data_B1R
#

_chem_comp.id                                   B1R
_chem_comp.name                                 "[(1,2,3,4,5-eta)-cyclopentadienyl][(1,2,3,4,5-eta)-{5-[(3aS,4S,6aR)-2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl]pentanoyl}cyclopentadienyl]ruthenium"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C20 H16 N2 O2 Ru S"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        biotinylruthenocene
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2012-12-06
_chem_comp.pdbx_modified_date                   2021-03-01
_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                       449.488
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    B1R
_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       4I60
_chem_comp.pdbx_subcomponent_list               ?
_chem_comp.pdbx_processing_site                 PDBJ
#   #
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
B1R  N1   N1   N   0  1  N  N  N  40.550  30.553   9.411  40.550  30.553   9.411  N1   B1R   1  
B1R  S1   S1   S   0  1  N  N  N  41.957  30.529   6.287  41.957  30.529   6.287  S1   B1R   2  
B1R  RU1  RU1  RU  0  0  N  N  N  45.253  24.010   2.165  45.253  24.010   2.165  RU1  B1R   3  
B1R  C2   C2   C   0  1  N  N  S  42.528  29.049   7.025  42.528  29.049   7.025  C2   B1R   4  
B1R  N2   N2   N   0  1  N  N  N  42.453  29.505   9.440  42.453  29.505   9.440  N2   B1R   5  
B1R  C3   C3   C   0  1  N  N  N  41.731  30.459   9.985  41.731  30.459   9.985  C3   B1R   6  
B1R  O3   O3   O   0  1  N  N  N  42.129  31.211  10.862  42.129  31.211  10.862  O3   B1R   7  
B1R  C4   C4   C   0  1  N  N  S  41.762  28.868   8.323  41.762  28.868   8.323  C4   B1R   8  
B1R  C5   C5   C   0  1  N  N  R  40.427  29.666   8.274  40.427  29.666   8.274  C5   B1R   9  
B1R  C6   C6   C   0  1  N  N  N  40.359  30.481   7.016  40.359  30.481   7.016  C6   B1R  10  
B1R  C7   C7   C   0  1  N  N  N  44.054  29.149   7.252  44.054  29.149   7.252  C7   B1R  11  
B1R  C8   C8   C   0  1  N  N  N  44.803  27.927   6.689  44.803  27.927   6.689  C8   B1R  12  
B1R  C9   C9   C   0  1  N  N  N  45.016  28.020   5.169  45.016  28.020   5.169  C9   B1R  13  
B1R  C10  C10  C   0  1  N  N  N  46.347  27.355   4.728  46.347  27.355   4.728  C10  B1R  14  
B1R  C11  C11  C   0  1  N  N  N  46.142  25.860   4.422  46.142  25.860   4.422  C11  B1R  15  
B1R  O12  O12  O   0  1  N  N  N  45.676  25.146   5.271  45.676  25.146   5.271  O12  B1R  16  
B1R  C14  C14  C   0  1  N  N  N  47.249  23.589   1.709  47.249  23.589   1.709  C14  B1R  17  
B1R  C15  C15  C   0  1  N  N  N  46.877  24.672   1.004  46.877  24.672   1.004  C15  B1R  18  
B1R  C16  C16  C   0  1  N  N  N  46.477  25.652   1.714  46.477  25.652   1.714  C16  B1R  19  
B1R  C17  C17  C   0  1  N  N  N  46.779  25.240   3.114  46.779  25.240   3.114  C17  B1R  20  
