data_RMD # _chem_comp.id RMD _chem_comp.name "[(1,2,5,6-eta)-cyclooctane-1,2,5,6-tetrayl]{(1,2,3,4,5-eta)-1-[2-(2,5-dioxopyrrolidin-1-yl)ethyl]cyclopentadienyl}rhodium" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C19 H24 N O2 Rh" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2013-10-18 _chem_comp.pdbx_modified_date 2024-09-27 _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 401.305 _chem_comp.one_letter_code ? _chem_comp.three_letter_code RMD _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 3WJC _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBJ _chem_comp.pdbx_pcm Y # 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 RMD C2A C2A C 0 1 N N N N N N 26.809 -15.988 -22.330 26.809 -15.988 -22.330 C2A RMD 1 RMD C1A C1A C 0 1 N N N N N N 28.311 -15.856 -22.555 28.311 -15.856 -22.555 C1A RMD 2 RMD O1A O1A O 0 1 N N N N N N 28.904 -16.479 -23.411 28.904 -16.479 -23.411 O1A RMD 3 RMD C3A C3A C 0 1 N N N N N N 26.706 -15.168 -21.011 26.706 -15.168 -21.011 C3A RMD 4 RMD C4A C4A C 0 1 N N N N N N 28.063 -14.489 -20.907 28.063 -14.489 -20.907 C4A RMD 5 RMD O2A O2A O 0 1 N N N N N N 28.384 -13.585 -20.179 28.384 -13.585 -20.179 O2A RMD 6 RMD NA NA N 0 1 N N N N N N 28.925 -14.995 -21.784 28.925 -14.995 -21.784 NA RMD 7 RMD C1B C1B C 0 1 N N N N N N 30.364 -14.589 -21.912 30.364 -14.589 -21.912 C1B RMD 8 RMD C2B C2B C 0 1 N N N N N N 30.713 -14.693 -23.413 30.713 -14.693 -23.413 C2B RMD 9 RMD C3B C3B C 0 1 N N N N N N 31.778 -15.776 -23.598 31.778 -15.776 -23.598 C3B RMD 10 RMD C7B C7B C 0 1 N N N N N N 31.667 -17.062 -23.240 31.667 -17.062 -23.240 C7B RMD 11 RMD C6B C6B C 0 1 N N N N N N 32.845 -17.713 -23.450 32.845 -17.713 -23.450 C6B RMD 12 RMD C5B C5B C 0 1 N N N N N N 33.707 -16.721 -24.069 33.707 -16.721 -24.069 C5B RMD 13 RMD C4B C4B C 0 1 N N N N N N 33.000 -15.578 -24.128 33.000 -15.578 -24.128 C4B RMD 14 RMD RH RH RH 0 0 N N N N N N 32.014 -17.103 -25.407 32.014 -17.103 -25.407 RH RMD 15 RMD C8C C8C C 0 1 N N N N N N 31.697 -18.729 -26.549 31.697 -18.729 -26.549 C8C RMD 16 RMD C7C C7C C 0 1 N N N N N N 33.204 -18.917 -26.817 33.204 -18.917 -26.817 C7C RMD 17 RMD C6C C6C C 0 1 N N N N N N 34.069 -17.713 -27.098 34.069 -17.713 -27.098 C6C RMD 18 RMD C1C C1C C 0 1 N N N N N N 30.894 -17.660 -26.853 30.894 -17.660 -26.853 C1C RMD 19 RMD C2C C2C C 0 1 N N N N N N 30.709 -16.752 -28.076 30.709 -16.752 -28.076 C2C RMD 20 RMD C3C C3C C 0 1 N N N N N N 31.435 -15.433 -27.763 31.435 -15.433 -27.763 C3C RMD 21 RMD C4C C4C C 0 1 N N N N N N 32.490 -15.621 -26.607 32.490 -15.621 -26.607 C4C RMD 22 RMD C5C C5C