data_bmst000285 ####################### # Entry information # ####################### save_entry_information _Entry.Sf_category entry_information _Entry.Sf_framecode entry_information _Entry.ID bmst000285 _Entry.Title S_adenosyl_L_methionine _Entry.Version_type update _Entry.Submission_date 2007-01-05 _Entry.Accession_date 2007-01-05 _Entry.Last_release_date 2011-09-14 _Entry.Original_release_date 2007-01-05 _Entry.Origination author _Entry.NMR_STAR_version 3.1.1.7 _Entry.Original_NMR_STAR_version 'NMR STAR v3.1' _Entry.Experimental_method NMR _Entry.Experimental_method_subtype theoretical _Entry.Details ? _Entry.BMRB_internal_directory_name S_adenosyl_L_methionine loop_ _Entry_author.Ordinal _Entry_author.Given_name _Entry_author.Family_name _Entry_author.Middle_initials _Entry_author.Family_title _Entry_author.Entry_ID 1 William Westler M. ? bmst000285 2 John Markley L. ? bmst000285 stop_ loop_ _Entry_src.ID _Entry_src.Project_name _Entry_src.Organization_full_name _Entry_src.Organization_initials _Entry_src.Entry_ID 1 metabolics 'Madison Metabolomics Consortium' MMC bmst000285 stop_ loop_ _Data_set.Type _Data_set.Count _Data_set.Entry_ID other_data_list 1 bmst000285 stop_ loop_ _Datum.Type _Datum.Count _Datum.Entry_ID 'theoretical chemical shifts' 1 bmst000285 stop_ loop_ _Release.Release_number _Release.Format_type _Release.Format_version _Release.Date _Release.Submission_date _Release.Type _Release.Author _Release.Detail _Release.Entry_ID 1 . . 2007-01-05 2007-01-05 original BMRB 'Original theoretical calculations from NMRFAM' bmst000285 2 . . 2008-11-18 2008-11-18 update BMRB 'updated the file to match latest NMR STAR dictionary' bmst000285 3 . . 2008-11-25 2008-11-25 update BMRB 'fixed enumerations: N should be no' bmst000285 4 . . 2010-09-16 2010-09-16 update BMRB 'Removed Shielding_tensor_list_ID and Shielding_tensor_list_label from theoretical_chem_shifts' bmst000285 5 . . 2011-09-14 2011-09-14 update BMRB 'Partially brought up to date with latest Dictionary' bmst000285 6 . . 2017-10-12 2017-10-12 update BMRB 'Remediated Experiment_file loop if present and standardized mol and png file tags.' bmst000285 stop_ loop_ _Auxiliary_files.ID _Auxiliary_files.URI _Auxiliary_files.DOI _Auxiliary_files.Path _Auxiliary_files.Format _Auxiliary_files.Details _Auxiliary_files.Entry_ID 1 . . S_adenosyl_L_methionine_3321_opt.pdb x-chemical/x-pdb 'Name of the file containing the atomic coordinates' bmst000285 2 . . S_adenosyl_L_methionine_3321.g03.shifts text/plain 'Name of the file containing theoretical chemical shift data' bmst000285 stop_ save_ ############### # Citations # ############### save_citations _Citation.Sf_category citations _Citation.Sf_framecode citations _Citation.Entry_ID bmst000285 _Citation.ID 1 _Citation.Class 'reference citation' _Citation.PubMed_ID 18940862 _Citation.Title 'Database resources of the National Center for Biotechnology Information.' _Citation.Status published _Citation.Type internet _Citation.WWW_URL http://pubchem.ncbi.nlm.nih.gov/ _Citation.Year 2006 _Citation.Details ? loop_ _Citation_author.Ordinal _Citation_author.Given_name _Citation_author.Family_name _Citation_author.First_initial _Citation_author.Middle_initials _Citation_author.Family_title _Citation_author.Entry_ID _Citation_author.Citation_ID 1 D. Wheeler D. L. ? bmst000285 1 2 T. Barrett T. ? ? bmst000285 1 3 D. Benson D. A. ? bmst000285 1 4 S. Bryant S. H. ? bmst000285 1 5 K. Canese K. ? ? bmst000285 1 6 V. Chetvenin V. ? ? bmst000285 1 7 D. Church D. M. ? bmst000285 1 8 M. DiCuccio M. ? ? bmst000285 1 9 R. Edgar R. ? ? bmst000285 1 10 S. Federhen S. ? ? bmst000285 1 11 L. Geer L. Y. ? bmst000285 1 12 W. Helmberg W. ? ? bmst000285 1 13 Y. Kapustin Y. ? ? bmst000285 1 14 D. Kenton D. L. ? bmst000285 1 15 O. Khovayko O. ? ? bmst000285 1 16 D. Lipman D. J. ? bmst000285 1 17 T. Madden T. L. ? bmst000285 1 18 D. Maglott D. R. ? bmst000285 1 19 J. Ostell J. ? ? bmst000285 1 20 K. Pruitt K. D. ? bmst000285 1 21 G. Schuler G. D. ? bmst000285 1 22 L. Schriml L. M. ? bmst000285 1 23 E. Sequeira E. ? ? bmst000285 1 24 S. Sherry S. T. ? bmst000285 1 25 K. Sirotkin K. ? ? bmst000285 1 26 A. Souvorov A. ? ? bmst000285 1 27 G. Starchenko G. ? ? bmst000285 1 28 