data_D6V
#

_chem_comp.id                                   D6V
_chem_comp.name                                 "2-[(3S)-pyrrolidin-3-yl]-1H-benzimidazole"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C11 H13 N3"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2017-10-20
_chem_comp.pdbx_modified_date                   2020-04-17
_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                       187.241
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    D6V
_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       5QBA
_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.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
D6V  C4   C1   C  0  1  Y  N  N  -2.100   8.982   7.339   1.479   0.639   0.080  C4   D6V   1  
D6V  C5   C2   C  0  1  Y  N  N  -3.098   9.943   7.275   2.576   1.463   0.294  C5   D6V   2  
D6V  C6   C3   C  0  1  Y  N  N  -0.333   7.731   7.720  -0.469  -0.356  -0.217  C6   D6V   3  
D6V  N1   N1   N  0  1  Y  N  N  -1.013   7.050   6.814   0.441  -1.278  -0.338  N1   D6V   4  
D6V  C7   C4   C  0  1  N  N  S   0.986   7.277   8.257  -1.953  -0.585  -0.348  C7   D6V   5  
D6V  C8   C5   C  0  1  N  N  N   2.135   8.305   8.255  -2.619  -0.677   1.050  C8   D6V   6  
D6V  N2   N2   N  0  1  N  N  N   2.392   6.768  10.110  -3.924   0.835  -0.280  N2   D6V   7  
D6V  C9   C6   C  0  1  N  N  N   3.174   7.698   9.237  -4.069  -0.229   0.736  C9   D6V   8  
D6V  C10  C7   C  0  1  N  N  N   0.946   6.875   9.730  -2.641   0.643  -0.981  C10  D6V   9  
D6V  C3   C8   C  0  1  Y  N  N  -2.135   7.829   6.556   1.671  -0.732  -0.162  C3   D6V  10  
D6V  C2   C9   C  0  1  Y  N  N  -3.195   7.623   5.677   2.968  -1.252  -0.178  C2   D6V  11  
D6V  C1   C10  C  0  1  Y  N  N  -4.197   8.580   5.608   4.035  -0.427   0.040  C1   D6V  12  
D6V  N    N3   N  0  1  Y  N  N  -0.929   8.897   8.085   0.115   0.846   0.034  N    D6V  13  
D6V  C    C11  C  0  1  Y  N  N  -4.150   9.725   6.397   3.846   0.928   0.275  C    D6V  14  
D6V  H1   H1   H  0  1  N  N  N  -3.058  10.831   7.888   2.434   2.518   0.475  H1   D6V  15  
D6V  H3   H3   H  0  1  N  N  N   1.315   6.403   7.675  -2.153  -1.483  -0.933  H3   D6V  16  
D6V  H4   H4   H  0  1  N  N  N   2.564   8.412   7.248  -2.599  -1.700   1.426  H4   D6V  17  
D6V  H5   H5   H  0  1  N  N  N   1.785   9.285   8.611  -2.144   0.006   1.755  H5   D6V  18  
D6V  H6   H6   H  0  1  N  N  N   2.709   5.829   9.975  -4.696   0.822  -0.930  H6   D6V  19  
D6V  H8   H8   H  0  1  N  N  N   3.951   7.148   8.685  -4.644  -1.063   0.333  H8   D6V  20  
D6V  H9   H9   H  0  1  N  N  N   3.643   8.489   9.840  -4.547   0.165   1.632  H9   D6V  21  
D6V  H10  H10  H  0  1  N  N  N   0.438   7.643  10.332  -2.013   1.525  -0.854  H10  D6V  22  
D6V  H11  H11  H  0  1  N  N  N   0.434   5.910   9.859  -2.820   0.462  -2.041  H11  D6V  23  
D6V  H12  H12  H  0  1  N  N  N  -3.236   6.736   5.062   3.127  -2.304  -0.363  H12  D6V  24  
D6V  H13  H13  H  0  1  N  N  N  -5.026   8.434   4.932   5.036  -0.832   0.026  H13  D6V  25  
D6V  H14  H14  H  0  1  N  N  N  -0.593   9.560   8.754  -0.343   1.693   0.159  H14  D6V  26  
D6V  H15  H15  H  0  1  N  N  N  -4.943  10.454   6.325   4.700   1.567   0.445  H15  D6V  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
D6V  C1   C2   DOUB  Y  N   1  
D6V  C1   C    SING  Y  N   2  
D6V  C2   C3   SING  Y  N   3  
D6V  C    C5   DOUB  Y  N   4  
D6V  C3   N1   SING  Y  N   5  
D6V  C3   C4   DOUB  Y  N   6  
D6V  N1   C6   DOUB  Y  N   7  
D6V  C5   C4   SING  Y  N   8  
D6V  C4   N    SING  Y  N   9  
D6V  C6   N    SING  Y  N  10  
D6V  C6   C7   SING  N  N  11  
D6V  C8   C7   SING  N  N  12  
D6V  C8   C9   SING  N  N  13  
D6V  C7   C10  SING  N  N  14  
D6V  C9   N2   SING  N  N  15  
D6V  C10  N2   SING  N  N  16  
D6V  C5   H1   SING  N  N  17  
D6V  C7   H3   SING  N  N  18  
D6V  C8   H4   SING  N  N  19  
D6V  C8   H5   SING  N  N  20  
D6V  N2   H6   SING  N  N  21  
D6V  C9   H8   SING  N  N  22  
D6V  C9   H9   SING  N  N  23  
D6V  C10  H10  SING  N  N  24  
D6V  C10  H11  SING  N  N  25  
D6V  C2   H12  SING  N  N  26  
D6V  C1   H13  SING  N  N  27  
D6V  N    H14  SING  N  N  28  
D6V  C    H15  SING  N  N  29  
#   #
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
D6V  SMILES            ACDLabs               12.01  "c32nc(C1CNCC1)nc2cccc3"  
D6V  InChI             InChI                 1.03   "InChI=1S/C11H13N3/c1-2-4-10-9(3-1)13-11(14-10)8-5-6-12-7-8/h1-4,8,12H,5-7H2,(H,13,14)/t8-/m0/s1"  
D6V  InChIKey          InChI                 1.03   OFQGVINTJUCLFL-QMMMGPOBSA-N  
D6V  SMILES_CANONICAL  CACTVS                3.385  "C1C[C@@H](CN1)c2[nH]c3ccccc3n2"  
D6V  SMILES            CACTVS                3.385  "C1C[CH](CN1)c2[nH]c3ccccc3n2"  
D6V  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.6  "c1ccc2c(c1)[nH]c(n2)[C@H]3CCNC3"  
D6V  SMILES            "OpenEye OEToolkits"  2.0.6  "c1ccc2c(c1)[nH]c(n2)C3CCNC3"  
#   #
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
D6V  "SYSTEMATIC NAME"  ACDLabs               12.01  "2-[(3S)-pyrrolidin-3-yl]-1H-benzimidazole"  
D6V  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.6  "2-[(3~{S})-pyrrolidin-3-yl]-1~{H}-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
D6V  "Create component"  2017-10-20  RCSB  
D6V  "Initial release"   2020-04-22  RCSB  
##