C 0 1 N N N N N N 33.676 -16.328 -26.472 33.676 -16.328 -26.472 C5C RMD 23 RMD H1 H1 H 0 1 N N N N N N 26.226 -15.537 -23.146 26.226 -15.537 -23.146 H1 RMD 24 RMD H2 H2 H 0 1 N N N N N N 26.500 -17.035 -22.193 26.500 -17.035 -22.194 H2 RMD 25 RMD H3 H3 H 0 1 N N N N N N 25.898 -14.424 -21.073 25.898 -14.424 -21.073 H3 RMD 26 RMD H4 H4 H 0 1 N N N N N N 26.530 -15.829 -20.150 26.530 -15.829 -20.150 H4 RMD 27 RMD H5 H5 H 0 1 N N N N N N 30.501 -13.556 -21.560 30.501 -13.556 -21.560 H5 RMD 28 RMD H6 H6 H 0 1 N N N N N N 31.004 -15.264 -21.325 31.004 -15.264 -21.325 H6 RMD 29 RMD H7 H7 H 0 1 N N N N N N 29.812 -14.959 -23.984 29.812 -14.960 -23.985 H7 RMD 30 RMD H8 H8 H 0 1 N N N N N N 31.101 -13.728 -23.770 31.101 -13.728 -23.770 H8 RMD 31 RMD H9 H9 H 0 1 N N N N N N 30.720 -17.565 -22.995 30.720 -17.565 -22.995 H9 RMD 32 RMD H10 H10 H 0 1 N N N N N N 33.047 -18.793 -23.397 33.047 -18.793 -23.397 H10 RMD 33 RMD H11 H11 H 0 1 N N N N N N 34.672 -16.943 -24.548 34.672 -16.943 -24.548 H11 RMD 34 RMD H12 H12 H 0 1 N N N N N N 33.281 -14.703 -24.733 33.281 -14.703 -24.733 H12 RMD 35 RMD H13 H13 H 0 1 N N N N N N 31.261 -19.511 -25.910 31.261 -19.511 -25.910 H13 RMD 36 RMD H14 H14 H 0 1 N N N N N N 33.626 -19.413 -25.931 33.626 -19.413 -25.931 H14 RMD 37 RMD H15 H15 H 0 1 N N N N N N 33.293 -19.584 -27.688 33.292 -19.584 -27.688 H15 RMD 38 RMD H16 H16 H 0 1 N N N N N N 35.081 -17.953 -26.739 35.081 -17.953 -26.739 H16 RMD 39 RMD H17 H17 H 0 1 N N N N N N 34.089 -17.579 -28.190 34.089 -17.579 -28.190 H17 RMD 40 RMD H18 H18 H 0 1 N N N N N N 29.906 -17.794 -26.388 29.906 -17.794 -26.388 H18 RMD 41 RMD H19 H19 H 0 1 N N N N N N 31.148 -17.224 -28.968 31.148 -17.223 -28.968 H19 RMD 42 RMD H20 H20 H 0 1 N N N N N N 29.639 -16.564 -28.250 29.639 -16.564 -28.250 H20 RMD 43 RMD H21 H21 H 0 1 N N N N N N 31.954 -15.086 -28.669 31.954 -15.086 -28.669 H21 RMD 44 RMD H22 H22 H 0 1 N N N N N N 30.694 -14.681 -27.454 30.694 -14.681 -27.454 H22 RMD 45 RMD H23 H23 H 0 1 N N N N N N 32.481 -14.725 -25.969 32.481 -14.725 -25.969 H23 RMD 46 RMD H24 H24 H 0 1 N N N N N N 34.397 -15.958 -25.729 34.397 -15.958 -25.729 H24 RMD 47 # 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 RMD C2A C1A SING N N 1 RMD C2A C3A SING N N 2 RMD C1A O1A DOUB N N 3 RMD C1A NA SING N N 4 RMD C3A C4A SING N N 5 RMD C4A O2A DOUB N N 6 RMD C4A NA SING N N 7 RMD NA C1B SING N N 8 RMD C1B C2B SING N N 9 RMD C2B C3B SING N N 10 RMD C3B C7B SING N N 11 RMD C3B C4B SING N N 12 RMD C3B RH SING N N 13 RMD C7B C6B SING N N 14 RMD C7B RH SING N N 15 RMD C6B C5B SING N N 16 RMD C6B