T. Suzek T. O. ? bmst000285 1 29 R. Tatusov R. ? ? bmst000285 1 30 T. Tatusova T. A. ? bmst000285 1 31 L. Bagner L. ? ? bmst000285 1 32 E. Yaschenko E. ? ? bmst000285 1 stop_ save_ ############################################# # Molecular system (assembly) description # ############################################# save_assembly _Assembly.Sf_category assembly _Assembly.Sf_framecode assembly _Assembly.Entry_ID bmst000285 _Assembly.ID 1 _Assembly.Name ASSEMBLY_NAME _Assembly.Number_of_components 1 _Assembly.Organic_ligands 0 _Assembly.Metal_ions ? _Assembly.Non_standard_bonds no _Assembly.Paramagnetic no _Assembly.Thiol_state 'not reported' loop_ _Entity_assembly.ID _Entity_assembly.Entity_assembly_name _Entity_assembly.Entity_ID _Entity_assembly.Entity_label _Entity_assembly.Experimental_data_reported _Entity_assembly.Physical_state _Entity_assembly.Conformational_isomer _Entity_assembly.Chemical_exchange_state _Entity_assembly.Magnetic_equivalence_group_code _Entity_assembly.Role _Entity_assembly.Details _Entity_assembly.Entry_ID _Entity_assembly.Assembly_ID 1 ENT_NAME 1 $S_adenosyl_L_methionine yes native no no ? ? ? bmst000285 1 stop_ save_ #################################### # Biological polymers and ligands # #################################### save_S_adenosyl_L_methionine _Entity.Sf_category entity _Entity.Sf_framecode S_adenosyl_L_methionine _Entity.Entry_ID bmst000285 _Entity.ID 1 _Entity.BMRB_code ? _Entity.Name s-(5'-adenosyl)-L-methionine _Entity.Type non-polymer _Entity.Ambiguous_conformational_states no _Entity.Ambiguous_chem_comp_sites no _Entity.Nstd_monomer no _Entity.Nstd_chirality no _Entity.Nstd_linkage no _Entity.Paramagnetic no _Entity.Thiol_state 'not reported' loop_ _Entity_comp_index.ID _Entity_comp_index.Comp_ID _Entity_comp_index.Comp_label _Entity_comp_index.Entry_ID _Entity_comp_index.Entity_ID 1 1 $chem_comp_1 bmst000285 1 stop_ save_ ################################# # Polymer residues and ligands # ################################# save_chem_comp_1 _Chem_comp.Sf_category chem_comp _Chem_comp.Sf_framecode chem_comp_1 _Chem_comp.Entry_ID bmst000285 _Chem_comp.ID 1 _Chem_comp.Provenance PubChem _Chem_comp.Name s-(5'-adenosyl)-L-methionine _Chem_comp.Type non-polymer _Chem_comp.BMRB_code ? _Chem_comp.PDB_code ? _Chem_comp.InChI_code ; InChI=1/C15H22N6O5S/c1-27(3-2-7(16)15(24)25)4-8-10(22)11(23)14(26-8)21-6-20-9-12(17)18-5-19-13(9)21/h5-8,10-11,14,22-23H,2-4,16H2,1H3,(H2-,17,18,19,24,25)/t7-,8+,10+,11+,14+,27?/m0/s1/f/h17H2 ; _Chem_comp.Mon_nstd_flag ? _Chem_comp.Std_deriv_one_letter_code ? _Chem_comp.Std_deriv_three_letter_code ? _Chem_comp.Std_deriv_BMRB_code ? _Chem_comp.Std_deriv_PDB_code ? _Chem_comp.Formal_charge ? _Chem_comp.Paramagnetic no _Chem_comp.Aromatic yes _Chem_comp.Formula 'C15 H22 N6 O5 S' _Chem_comp.Formula_weight 398.4373800000 _Chem_comp.Formula_mono_iso_wt_nat 398.137238538 _Chem_comp.Formula_mono_iso_wt_13C 413.187561105 _Chem_comp.Formula_mono_iso_wt_15N 404.119447897 _Chem_comp.Formula_mono_iso_wt_13C_15N 413.187561105 _Chem_comp.Image_file_name bmst000285.png _Chem_comp.Image_file_format png _Chem_comp.Topo_file_name ? _Chem_comp.Topo_file_format ? _Chem_comp.Struct_file_name bmst000285.mol _Chem_comp.Struct_file_format mol _Chem_comp.Stereochem_param_file_name ? _Chem_comp.Details ? _Chem_comp.DB_query_date ? _Chem_comp.DB_last_query_revised_last_date ? loop_ _Chem_comp_common_name.Name _Chem_comp_common_name.Type _Chem_comp_common_name.Entry_ID _Chem_comp_common_name.Comp_ID AdoMet synonym bmst000285 1 Ademetionine synonym bmst000285 1 Methioninyladenylate synonym bmst000285 1 Donamet synonym bmst000285 1 (3S)-5'-((3-Amino-3-carboxylatopropyl)methylsulphonio)-5'-deoxyadenosine synonym bmst000285 1 'Methionine, S-adenosyl-' synonym bmst000285 1 S-Adenosyl-L-methionine synonym bmst000285 1 'L-Methionine, S-adenosyl-' synonym bmst000285 1 "Adenosine, 5'-((L-3-amino-3-carboxypropyl)methylsulfonio)-5'-deoxy-, hydroxide, inner salt" synonym bmst000285 1 SAMe synonym bmst000285 1 "Adenosine, 5'-(((3S)-3-amino-3-carboxypropyl)methylsulfonio)-5'-deoxy-, inner salt" synonym bmst000285 1 "Adenosine, 5'-((3-amino-3-carboxypropyl)methylsulfonio)-5'-deoxy-, inner salt, (3S)-" synonym bmst000285 1 