data_RMB # _chem_comp.id RMB _chem_comp.name "N1-(5'-PHOSPHO-ALPHA-RIBOSYL)-5-METHYLBENZIMIDAZOLE" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C13 H17 N2 O7 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "MONO-[3,4-DIHYDROXY-5-(5-METHYL-BENZOIMIDAZOL-1-YL)-TETRAHYDOR-FURAN-2-YLMETHYL] ESTER" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2001-07-09 _chem_comp.pdbx_modified_date 2020-06-17 _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 344.257 _chem_comp.one_letter_code ? _chem_comp.three_letter_code RMB _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details ? _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 1JHO _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 RMB N3 N3 N 0 1 Y N N 56.318 41.456 14.008 -1.090 1.802 2.831 N3 RMB 1 RMB N1 N1 N 0 1 Y N N 56.684 40.813 11.866 -0.140 0.140 1.784 N1 RMB 2 RMB C2 C2 C 0 1 Y N N 55.909 40.711 12.975 -0.660 1.392 1.673 C2 RMB 3 RMB C7A C7A C 0 1 Y N N 57.724 41.669 12.277 -0.263 -0.240 3.105 C7A RMB 4 RMB C3A C3A C 0 1 Y N N 57.471 42.088 13.582 -0.875 0.839 3.764 C3A RMB 5 RMB C4 C4 C 0 1 Y N N 58.297 43.013 14.218 -1.140 0.748 5.133 C4 RMB 6 RMB C5 C5 C 0 1 Y N N 59.406 43.501 13.540 -0.793 -0.380 5.820 C5 RMB 7 RMB C6 C6 C 0 1 Y N N 59.677 43.075 12.212 -0.189 -1.446 5.170 C6 RMB 8 RMB C7 C7 C 0 1 Y N N 58.847 42.155 11.582 0.077 -1.381 3.818 C7 RMB 9 RMB C8 C8 C 0 1 N N N 60.320 44.509 14.233 -1.076 -0.471 7.297 C8 RMB 10 RMB P P P 0 1 N N N 59.491 39.320 6.074 -0.943 -0.163 -4.799 P RMB 11 RMB O1P O1P O 0 1 N N N 59.236 37.990 5.443 -0.932 -1.642 -4.848 O1P RMB 12 RMB O2P O2P O 0 1 N N N 59.659 40.533 5.214 -2.364 0.380 -5.327 O2P RMB 13 RMB O3P O3P O 0 1 N N N 60.508 39.192 7.152 0.233 0.413 -5.733 O3P RMB 14 RMB "O5'" O5* O 0 1 N N N 58.178 39.561 6.977 -0.712 0.324 -3.282 "O5'" RMB 15 RMB "C5'" C5* C 0 1 N N N 57.757 38.588 7.946 0.557 -0.186 -2.872 "C5'" RMB 16 RMB "C4'" C4* C 0 1 N N R 58.176 39.043 9.331 0.839 0.243 -1.431 "C4'" RMB 17 RMB "O4'" O4* O 0 1 N N N 57.584 40.343 9.656 -0.157 -0.291 -0.547 "O4'" RMB 18 RMB "C3'" C3* C 0 1 N N S 57.729 38.128 10.445 2.180 -0.357 -0.941 "C3'" RMB 19 RMB "O3'" O3* O 0 1 N N N 58.499 38.300 11.640 3.281 0.481 -1.295 "O3'" RMB 20 RMB "C2'" C2* C 0 1 N N R 56.300 38.675 10.602 1.955 -0.370 0.596 "C2'" RMB 21 RMB "O2'" O2* O 0 1 N N N 55.827 38.288 11.908 2.276 0.899 1.167 "O2'" RMB 22 RMB "C1'" C1* C 0 1 N N S 56.482 40.187 10.532 0.442 -0.656 0.701 "C1'" RMB 23 RMB H21 1H2 H 0 1 N N N 55.013 40.070 13.032 -0.708 1.963 0.758 H21 RMB 24 RMB H41 1H4 H 0 1 N N N 58.076 43.354 15.243 -1.615 1.570 5.648 H41 RMB 25 RMB H61 1H6 H 0 1 N N N 60.548 43.465 11.659 0.075 -2.333 5.726 H61 RMB 26 RMB H71 1H7 H 0 1 N N N 59.073 41.819 10.556 0.548 -2.213 3.317 H71 RMB 27 RMB H81 1H8 H 0 1 N N N 61.210 44.900 13.688 -0.220 -0.092 7.855 H81 RMB 28 RMB H82 2H8 H 0 1 N N N 59.703 45.371 14.578 -1.958 0.123 7.535 H82 RMB 29 RMB H83 3H8 H 0 1 N N N 60.656 44.077 15.204 -1.255 -1.511 7.569 H83 RMB 30 RMB HOP2 2HOP H 0 0 N N N 59.821 41.378 5.615 -2.462 0.066 -6.236 HOP2 RMB 31 RMB HOP3 3HOP H 0 0 N N N 60.670 40.037 7.553 0.190 1.377 -5.673 HOP3 RMB 32 RMB "H5'1" 1H5* H 0 0 N N N 56.664 38.376 7.884 1.335 0.205 -3.528 "H5'1" RMB 33 RMB "H5'2" 2H5* H 0 0 N N N 58.130 37.565 7.706 0.546 -1.274 -2.931 "H5'2" RMB 34 RMB "H4'" H4* H 0 1 N N N 59.289 39.064 9.277 0.864 1.331 -1.360 "H4'" RMB 35 RMB "H3'" H3* H 0 1 N N N 57.825 37.035 10.244 2.321 -1.368 -1.325 "H3'" RMB 36 RMB "HO3'" *HO3 H 0 0 N N N 58.217 37.724 12.341 4.080 0.050 -0.962 "HO3'" RMB 37 RMB "H2'" H2* H 0 1 N N N 55.575 38.305 9.839 2.536 -1.163 1.067 "H2'" RMB 38 RMB "HO2'" *HO2 H 0 0 N N N 54.944 38.625 12.005 3.213 1.057 0.988 "HO2'" RMB 39 RMB "H1'" H1* H 0 1 N N N 55.572 40.714 10.160 0.278 -1.717 0.894 "H1'" RMB 40 # # 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 RMB N3 C2 DOUB Y N 1 RMB N3 C3A SING Y N 2 RMB N1 C2 SING Y N 3 RMB N1 C7A SING Y N 4 RMB N1 "C1'" SING N N 5 RMB C2 H21 SING N N 6 RMB C7A C3A DOUB Y N 7 RMB C7A C7 SING Y N 8 RMB C3A C4 SING Y N 9 RMB C4 C5 DOUB Y N 10 RMB C4 H41 SING N N 11 RMB C5 C6 SING Y N 12 RMB C5 C8 SING N N 13 RMB C6 C7 DOUB Y N 14 RMB C6 H61 SING N N 15 RMB C7 H71 SING N N 16 RMB C8 H81 SING N N 17 RMB C8 H82 SING N N 18 RMB C8 H83 SING N N 19 RMB P O1P DOUB N N 20 RMB P O2P SING N N 21 RMB P O3P SING N N 22 RMB P "O5'" SING N N 23 RMB O2P HOP2 SING N N 24 RMB O3P HOP3 SING N N 25 RMB "O5'" "C5'" SING N N 26 RMB "C5'" "C4'" SING N N 27 RMB "C5'" "H5'1" SING N N 28 RMB "C5'" "H5'2" SING N N 29 RMB "C4'" "O4'" SING N N 30 RMB "C4'" "C3'" SING N N 31 RMB "C4'" "H4'" SING N N 32 RMB "O4'" "C1'" SING N N 33 RMB "C3'" "O3'" SING N N 34 RMB "C3'" "C2'" SING N N 35 RMB "C3'" "H3'" SING N N 36 RMB "O3'" "HO3'" SING N N 37 RMB "C2'" "O2'" SING N N 38 RMB "C2'" "C1'" SING N N 39 RMB "C2'" "H2'" SING N N 40 RMB "O2'" "HO2'" SING N N 41 RMB "C1'" "H1'" SING N N 42 # # 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 RMB SMILES ACDLabs 10.04 "O=P(O)(O)OCC3OC(n2cnc1cc(ccc12)C)C(O)C3O" RMB SMILES_CANONICAL CACTVS 3.341 "Cc1ccc2n(cnc2c1)[C@H]3O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@H]3O" RMB SMILES CACTVS 3.341 "Cc1ccc2n(cnc2c1)[CH]3O[CH](CO[P](O)(O)=O)[CH](O)[CH]3O" RMB SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "Cc1ccc2c(c1)ncn2[C@@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O)O)O)O" RMB SMILES "OpenEye OEToolkits" 1.5.0 "Cc1ccc2c(c1)ncn2C3C(C(C(O3)COP(=O)(O)O)O)O" RMB InChI InChI 1.03 "InChI=1S/C13H17N2O7P/c1-7-2-3-9-8(4-7)14-6-15(9)13-12(17)11(16)10(22-13)5-21-23(18,19)20/h2-4,6,10-13,16-17H,5H2,1H3,(H2,18,19,20)/t10-,11-,12-,13+/m1/s1" RMB InChIKey InChI 1.03 HGUDFQQPANTQEU-LPWJVIDDSA-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 RMB "SYSTEMATIC NAME" ACDLabs 10.04 "5-methyl-1-(5-O-phosphono-alpha-D-ribofuranosyl)-1H-benzimidazole" RMB "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3S,4R,5S)-3,4-dihydroxy-5-(5-methylbenzimidazol-1-yl)oxolan-2-yl]methyl dihydrogen phosphate" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site RMB "Create component" 2001-07-09 RCSB RMB "Modify descriptor" 2011-06-04 RCSB RMB "Modify synonyms" 2020-06-05 PDBE # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id RMB _pdbx_chem_comp_synonyms.name "MONO-[3,4-DIHYDROXY-5-(5-METHYL-BENZOIMIDAZOL-1-YL)-TETRAHYDOR-FURAN-2-YLMETHYL] ESTER" _pdbx_chem_comp_synonyms.provenance ? _pdbx_chem_comp_synonyms.type ? ##