RH SING N N 17 RMD C5B C4B SING N N 18 RMD C5B RH SING N N 19 RMD C4B RH SING N N 20 RMD RH C8C SING N N 21 RMD RH C1C SING N N 22 RMD RH C4C SING N N 23 RMD RH C5C SING N N 24 RMD C8C C7C SING N N 25 RMD C8C C1C SING N N 26 RMD C7C C6C SING N N 27 RMD C6C C5C SING N N 28 RMD C1C C2C SING N N 29 RMD C2C C3C SING N N 30 RMD C3C C4C SING N N 31 RMD C4C C5C SING N N 32 RMD C2A H1 SING N N 33 RMD C2A H2 SING N N 34 RMD C3A H3 SING N N 35 RMD C3A H4 SING N N 36 RMD C1B H5 SING N N 37 RMD C1B H6 SING N N 38 RMD C2B H7 SING N N 39 RMD C2B H8 SING N N 40 RMD C7B H9 SING N N 41 RMD C6B H10 SING N N 42 RMD C5B H11 SING N N 43 RMD C4B H12 SING N N 44 RMD C8C H13 SING N N 45 RMD C7C H14 SING N N 46 RMD C7C H15 SING N N 47 RMD C6C H16 SING N N 48 RMD C6C H17 SING N N 49 RMD C1C H18 SING N N 50 RMD C2C H19 SING N N 51 RMD C2C H20 SING N N 52 RMD C3C H21 SING N N 53 RMD C3C H22 SING N N 54 RMD C4C H23 SING N N 55 RMD C5C H24 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 RMD SMILES ACDLabs 12.01 "O=C1N(C(=O)CC1)CCC2%10C7C8C9C2[Rh]789%10456C3CCC6C5CCC34" RMD InChI InChI 1.03 "InChI=1S/C11H12NO2.C8H12.Rh/c13-10-5-6-11(14)12(10)8-7-9-3-1-2-4-9;1-2-4-6-8-7-5-3-1;/h1-4H,5-8H2;1-2,7-8H,3-6H2;" RMD InChIKey InChI 1.03 SZAWNSHHLUVDRC-UHFFFAOYSA-N RMD SMILES_CANONICAL CACTVS 3.385 "[Rh]|1|2|3|4|5|6|7(|C8C|1C|2C|3(C|48)CCN9C(=O)CCC9=O)|C%10C|5CCC|6C|7CC%10" RMD SMILES CACTVS 3.385 "[Rh]|1|2|3|4|5|6|7(|C8C|1C|2C|3(C|48)CCN9C(=O)CCC9=O)|C%10C|5CCC|6C|7CC%10" RMD SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "C1CC2C3[Rh]245678(C1C4CC3)C9C5C6C7(C89)CCN1C(=O)CCC1=O" RMD SMILES "OpenEye OEToolkits" 1.7.6 "C1CC2C3[Rh]245678(C1C4CC3)C9C5C6C7(C89)CCN1C(=O)CCC1=O" # _pdbx_chem_comp_identifier.comp_id RMD _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 "[(1,2,5,6-eta)-cyclooctane-1,2,5,6-tetrayl]{(1,2,3,4,5-eta)-1-[2-(2,5-dioxopyrrolidin-1-yl)ethyl]cyclopentadienyl}rhodium" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site RMD "Create component" 2013-10-18 PDBJ RMD "Initial release" 2014-04-09 RCSB RMD "Modify PCM" 2024-09-27 PDBE # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id RMD _pdbx_chem_comp_pcm.modified_residue_id CYS _pdbx_chem_comp_pcm.type None _pdbx_chem_comp_pcm.category "Covalent chemical modification" _pdbx_chem_comp_pcm.position "Amino-acid side chain" _pdbx_chem_comp_pcm.polypeptide_position "Any position" _pdbx_chem_comp_pcm.comp_id_linking_atom C2A _pdbx_chem_comp_pcm.modified_residue_id_linking_atom SG _pdbx_chem_comp_pcm.uniprot_specific_ptm_accession ? _pdbx_chem_comp_pcm.uniprot_generic_ptm_accession ? #