Acylcarnitine synonym bmst000285 1 L-S-Adenosylmethionine synonym bmst000285 1 S-Adenosylmethionine synonym bmst000285 1 Adenosylmethionine synonym bmst000285 1 'Active methionine' synonym bmst000285 1 stop_ loop_ _Chem_comp_systematic_name.Name _Chem_comp_systematic_name.Naming_system _Chem_comp_systematic_name.Entry_ID _Chem_comp_systematic_name.Comp_ID ; (2S)-2-amino-4-[[(2S,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl-methyl-sulfonio]butanoate ; IUPAC bmst000285 1 ; (2S)-2-amino-4-[[(2S,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-tetrahydrofuran-2-yl]methyl-methyl-sulfonio]butanoate ; IUPAC_TRADITIONAL bmst000285 1 ; (2S)-2-amino-4-[[(2S,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-tetrahydrofuran-2-yl]methyl-methyl-sulfonio]butanoate ; IUPAC_CAS bmst000285 1 ; (2S)-2-amino-4-[[(2S,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-tetrahydrofuran-2-yl]methyl-methyl-sulfonio]butanoate ; IUPAC_OPENEYE bmst000285 1 ; (2S)-2-amino-4-[[(2S,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methyl-methyl-sulfonio]butanoate ; IUPAC_SYSTEMATIC bmst000285 1 stop_ loop_ _Chem_comp_SMILES.Type _Chem_comp_SMILES.String _Chem_comp_SMILES.Entry_ID _Chem_comp_SMILES.Comp_ID Isomeric C[S+](CC[C@@H](C(=O)[O-])N)C[C@@H]1[C@H]([C@H]([C@@H](O1)N2C=NC3=C2N=CN=C3N)O)O bmst000285 1 Canonical C[S+](CCC(C(=O)[O-])N)CC1C(C(C(O1)N2C=NC3=C2N=CN=C3N)O)O bmst000285 1 stop_ loop_ _Chem_comp_atom.Atom_ID _Chem_comp_atom.Type_symbol _Chem_comp_atom.Stereo_config _Chem_comp_atom.Charge _Chem_comp_atom.Oxidation_number _Chem_comp_atom.Unpaired_electron_number _Chem_comp_atom.Drawing_2D_coord_x _Chem_comp_atom.Drawing_2D_coord_y _Chem_comp_atom.Model_Cartn_x _Chem_comp_atom.Model_Cartn_y _Chem_comp_atom.Model_Cartn_z _Chem_comp_atom.PDBX_ordinal _Chem_comp_atom.Entry_ID _Chem_comp_atom.Comp_ID C1 C ? ? ? ? 7.7679 0.7193 0.576 4.436 0.175 1 bmst000285 1 C2 C ? ? ? ? 2.0000 -1.0267 -2.818 -3.623 -3.546 2 bmst000285 1 C3 C ? ? ? ? 5.2619 -1.5267 -1.848 -1.507 0.153 3 bmst000285 1 C4 C ? ? ? ? 9.3880 1.8921 1.519 2.786 2.923 4 bmst000285 1 C5 C ? ? ? ? 8.4752 2.3004 1.826 2.237 1.529 5 bmst000285 1 C6 C ? ? ? ? 6.7523 2.1223 1.143 2.075 -1.287 6 bmst000285 1 C7 C ? ? ? ? 3.7321 -2.0267 -3.144 -2.658 -1.075 7 bmst000285 1 C8 C ? ? ? ? 2.8660 -2.5267 -4.166 -3.426 -1.680 8 bmst000285 1 C9 C ? ? ? ? 3.7321 -1.0267 -1.998 -2.447 -1.843 9 bmst000285 1 C10 C ? ? ? ? 5.9423 1.5359 1.552 0.602 -1.251 10 bmst000285 1 C11 C ? ? ? ? 4.9917 1.8466 1.720 -0.017 -2.656 11 bmst000285 1 C12 C ? ? ? ? 4.4025 1.0386 0.444 -0.868 -2.810 12 bmst000285 1 C13 C ? ? ? ? 4.9889 0.2286 0.203 -1.300 -1.345 13 bmst000285 1 C14 C ? ? ? ? 10.1980 2.4784 2.519 2.196 3.941 14 bmst000285 1 C15 C ? ? ? ? 11.1109 2.0701 2.332 2.920 5.287 15 bmst000285 1 N16 N ? ? ? ? 2.8660 -3.5267 -5.331 -3.697 -1.064 16 bmst000285 1 N17 N ? ? ? ? 10.0952 3.4731 2.430 0.741 3.957 17 bmst000285 1 N18 N ? ? ? ? 2.0000 -2.0267 -3.968 -3.897 -2.929 18 bmst000285 1 N19 N ? ? ? ? 2.8660 -0.5267 -1.778 -2.909 -3.086 19 bmst000285 1 N20 N ? ? ? ? 4.6783 -2.3314 -3.033 -2.059 0.167 20 bmst000285 1 N21 N ? ? ? ? 4.6783 -0.7220 -1.165 -1.679 -1.046 21 bmst000285 1 O22 O ? ? ? ? 4.6844 2.7982 2.859 -0.842 -2.626 22 bmst000285 1 O23 O ? ? ? ? 3.4025 1.0403 0.702 -1.905 -3.703 23 bmst000285 1 O24 O ? ? ? ? 11.9209 2.6565 2.736 2.155 6.319 24 bmst000285 1 O25 O ? ? ? ? 11.2137 1.0754 1.899 4.044 5.404 25 bmst000285 1 O26 O ? ? ? ? 5.9405 0.5359 0.515 -0.131 -0.579 26 bmst000285 1 S27 S ? ? ? ? 7.6651 1.7140 0.472 2.623 0.347 27 bmst000285 1 H28 H ? ? ? ? 7.1512 0.6555 -0.091 4.727 -0.640 28 bmst000285 1 H29 H ? ? ? ? 7.8317 0.1026 1.601 4.747 -0.035 29 bmst000285 1 H30 H ? ? ? ? 8.3846 0.7830 0.219 4.879 1.107 30 bmst000285 1 H31 H ? ? ? ? 1.4631 -0.7167 -2.707 -4.031 -4.548 31 bmst000285 1 H32 H ? ? ? ? 5.8819 -1.5267 -1.406 -0.949 0.965 32 bmst000285 1 H33 H ? ? ? ? 9.0404 1.3787 0.502 2.503 3.226 33 bmst000285 1 H34 H ? ? ? ? 9.8332 1.4606 1.580 3.876 2.963 34 bmst000285 1 H35 H ? ? ? ? 8.8227 2.8138 2.761 2.630 1.116 35 bmst000285 1 H36 H ? ? ? ? 8.0299 2.7318 1.870 1.144 1.567 36 bmst000285 1 H37 H ? ? ? ? 7.0999 2.6357 1.985 2.723 -1.550 37 bmst000285 1 H38 H ? ? ? ? 6.3070 2.5538 0.316 2.245 -1.984 38 bmst000285 1 H39 H ? ? ? ? 