B1R  C18  C18  C   0  1  N  N  N  47.236  23.958   2.981  47.236  23.958   2.981  C18  B1R  21  
B1R  C19  C19  C   0  1  N  N  N  43.588  23.563   3.293  43.588  23.563   3.293  C19  B1R  22  
B1R  C20  C20  C   0  1  N  N  N  43.882  22.494   2.562  43.882  22.494   2.562  C20  B1R  23  
B1R  C21  C21  C   0  1  N  N  N  43.874  22.740   1.292  43.874  22.740   1.292  C21  B1R  24  
B1R  C22  C22  C   0  1  N  N  N  43.419  24.057   1.197  43.419  24.057   1.197  C22  B1R  25  
B1R  C23  C23  C   0  1  N  N  N  43.226  24.448   2.403  43.226  24.448   2.403  C23  B1R  26  
B1R  H1   H1   H   0  1  N  N  N  39.824  31.165   9.724  39.824  31.165   9.724  H1   B1R  27  
B1R  H2   H2   H   0  1  N  N  N  42.305  28.225   6.331  42.305  28.225   6.331  H2   B1R  28  
B1R  H3   H3   H   0  1  N  N  N  43.367  29.246   9.753  43.367  29.247   9.753  H3   B1R  29  
B1R  H4   H4   H   0  1  N  N  N  41.565  27.803   8.518  41.565  27.803   8.518  H4   B1R  30  
B1R  H5   H5   H   0  1  N  N  N  39.565  28.988   8.363  39.565  28.989   8.363  H5   B1R  31  
B1R  H6   H6   H   0  1  N  N  N  40.031  31.503   7.255  40.030  31.503   7.255  H6   B1R  32  
B1R  H7   H7   H   0  1  N  N  N  39.646  30.021   6.315  39.646  30.021   6.315  H7   B1R  33  
B1R  H8   H8   H   0  1  N  N  N  44.428  30.055   6.754  44.428  30.055   6.754  H8   B1R  34  
B1R  H9   H9   H   0  1  N  N  N  44.248  29.218   8.332  44.248  29.218   8.333  H9   B1R  35  
B1R  H10  H10  H   0  1  N  N  N  45.785  27.857   7.180  45.785  27.857   7.180  H10  B1R  36  
B1R  H11  H11  H   0  1  N  N  N  44.218  27.022   6.909  44.218  27.022   6.909  H11  B1R  37  
B1R  H12  H12  H   0  1  N  N  N  44.181  27.515   4.662  44.181  27.515   4.662  H12  B1R  38  
B1R  H13  H13  H   0  1  N  N  N  45.035  29.080   4.877  45.035  29.080   4.877  H13  B1R  39  
B1R  H14  H14  H   0  1  N  N  N  46.719  27.859   3.824  46.719  27.860   3.824  H14  B1R  40  
B1R  H15  H15  H   0  1  N  N  N  47.086  27.459   5.536  47.086  27.459   5.536  H15  B1R  41  
B1R  H16  H16  H   0  1  N  N  N  43.442  24.663   0.279  43.442  24.663   0.279  H16  B1R  42  
#   #
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
B1R  N1   C3   SING  N  N   1  
B1R  N1   C5   SING  N  N   2  
B1R  S1   C2   SING  N  N   3  
B1R  S1   C6   SING  N  N   4  
B1R  C2   C4   SING  N  N   5  
B1R  C2   C7   SING  N  N   6  
B1R  N2   C3   SING  N  N   7  
B1R  N2   C4   SING  N  N   8  
B1R  C3   O3   DOUB  N  N   9  
B1R  C4   C5   SING  N  N  10  
B1R  C5   C6   SING  N  N  11  
B1R  C7   C8   SING  N  N  12  
B1R  C8   C9   SING  N  N  13  
B1R  C9   C10  SING  N  N  14  
B1R  C10  C11  SING  N  N  15  
B1R  C11  O12  DOUB  N  N  16  
B1R  C11  C17  SING  N  N  17  
B1R  C14  C15  SING  N  N  18  
B1R  C14  C18  DOUB  N  N  19  
B1R  C15  C16  DOUB  N  N  20  
B1R  C16  C17  SING  N  N  21  
B1R  C17  C18  SING  N  N  22  
