data_E3D
#

_chem_comp.id                                   E3D
_chem_comp.name                                 "dichloro(1,3-dimethyl-1H-benzimidazol-3-ium-2-yl)ruthenium"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C9 H10 Cl2 N2 Ru"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        "dichlorido(1,3-dimethylbenzimidazol-2-ylidene)ruthenium(II)"
_chem_comp.pdbx_formal_charge                   1
_chem_comp.pdbx_initial_date                    2017-11-29
_chem_comp.pdbx_modified_date                   2021-03-13
_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                       318.165
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    E3D
_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       6BO1
_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
E3D  C1   C1   C   0  1  Y  N  N   9.228   -8.114   -6.613   0.436   0.000  -0.001  C1   E3D   1  
E3D  C2   C2   C   0  1  N  N  N   7.080   -6.996   -5.797   0.703  -2.468   0.004  C2   E3D   2  
E3D  C3   C3   C   0  1  N  N  N  11.204   -8.573   -8.136   0.703   2.468   0.001  C3   E3D   3  
E3D  C4   C4   C   0  1  Y  N  N   9.382   -6.920   -8.561   2.502   0.703  -0.001  C4   E3D   4  
E3D  C5   C5   C   0  1  Y  N  N   8.251   -6.502   -7.904   2.502  -0.703   0.001  C5   E3D   5  
E3D  C6   C6   C   0  1  Y  N  N   7.420   -5.517   -8.441   3.713  -1.393   0.002  C6   E3D   6  
E3D  C7   C7   C   0  1  Y  N  N   7.786   -4.992   -9.648   4.898  -0.694  -0.000  C7   E3D   7  
E3D  C8   C8   C   0  1  Y  N  N   8.891   -5.381  -10.331   4.898   0.694  -0.002  C8   E3D   8  
E3D  C9   C9   C   0  1  Y  N  N   9.743   -6.386   -9.812   3.713   1.393  -0.003  C9   E3D   9  
E3D  N1   N1   N   0  1  Y  N  N   9.978   -7.915   -7.737   1.191   1.086  -0.000  N1   E3D  10  
E3D  N2   N2   N   1  1  Y  N  N   8.180   -7.233   -6.720   1.191  -1.086   0.003  N2   E3D  11  
E3D  CL1  CL1  CL  0  0  N  N  N  10.286  -11.100   -6.585  -2.654   1.905   0.002  CL1  E3D  12  
E3D  CL2  CL2  CL  0  0  N  N  N   7.302  -10.321   -5.062  -2.654  -1.905  -0.002  CL2  E3D  13  
E3D  RU1  RU1  RU  0  0  N  N  N   9.566   -9.393   -5.033  -1.554  -0.000  -0.001  RU1  E3D  14  
E3D  H1   H1   H   0  1  N  N  N   7.185   -7.657   -4.924   0.583  -2.809   1.033  H1   E3D  15  
E3D  H2   H2   H   0  1  N  N  N   7.098   -5.947   -5.467  -0.258  -2.514  -0.508  H2   E3D  16  
E3D  H3   H3   H   0  1  N  N  N   6.126   -7.205   -6.303   1.421  -3.107  -0.510  H3   E3D  17  
E3D  H4   H4   H   0  1  N  N  N  11.496   -9.303   -7.367   0.582   2.811  -1.026  H4   E3D  18  
E3D  H5   H5   H   0  1  N  N  N  11.047   -9.092   -9.093  -0.257   2.513   0.515  H5   E3D  19  
E3D  H6   H6   H   0  1  N  N  N  12.001   -7.824   -8.252   1.421   3.106   0.515  H6   E3D  20  
E3D  H7   H7   H   0  1  N  N  N   6.530   -5.186   -7.927   3.720  -2.473   0.003  H7   E3D  21  
E3D  H8   H8   H   0  1  N  N  N   7.161   -4.225  -10.082   5.836  -1.230   0.000  H8   E3D  22  
E3D  H9   H9   H   0  1  N  N  N   9.123   -4.920  -11.280   5.836   1.230  -0.003  H9   E3D  23  
E3D  H10  H10  H   0  1  N  N  N  10.619   -6.723  -10.346   3.720   2.473  -0.004  H10  E3D  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
E3D  C8   C9   DOUB  Y  N   1  
E3D  C8   C7   SING  Y  N   2  
E3D  C9   C4   SING  Y  N   3  
E3D  C7   C6   DOUB  Y  N   4  
E3D  C4   C5   DOUB  Y  N   5  
E3D  C4   N1   SING  Y  N   6  
E3D  C6   C5   SING  Y  N   7  
E3D  C3   N1   SING  N  N   8  
E3D  C5   N2   SING  Y  N   9  
E3D  N1   C1   SING  Y  N  10  
E3D  N2   C1   DOUB  Y  N  11  
E3D  N2   C2   SING  N  N  12  
E3D  C1   RU1  SING  N  N  13  
E3D  CL1  RU1  SING  N  N  14  
E3D  CL2  RU1  SING  N  N  15  
E3D  C2   H1   SING  N  N  16  
E3D  C2   H2   SING  N  N  17  
E3D  C2   H3   SING  N  N  18  
E3D  C3   H4   SING  N  N  19  
E3D  C3   H5   SING  N  N  20  
E3D  C3   H6   SING  N  N  21  
E3D  C6   H7   SING  N  N  22  
E3D  C7   H8   SING  N  N  23  
E3D  C8   H9   SING  N  N  24  
E3D  C9   H10  SING  N  N  25  
#   #
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
E3D  SMILES            ACDLabs               12.01  "c1([Ru](Cl)Cl)n(C)c2c([n+]1C)cccc2"  
E3D  InChI             InChI                 1.03   "InChI=1S/C9H10N2.2ClH.Ru/c1-10-7-11(2)9-6-4-3-5-8(9)10;;;/h3-6H,1-2H3;2*1H;/q+1;;;+2/p-2"  
E3D  InChIKey          InChI                 1.03   AATWLMBEQHDZRT-UHFFFAOYSA-L  
E3D  SMILES_CANONICAL  CACTVS                3.385  "Cn1c2ccccc2[n+](C)c1[Ru](Cl)Cl"  
E3D  SMILES            CACTVS                3.385  "Cn1c2ccccc2[n+](C)c1[Ru](Cl)Cl"  
E3D  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.6  "Cn1c2ccccc2[n+](c1[Ru](Cl)Cl)C"  
E3D  SMILES            "OpenEye OEToolkits"  2.0.6  "Cn1c2ccccc2[n+](c1[Ru](Cl)Cl)C"  
#   #
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
E3D  "SYSTEMATIC NAME"  ACDLabs               12.01  "dichloro(1,3-dimethyl-1H-benzimidazol-3-ium-2-yl)ruthenium"  
E3D  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.6  "bis(chloranyl)-(1,3-dimethylbenzimidazol-3-ium-2-yl)ruthenium"  
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
E3D  "Create component"  2017-11-29  RCSB  
E3D  "Modify synonyms"   2018-03-19  RCSB  
E3D  "Initial release"   2018-05-16  RCSB  
E3D  "Modify synonyms"   2021-03-13  RCSB  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     E3D
_pdbx_chem_comp_synonyms.name        "dichlorido(1,3-dimethylbenzimidazol-2-ylidene)ruthenium(II)"
_pdbx_chem_comp_synonyms.provenance  PDB
_pdbx_chem_comp_synonyms.type        ?
##