6.4942 1.2535 2.498 0.482 -0.711 39 bmst000285 1 H40 H ? ? ? ? 5.4309 2.2842 1.797 0.747 -3.445 40 bmst000285 1 H41 H ? ? ? ? 4.1220 1.5915 -0.402 -0.236 -3.122 41 bmst000285 1 H42 H ? ? ? ? 5.4266 -0.2106 0.890 -2.114 -1.081 42 bmst000285 1 H43 H ? ? ? ? 9.6321 2.7316 3.537 2.454 3.614 43 bmst000285 1 H44 H ? ? ? ? 2.3291 -3.8367 -5.996 -4.304 -1.520 44 bmst000285 1 H45 H ? ? ? ? 3.4030 -3.8367 -5.480 -3.420 -0.105 45 bmst000285 1 H46 H ? ? ? ? 10.5974 3.8367 3.237 0.342 4.430 46 bmst000285 1 H47 H ? ? ? ? 9.5293 3.7263 1.616 0.440 4.493 47 bmst000285 1 H48 H ? ? ? ? 5.1000 3.2582 2.687 -1.558 -3.267 48 bmst000285 1 H49 H ? ? ? ? 3.0935 1.5778 -0.133 -2.444 -3.748 49 bmst000285 1 H50 H ? ? ? ? 12.4869 2.4034 2.626 2.684 7.133 50 bmst000285 1 stop_ loop_ _Atom_nomenclature.Atom_ID _Atom_nomenclature.Atom_name _Atom_nomenclature.Naming_system _Atom_nomenclature.Entry_ID _Atom_nomenclature.Comp_ID C1 C1 ? bmst000285 1 C2 C2 ? bmst000285 1 C3 C3 ? bmst000285 1 C4 C4 ? bmst000285 1 C5 C5 ? bmst000285 1 C6 C6 ? bmst000285 1 C7 C7 ? bmst000285 1 C8 C8 ? bmst000285 1 C9 C9 ? bmst000285 1 C10 C10 ? bmst000285 1 C11 C11 ? bmst000285 1 C12 C12 ? bmst000285 1 C13 C13 ? bmst000285 1 C14 C14 ? bmst000285 1 C15 C15 ? bmst000285 1 N16 N16 ? bmst000285 1 N17 N17 ? bmst000285 1 N18 N18 ? bmst000285 1 N19 N19 ? bmst000285 1 N20 N20 ? bmst000285 1 N21 N21 ? bmst000285 1 O22 O22 ? bmst000285 1 O23 O23 ? bmst000285 1 O24 O24 ? bmst000285 1 O25 O25 ? bmst000285 1 O26 O26 ? bmst000285 1 S27 S27 ? bmst000285 1 H28 H28 ? bmst000285 1 H29 H29 ? bmst000285 1 H30 H30 ? bmst000285 1 H31 H31 ? bmst000285 1 H32 H32 ? bmst000285 1 H33 H33 ? bmst000285 1 H34 H34 ? bmst000285 1 H35 H35 ? bmst000285 1 H36 H36 ? bmst000285 1 H37 H37 ? bmst000285 1 H38 H38 ? bmst000285 1 H39 H39 ? bmst000285 1 H40 H40 ? bmst000285 1 H41 H41 ? bmst000285 1 H42 H42 ? bmst000285 1 H43 H43 ? bmst000285 1 H44 H44 ? bmst000285 1 H45 H45 ? bmst000285 1 H46 H46 ? bmst000285 1 H47 H47 ? bmst000285 1 H48 H48 ? bmst000285 1 H49 H49 ? bmst000285 1 H50 H50 ? bmst000285 1 stop_ loop_ _Chem_comp_bond.ID _Chem_comp_bond.Type _Chem_comp_bond.Value_order _Chem_comp_bond.Atom_ID_1 _Chem_comp_bond.Atom_ID_2 _Chem_comp_bond.Details _Chem_comp_bond.Entry_ID _Chem_comp_bond.Comp_ID 1 covalent SING C1 S27 ? bmst000285 1 2 covalent SING C1 H28 ? bmst000285 1 3 covalent SING C1 H29 ? bmst000285 1 4 covalent SING C1 H30 ? bmst000285 1 5 covalent DOUB C2 N18 ? bmst000285 1 6 covalent SING C2 N19 ? bmst000285 1 7 covalent SING C2 H31 ? bmst000285 1 8 covalent DOUB C3 N20 ? bmst000285 1 9 covalent SING C3 N21 ? bmst000285 1 10 covalent SING C3 H32 ? bmst000285 1 11 covalent SING C4 C5 ? bmst000285 1 12 covalent SING C4 C14 ? bmst000285 1 13 covalent SING C4 H33 ? bmst000285 1 14 covalent SING C4 H34 ? bmst000285 1 15 covalent SING C5 S27 ? bmst000285 1 16 covalent SING C5 H35 ? bmst000285 1 17 covalent SING C5 H36 ? bmst000285 1 18 covalent SING C10 C6 ? bmst000285 1 19 covalent SING C6 S27 ? bmst000285 1 20 covalent SING C6 H37 ? bmst000285 1 21 covalent SING C6 H38 ? bmst000285 1 22 covalent DOUB C7 C8 ? bmst000285 1 23 covalent SING C7 C9 ? bmst000285 1 24 covalent SING C7 N20 ? bmst000285 1 25 covalent SING C8 N16 ? bmst000285 1 26 covalent SING C8 N18 ? bmst000285 1 27 covalent DOUB C9 N19 ? bmst000285 1 28 covalent SING C9 N21 ? bmst000285 1 29 covalent SING C10 C11 ? bmst000285 1 30 covalent SING C10 O26 ? bmst000285 1 31 covalent SING C10 H39 ? bmst000285 1 32 covalent SING C11 C12 ? bmst000285 1 33 covalent SING C11 O22 ? bmst000285 1 34 covalent SING C11 H40 ? bmst000285 1 35 covalent SING C12 C13 ? bmst000285 1 36 covalent SING C12 O23 ? bmst000285 1 37 covalent SING C12 H41 ? bmst000285 1 38 covalent SING C13 N21 ? bmst000285 1 39 covalent SING C13 O26 ? bmst000285 1 40 covalent SING C13 H42 ? bmst000285 1 41 covalent SING C14 C15 ? bmst000285 1 42 covalent SING C14 N17 ? bmst000285 1 43 covalent SING C14 H43 ? bmst000285 1 44 covalent SING C15 O24 ? bmst000285 1 45 covalent DOUB C15 O25 ? bmst000285 1 46 covalent SING N16 H44 ? bmst000285 1 47 covalent SING N16 H45 ? bmst000285 1 48 covalent SING N17 H46 ? bmst000285 1 49 covalent SING N17 H47 ? bmst000285 1 50 covalent SING O22 H48 ? bmst000285 1 51 covalent SING O23 H49 ? bmst000285 1 52 covalent SING O24 H50 ? bmst000285 1 stop_ loop_ _Chem_comp_db_link.Author_supplied _Chem_comp_db_link.Database_code _Chem_comp_db_link.Accession_code _Chem_comp_db_link.Accession_code_type _Chem_comp_db_link.Entry_mol_code _Chem_comp_db_link.Entry_mol_name _Chem_comp_db_link.Entry_experimental_method _Chem_comp_db_link.Entry_relation_type _Chem_comp_db_link.Entry_details _Chem_comp_db_link.Entry_ID _Chem_comp_db_link.Comp_ID no PubChem 176451 sid ? s-(5'-adenosyl)-L-methionine ? 