50
YH0 H20 H20 H 0 1 N N N N N N 7.910 12.133 110.421 11.602 -0.133 0.912 H20 YH0 51
YH0 H21 H21 H 0 1 N N N N N N 9.924 11.521 111.714 9.751 -1.438 1.867 H21 YH0 52
#
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
YH0 C22 C21 DOUB Y N 1
YH0 C22 C23 SING Y N 2
YH0 C21 C20 SING Y N 3
YH0 C23 C18 DOUB Y N 4
YH0 C20 C19 DOUB Y N 5
YH0 C18 C19 SING Y N 6
YH0 C18 N4 SING Y N 7
YH0 C19 N5 SING Y N 8
YH0 N4 C17 SING Y N 9
YH0 N5 C17 DOUB Y N 10
YH0 C17 C16 SING N N 11
YH0 C16 C15 SING N N 12
YH0 C15 N3 SING N N 13
YH0 O1 C14 DOUB N N 14
YH0 N3 C14 SING N N 15
YH0 C14 C11 SING N N 16
YH0 C11 C12 DOUB Y N 17
YH0 C11 C10 SING Y N 18
YH0 C12 C13 SING Y N 19
YH0 C10 C9 DOUB Y N 20
YH0 C13 C8 DOUB Y N 21
YH0 C9 C8 SING Y N 22
YH0 C8 C3 SING N N 23
YH0 C3 N1 SING Y N 24
YH0 C3 N2 DOUB Y N 25
YH0 N1 C2 SING Y N 26
YH0 N2 C4 SING Y N 27
YH0 N C SING N N 28
YH0 C2 C4 DOUB Y N 29
YH0 C2 C1 SING Y N 30
YH0 C4 C5 SING Y N 31
YH0 C C1 SING N N 32
YH0 C O DOUB N N 33
YH0 C1 C7 DOUB Y N 34
YH0 C5 C6 DOUB Y N 35
YH0 C7 C6 SING Y N 36
YH0 N1 H1 SING N N 37
YH0 C7 H2 SING N N 38
YH0 C9 H4 SING N N 39
YH0 C5 H5 SING N N 40
YH0 C6 H6 SING N N 41
YH0 N3 H7 SING N N 42
YH0 N4 H8 SING N N 43
YH0 N H9 SING N N 44
YH0 N H10 SING N N 45
YH0 C10 H11 SING N N 46
YH0 C12 H12 SING N N 47
YH0 C13 H13 SING N N 48
YH0 C15 H14 SING N N 49
YH0 C15 H15 SING N N 50
YH0 C16 H16 SING N N 51
YH0 C16 H17 SING N N 52
YH0 C20 H18 SING N N 53
YH0 C21 H19 SING N N 54
YH0 C22 H20 SING N N 55
YH0 C23 H21 SING N N 56
#
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
YH0 SMILES ACDLabs 12.01 "NC(=O)c1cccc2nc([NH]c12)c1ccc(cc1)C(=O)NCCc1nc2ccccc2[NH]1"
YH0 InChI InChI 1.06 "InChI=1S/C24H20N6O2/c25-22(31)16-4-3-7-19-21(16)30-23(29-19)14-8-10-15(11-9-14)24(32)26-13-12-20-27-17-5-1-2-6-18(17)28-20/h1-11H,12-13H2,(H2,25,31)(H,26,32)(H,27,28)(H,29,30)"
YH0 InChIKey InChI 1.06 HKMBTWRJKUMZJX-UHFFFAOYSA-N
YH0 SMILES_CANONICAL CACTVS 3.385 "NC(=O)c1cccc2nc([nH]c12)c3ccc(cc3)C(=O)NCCc4[nH]c5ccccc5n4"
YH0 SMILES CACTVS 3.385 "NC(=O)c1cccc2nc([nH]c12)c3ccc(cc3)C(=O)NCCc4[nH]c5ccccc5n4"
YH0 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1ccc2c(c1)[nH]c(n2)CCNC(=O)c3ccc(cc3)c4[nH]c5c(cccc5n4)C(=O)N"
YH0 SMILES "OpenEye OEToolkits" 2.0.7 "c1ccc2c(c1)[nH]c(n2)CCNC(=O)c3ccc(cc3)c4[nH]c5c(cccc5n4)C(=O)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
YH0 "SYSTEMATIC NAME" ACDLabs 12.01 "2-(4-{[2-(1H-benzimidazol-2-yl)ethyl]carbamoyl}phenyl)-1H-benzimidazole-7-carboxamide"
YH0 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "2-[4-[2-(1~{H}-benzimidazol-2-yl)ethylcarbamoyl]phenyl]-3~{H}-benzimidazole-4-carboxamide"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
YH0 "Create component" 2023-02-02 RCSB
YH0 "Initial release" 2024-02-07 RCSB
#