B1R  C19  C20  SING  N  N  23  
B1R  C19  C23  DOUB  N  N  24  
B1R  C20  C21  DOUB  N  N  25  
B1R  C21  C22  SING  N  N  26  
B1R  C22  C23  SING  N  N  27  
B1R  RU1  C14  SING  N  N  28  
B1R  RU1  C15  SING  N  N  29  
B1R  RU1  C16  SING  N  N  30  
B1R  RU1  C17  SING  N  N  31  
B1R  RU1  C18  SING  N  N  32  
B1R  RU1  C19  SING  N  N  33  
B1R  RU1  C20  SING  N  N  34  
B1R  RU1  C21  SING  N  N  35  
B1R  RU1  C22  SING  N  N  36  
B1R  RU1  C23  SING  N  N  37  
B1R  N1   H1   SING  N  N  38  
B1R  C2   H2   SING  N  N  39  
B1R  N2   H3   SING  N  N  40  
B1R  C4   H4   SING  N  N  41  
B1R  C5   H5   SING  N  N  42  
B1R  C6   H6   SING  N  N  43  
B1R  C6   H7   SING  N  N  44  
B1R  C7   H8   SING  N  N  45  
B1R  C7   H9   SING  N  N  46  
B1R  C8   H10  SING  N  N  47  
B1R  C8   H11  SING  N  N  48  
B1R  C9   H12  SING  N  N  49  
B1R  C9   H13  SING  N  N  50  
B1R  C10  H14  SING  N  N  51  
B1R  C10  H15  SING  N  N  52  
B1R  C22  H16  SING  N  N  53  
#   #
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
B1R  SMILES            ACDLabs               12.01  "O=C1NC2C(SCC2N1)CCCCC(=O)C3%10C%12=C%11C6=C3[Ru]4564789%10C5=C4C9C8=C57"  
B1R  InChI             InChI                 1.03   "InChI=1S/C15H15N2O2S.C5H.Ru/c18-12(10-5-1-2-6-10)7-3-4-8-13-14-11(9-20-13)16-15(19)17-14;1-2-4-5-3-1;/h11,13-14H,3-4,7-9H2,(H2,16,17,19);1H;/t11-,13-,14-;;/m0../s1"  
B1R  InChIKey          InChI                 1.03   AKXPPZSWSDFJHM-SLGHVJFOSA-N  
B1R  SMILES_CANONICAL  CACTVS                3.370  "[Ru]|1|2|3|4|5|6|7|8(|C9C|1=C|2C|3=C|49)|C%10=C|5C|6(C|7=C|8%10)C(=O)CCCC[C@@H]%11SC[C@@H]%12NC(=O)N[C@H]%11%12"  
B1R  SMILES            CACTVS                3.370  "[Ru]|1|2|3|4|5|6|7|8(|C9C|1=C|2C|3=C|49)|C%10=C|5C|6(C|7=C|8%10)C(=O)CCCC[CH]%11SC[CH]%12NC(=O)N[CH]%11%12"  
B1R  SMILES_CANONICAL  "OpenEye OEToolkits"  1.7.6  "C1[C@H]2[C@@H]([C@@H](S1)CCCCC(=O)C34C5=C6[Ru]5378913(C6=C74)C4C8=C9C1=C34)NC(=O)N2"  
B1R  SMILES            "OpenEye OEToolkits"  1.7.6  "C1C2C(C(S1)CCCCC(=O)C34C5=C6[Ru]5378913(C6=C74)C4C8=C9C1=C34)NC(=O)N2"  
#
_pdbx_chem_comp_identifier.comp_id          B1R
_pdbx_chem_comp_identifier.type             "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program          ACDLabs
_pdbx_chem_comp_identifier.program_version  12.01
_pdbx_chem_comp_identifier.identifier       "[(1,2,3,4,5-eta)-cyclopentadienyl][(1,2,3,4,5-eta)-{5-[(3aS,4S,6aR)-2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl]pentanoyl}cyclopentadienyl]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
B1R  "Create component"  2012-12-06  PDBJ  
B1R  "Modify synonyms"   2013-01-07  PDBJ  
B1R  "Initial release"   2013-08-14  RCSB  
B1R  "Modify synonyms"   2021-03-01  PDBE  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     B1R
_pdbx_chem_comp_synonyms.name        biotinylruthenocene
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
##