'matching entry' ? bmst000285 1 no PubChem 34755 cid ? s-(5'-adenosyl)-L-methionine ? 'matching entry' ? bmst000285 1 no PubChem 3321 sid ? s-(5'-adenosyl)-L-methionine ? 'matching entry' ? bmst000285 1 no KEGG C00019 'compound ID' ? s-(5'-adenosyl)-L-methionine ? 'matching entry' ? bmst000285 1 no 'CAS Registry' 23095-97-8 'registry number' ? s-(5'-adenosyl)-L-methionine ? 'matching entry' ? bmst000285 1 no 'CAS Registry' 2613-02-7 'registry number' ? s-(5'-adenosyl)-L-methionine ? 'matching entry' ? bmst000285 1 no 'CAS Registry' 28378-99-6 'registry number' ? s-(5'-adenosyl)-L-methionine ? 'matching entry' ? bmst000285 1 no 'CAS Registry' 29908-03-0 'registry number' ? s-(5'-adenosyl)-L-methionine ? 'matching entry' ? bmst000285 1 no 'CAS Registry' 5134-37-2 'registry number' ? s-(5'-adenosyl)-L-methionine ? 'matching entry' ? bmst000285 1 no 'CAS Registry' 86522-35-2 'registry number' ? s-(5'-adenosyl)-L-methionine ? 'matching entry' ? bmst000285 1 no 'CAS Registry' 86866-89-9 'registry number' ? s-(5'-adenosyl)-L-methionine ? 'matching entry' ? bmst000285 1 no CHEBI 15414 ? ? s-(5'-adenosyl)-L-methionine ? 'matching entry' ? bmst000285 1 no EINECS 249-946-8 ? ? s-(5'-adenosyl)-L-methionine ? 'matching entry' ? bmst000285 1 no CCRIS 7130 ? ? s-(5'-adenosyl)-L-methionine ? 'matching entry' ? bmst000285 1 stop_ loop_ _Chem_comp_citation.Citation_ID _Chem_comp_citation.Citation_label _Chem_comp_citation.Entry_ID _Chem_comp_citation.Comp_ID 1 $citations bmst000285 1 stop_ save_ ############################ # Computer software used # ############################ save_software_1 _Software.Sf_category software _Software.Sf_framecode software_1 _Software.Entry_ID bmst000285 _Software.ID 1 _Software.Name Gaussian _Software.Version ? _Software.Details ? loop_ _Vendor.Name _Vendor.Address _Vendor.Electronic_address _Vendor.Entry_ID _Vendor.Software_ID 'Gaussian, Inc.' ? http://www.gaussian.com/home.htm bmst000285 1 stop_ loop_ _Task.Task _Task.Entry_ID _Task.Software_ID 'geometry optimization' bmst000285 1 'chemical shift calculation' bmst000285 1 stop_ save_ #################### # NMR parameters # #################### ############################## # Assigned chemical shifts # ############################## ################################ # Chemical shift referencing # ################################ save_chem_shift_reference _Chem_shift_reference.Sf_category chem_shift_reference _Chem_shift_reference.Sf_framecode chem_shift_reference _Chem_shift_reference.Entry_ID bmst000285 _Chem_shift_reference.ID 1 _Chem_shift_reference.Details ? loop_ _Chem_shift_ref.Atom_type _Chem_shift_ref.Atom_isotope_number _Chem_shift_ref.Mol_common_name _Chem_shift_ref.Atom_group _Chem_shift_ref.Chem_shift_units _Chem_shift_ref.Chem_shift_val _Chem_shift_ref.Ref_method _Chem_shift_ref.Ref_type _Chem_shift_ref.Indirect_shift_ratio _Chem_shift_ref.Entry_ID _Chem_shift_ref.Chem_shift_reference_ID H 1 TMS 'methyl protons' ppm 0.00 na direct ? bmst000285 1 C 13 TMS 'methyl carbons' ppm 0.00 na direct ? bmst000285 1 N 15 'ammonia pentamer' nitrogen ppm 0.00 na direct ? bmst000285 1 P 31 'phosphoric acid' phosphorus ppm 0.00 na direct ? bmst000285 1 stop_ save_ save_chem_shifts_calc_type _Chem_shifts_calc_type.Sf_category chem_shifts_calc_type _Chem_shifts_calc_type.Sf_framecode chem_shifts_calc_type _Chem_shifts_calc_type.Entry_ID bmst000285 _Chem_shifts_calc_type.ID 1 _Chem_shifts_calc_type.Calculation_level 'Density Functional Theory' _Chem_shifts_calc_type.Quantum_mechanical_method GIAO _Chem_shifts_calc_type.Quantum_mechanical_theory_level B3LYP _Chem_shifts_calc_type.Quantum_mechanical_basis_set 3-21g** _Chem_shifts_calc_type.Chem_shift_nucleus ? _Chem_shifts_calc_type.Chem_shift_reference_ID 1 _Chem_shifts_calc_type.Chem_shift_reference_label $chem_shift_reference _Chem_shifts_calc_type.Details ; Theoretical Chemical shift referencing and correction: 1H chemical shifts Tetramethylsilane (TMS) was geometry optimized at the B3LYP/6-311+g* level of theory. The chemical shielding of TMS was calculated at the pbe1pbe/3-21g* level of theory using the GIAO method. The chemical shielding of TMS was used as the reference (0 ppm) to obtain all other chemical shifts. A series of small organic molecules were optimized and the chemical shieldings were calculated in the same manner as that for TMS. To correct for biases arising from the applied level of theory, especially the bias from the small basis set size, a linear regression analysis was used. The slope and intercept from this regression was used to correct the calculated chemical shifts. The chemical shift was calculated by subtracting the chemical shielding value of the compound of interest from that of TMS and applying the slope and intercept corrections obtained from the regression analysis. corrected_shift=((TMS_shielding - uncorrected_shielding)+1.006)/0.963 13C chemical shifts: Tetramethylsilane (TMS) was geometry optimized at the B3LYP/6-311+g* level of theory. The chemical shielding of TMS was calculated at the pbe1pbe/3-21g* level of theory using the GIAO method. The chemical shielding of TMS was used as the reference (0 ppm) to obtain all other chemical shifts. A series of small organic molecules were optimized and the chemical shieldings were calculated in the same manner as that for TMS. To correct for biases arising from the applied level of theory, especially the bias from the small basis set size, a linear regression analysis of theoretical versus experimental chemical shifts was used. The slope and intercept from this regression was used to correct the calculated chemical shifts. The chemical shift was calculated by subtracting the chemical shielding value of the compound of interest from that of TMS and applying the slope and intercept corrections obtained from the regression analysis. Corrected_shift=((TMS_shielding - uncorrected shielding) -4.53)/0.85 15N chemical shifts: A cyclic pentamer of ammonia (NH3_5) was geometry optimized at the B3LYP/6-311+g* level of theory. The chemical shielding of NH3_5 was calculated at the pbe1pbe/3-21g* level of theory using the GIAO method. The chemical shielding of NH3_5 was used as the reference (0 ppm) to obtain all other chemical shifts. A series of small organic molecules were optimized and the chemical shieldings were calculated in the same manner as that for NH3_5. To correct for biases arising from the applied level of theory, especially the bias from the small basis set size, a linear regression analysis was used. The slope and intercept from this regression was used to correct the calculated chemical shifts. The chemical shift was calculated by subtracting the chemical shielding value of the compound of interest from that of NH3_5 and applying the slope and intercept corrections obtained from the regression analysis. Corrected_shift=((NH_3_5_shielding - uncorrected_shielding)+10.2)/0.9088 31P chemical shifts: Phosphoric acid (H3PO4) was geometry optimized at the B3LYP/6-311+g* level of theory. The chemical shielding of H3PO4 was calculated at the pbe1pbe/3-21g* level of theory using the GIAO method. The chemical shielding of H3PO4 was used as the reference (0 ppm) to obtain all other chemical shifts. No correction for linear bias or offset was applied to calculated 31P chemical shifts. The chemical shift was calculated by subtracting the chemical shielding value of the compound of interest from that of H3PO4. Shift=(H3PO4_shielding - shielding) ; loop_ _Chem_shifts_calc_software.Software_ID _Chem_shifts_calc_software.Software_label _Chem_shifts_calc_software.Entry_ID _Chem_shifts_calc_software.Chem_shifts_calc_type_ID 1 $software_1 bmst000285 1 stop_ save_ ################################# # Theoretical chemical shifts # ################################# save_theoretical_chem_shifts _Theoretical_chem_shift_list.Sf_category theoretical_chem_shifts _Theoretical_chem_shift_list.Sf_framecode theoretical_chem_shifts _Theoretical_chem_shift_list.Entry_ID bmst000285 _Theoretical_chem_shift_list.ID 1 _Theoretical_chem_shift_list.Chem_shifts_calc_type_ID 1 _Theoretical_chem_shift_list.Chem_shifts_calc_type_label $chem_shifts_calc_type _Theoretical_chem_shift_list.Model_atomic_coordinates_ID 1 _Theoretical_chem_shift_list.Model_atomic_coordinates_label $conformer_family_coord_set_1 _Theoretical_chem_shift_list.Fermi_contact_spin_density_units ? _Theoretical_chem_shift_list.Chem_shift_1H_err ? _Theoretical_chem_shift_list.Chem_shift_2H_err ? _Theoretical_chem_shift_list.Chem_shift_13C_err ? _Theoretical_chem_shift_list.Chem_shift_15N_err ? _Theoretical_chem_shift_list.Chem_shift_19F_err ? _Theoretical_chem_shift_list.Chem_shift_31P_err ? _Theoretical_chem_shift_list.Details ? _Theoretical_chem_shift_list.Text_data_format ? _Theoretical_chem_shift_list.Text_data ? loop_ _Theoretical_chem_shift.ID _Theoretical_chem_shift.Entity_assembly_ID _Theoretical_chem_shift.Entity_ID _Theoretical_chem_shift.Comp_index_ID _Theoretical_chem_shift.Comp_ID _Theoretical_chem_shift.Atom_ID _Theoretical_chem_shift.Atom_type _Theoretical_chem_shift.Fermi_contact_spin_density _Theoretical_chem_shift.Val _Theoretical_chem_shift.Val_err _Theoretical_chem_shift.Auth_seq_ID _Theoretical_chem_shift.Auth_comp_ID _Theoretical_chem_shift.Auth_atom_ID _Theoretical_chem_shift.Entry_ID _Theoretical_chem_shift.Theoretical_chem_shift_list_ID 1 1 1 1 1 C1 C ? 23.156 ? S_adenosyl_L_methionine ? ? bmst000285 1 2 1 1 1 1 C2 C ? 153.479 ? S_adenosyl_L_methionine ? ? bmst000285 1 3 1 1 1 1 C3 C ? 135.622 ? S_adenosyl_L_methionine ? ? bmst000285 1 4 1 1 1 1 C4 C ? 26.334 ? S_adenosyl_L_methionine ? ? bmst000285 1 5 1 1 1 1 C5 C ? 41.841 ? S_adenosyl_L_methionine ? ? bmst000285 1 6 1 1 1 1 C6 C ? 52.555 ? S_adenosyl_L_methionine ? ? bmst000285 1 7 1 1 1 1 C7 C ? 119.272 ? S_adenosyl_L_methionine ? ? bmst000285 1 8 1 1 1 1 C8 C ? 153.850 ? S_adenosyl_L_methionine ? ? bmst000285 1 9 1 1 1 1 C9 C ? 148.140 ? S_adenosyl_L_methionine ? ? bmst000285 1 10 1 1 1 1 C10 C ? 80.100 ? S_adenosyl_L_methionine ? ? bmst000285 1 11 1 1 1 1 C11 C ? 75.698 ? S_adenosyl_L_methionine ? ? bmst000285 1 12 1 1 1 1 C12 C ? 76.922 ? S_adenosyl_L_methionine ? ? bmst000285 1 13 1 1 1 1 C13 C ? 94.866 ? S_adenosyl_L_methionine ? ? bmst000285 1 14 1 1 1 1 C14 C ? 54.462 ? S_adenosyl_L_methionine ? ? bmst000285 1 15 1 1 1 1 C15 C ? 177.288 ? S_adenosyl_L_methionine ? ? bmst000285 1 16 1 1 1 1 N16 N ? 91.986 ? S_adenosyl_L_methionine ? ? bmst000285 1 17 1 1 1 1 N17 N ? 34.532 ? S_adenosyl_L_methionine ? ? bmst000285 1 18 1 1 1 1 N18 N ? 260.883 ? S_adenosyl_L_methionine ? ? bmst000285 1 19 1 1 1 1 N19 N ? 223.247 ? S_adenosyl_L_methionine ? ? bmst000285 1 20 1 1 1 1 N20 N ? 271.402 ? S_adenosyl_L_methionine ? ? bmst000285 1 21 1 1 1 1 N21 N ? 167.737 ? S_adenosyl_L_methionine ? ? bmst000285 1 22 1 1 1 1 H28 H ? 3.816 ? S_adenosyl_L_methionine ? ? bmst000285 1 23 1 1 1 1 H29 H ? 3.546 ? S_adenosyl_L_methionine ? ? bmst000285 1 24 1 1 1 1 H30 H ? 4.205 ? S_adenosyl_L_methionine ? ? bmst000285 1 25 1 1 1 1 H31 H ? 10.063 ? S_adenosyl_L_methionine ? ? bmst000285 1 26 1 1 1 1 H32 H ? 8.636 ? S_adenosyl_L_methionine ? ? bmst000285 1 27 1 1 1 1 H33 H ? 2.647 ? S_adenosyl_L_methionine ? ? bmst000285 1 28 1 1 1 1 H34 H ? 3.885 ? S_adenosyl_L_methionine ? ? bmst000285 1 29 1 1 1 1 H35 H ? 3.915 ? S_adenosyl_L_methionine ? ? bmst000285 1 30 1 1 1 1 H36 H ? 6.230 ? S_adenosyl_L_methionine ? ? bmst000285 1 31 1 1 1 1 H37 H ? 4.257 ? S_adenosyl_L_methionine ? ? bmst000285 1 32 1 1 1 1 H38 H ? 4.535 ? S_adenosyl_L_methionine ? ? bmst000285 1 33 1 1 1 1 H39 H ? 5.807 ? S_adenosyl_L_methionine ? ? bmst000285 1 34 1 1 1 1 H40 H ? 5.278 ? S_adenosyl_L_methionine ? ? bmst000285 1 35 1 1 1 1 H41 H ? 5.321 ? S_adenosyl_L_methionine ? ? bmst000285 1 36 1 1 1 1 H42 H ? 6.925 ? S_adenosyl_L_methionine ? ? bmst000285 1 37 1 1 1 1 H43 H ? 4.583 ? S_adenosyl_L_methionine ? ? bmst000285 1 38 1 1 1 1 H44 H ? 6.157 ? S_adenosyl_L_methionine ? ? bmst000285 1 39 1 1 1 1 H45 H ? 6.716 ? S_adenosyl_L_methionine ? ? bmst000285 1 40 1 1 1 1 H46 H ? 2.553 ? S_adenosyl_L_methionine ? ? bmst000285 1 41 1 1 1 1 H47 H ? 1.529 ? S_adenosyl_L_methionine ? ? bmst000285 1 42 1 1 1 1 H48 H ? 4.115 ? S_adenosyl_L_methionine ? ? bmst000285 1 43 1 1 1 1 H49 H ? 9.287 ? S_adenosyl_L_methionine ? ? bmst000285 1 44 1 1 1 1 H50 H ? 7.353 ? S_adenosyl_L_methionine ? ? bmst000285 1 stop_ save_ ##################################### # Conformer family coordinate set # ##################################### save_conformer_family_coord_set_1 _Conformer_family_coord_set.Sf_category conformer_family_coord_set _Conformer_family_coord_set.Sf_framecode conformer_family_coord_set_1 _Conformer_family_coord_set.Entry_ID bmst000285 _Conformer_family_coord_set.ID 1 _Conformer_family_coord_set.Details ? loop_ _Conformer_family_software.Software_ID _Conformer_family_software.Software_label _Conformer_family_software.Entry_ID _Conformer_family_software.Conformer_family_coord_set_ID 1 $software_1 bmst000285 1 stop_ loop_ _Atom_site.Model_ID _Atom_site.ID _Atom_site.Label_entity_assembly_ID _Atom_site.Label_entity_ID _Atom_site.Label_comp_index_ID _Atom_site.Label_comp_ID _Atom_site.Label_atom_ID _Atom_site.Auth_seq_ID _Atom_site.Auth_comp_ID _Atom_site.Auth_atom_ID _Atom_site.Type_symbol _Atom_site.Cartn_x _Atom_site.Cartn_y _Atom_site.Cartn_z _Atom_site.Entry_ID _Atom_site.Conformer_family_coord_set_ID 1 1 1 1 1 1 C1 1 1 C1 C 0.576 4.436 0.175 bmst000285 1 1 2 1 1 1 1 C2 1 1 C2 C -2.818 -3.623 -3.546 bmst000285 1 1 3 1 1 1 1 C3 1 1 C3 C -1.848 -1.507 0.153 bmst000285 1 1 4 1 1 1 1 C4 1 1 C4 C 1.519 2.786 2.923 bmst000285 1 1 5 1 1 1 1 C5 1 1 C5 C 1.826 2.237 1.529 bmst000285 1 1 6 1 1 1 1 C6 1 1 C6 C 1.143 2.075 -1.287 bmst000285 1 1 7 1 1 1 1 C7 1 1 C7 C -3.144 -2.658 -1.075 bmst000285 1 1 8 1 1 1 1 C8 1 1 C8 C -4.166 -3.426 -1.680 bmst000285 1 1 9 1 1 1 1 C9 1 1 C9 C -1.998 -2.447 -1.843 bmst000285 1 1 10 1 1 1 1 C10 1 1 C10 C 1.552 0.602 -1.251 bmst000285 1 1 11 1 1 1 1 C11 1 1 C11 C 1.720 -0.017 -2.656 bmst000285 1 1 12 1 1 1 1 C12 1 1 C12 C 0.444 -0.868 -2.810 bmst000285 1 1 13 1 1 1 1 C13 1 1 C13 C 0.203 -1.300 -1.345 bmst000285 1 1 14 1 1 1 1 C14 1 1 C14 C 2.519 2.196 3.941 bmst000285 1 1 15 1 1 1 1 C15 1 1 C15 C 2.332 2.920 5.287 bmst000285 1 1 16 1 1 1 1 N16 1 1 N16 N -5.331 -3.697 -1.064 bmst000285 1 1 17 1 1 1 1 N17 1 1 N17 N 2.430 0.741 3.957 bmst000285 1 1 18 1 1 1 1 N18 1 1 N18 N -3.968 -3.897 -2.929 bmst000285 1 1 19 1 1 1 1 N19 1 1 N19 N -1.778 -2.909 -3.086 bmst000285 1 1 20 1 1 1 1 N20 1 1 N20 N -3.033 -2.059 0.167 bmst000285 1 1 21 1 1 1 1 N21 1 1 N21 N -1.165 -1.679 -1.046 bmst000285 1 1 22 1 1 1 1 O22 1 1 O22 O 2.859 -0.842 -2.626 bmst000285 1 1 23 1 1 1 1 O23 1 1 O23 O 0.702 -1.905 -3.703 bmst000285 1 1 24 1 1 1 1 O24 1 1 O24 O 2.736 2.155 6.319 bmst000285 1 1 25 1 1 1 1 O25 1 1 O25 O 1.899 4.044 5.404 bmst000285 1 1 26 1 1 1 1 O26 1 1 O26 O 0.515 -0.131 -0.579 bmst000285 1 1 27 1 1 1 1 S27 1 1 S27 S 0.472 2.623 0.347 bmst000285 1 1 28 1 1 1 1 H28 1 1 H28 H -0.091 4.727 -0.640 bmst000285 1 1 29 1 1 1 1 H29 1 1 H29 H 1.601 4.747 -0.035 bmst000285 1 1 30 1 1 1 1 H30 1 1 H30 H 0.219 4.879 1.107 bmst000285 1 1 31 1 1 1 1 H31 1 1 H31 H -2.707 -4.031 -4.548 bmst000285 1 1 32 1 1 1 1 H32 1 1 H32 H -1.406 -0.949 0.965 bmst000285 1 1 33 1 1 1 1 H33 1 1 H33 H 0.502 2.503 3.226 bmst000285 1 1 34 1 1 1 1 H34 1 1 H34 H 1.580 3.876 2.963 bmst000285 1 1 35 1 1 1 1 H35 1 1 H35 H 2.761 2.630 1.116 bmst000285 1 1 36 1 1 1 1 H36 1 1 H36 H 1.870 1.144 1.567 bmst000285 1 1 37 1 1 1 1 H37 1 1 H37 H 1.985 2.723 -1.550 bmst000285 1 1 38 1 1 1 1 H38 1 1 H38 H 0.316 2.245 -1.984 bmst000285 1 1 39 1 1 1 1 H39 1 1 H39 H 2.498 0.482 -0.711 bmst000285 1 1 40 1 1 1 1 H40 1 1 H40 H 1.797 0.747 -3.445 bmst000285 1 1 41 1 1 1 1 H41 1 1 H41 H -0.402 -0.236 -3.122 bmst000285 1 1 42 1 1 1 1 H42 1 1 H42 H 0.890 -2.114 -1.081 bmst000285 1 1 43 1 1 1 1 H43 1 1 H43 H 3.537 2.454 3.614 bmst000285 1 1 44 1 1 1 1 H44 1 1 H44 H -5.996 -4.304 -1.520 bmst000285 1 1 45 1 1 1 1 H45 1 1 H45 H -5.480 -3.420 -0.105 bmst000285 1 1 46 1 1 1 1 H46 1 1 H46 H 3.237 0.342 4.430 bmst000285 1 1 47 1 1 1 1 H47 1 1 H47 H 1.616 0.440 4.493 bmst000285 1 1 48 1 1 1 1 H48 1 1 H48 H 2.687 -1.558 -3.267 bmst000285 1 1 49 1 1 1 1 H49 1 1 H49 H -0.133 -2.444 -3.748 bmst000285 1 1 50 1 1 1 1 H50 1 1 H50 H 2.626 2.684 7.133 bmst000285 1 stop_ save_