data_bmse012338 ####################### # Entry information # ####################### save_entry_information_1 _Entry.Sf_category entry_information _Entry.Sf_framecode entry_information_1 _Entry.ID bmse012338 _Entry.Title N-benzylpyridine-4-carboxamide _Entry.Type 'metabolite/natural product' _Entry.Version_type original _Entry.Submission_date 2023-04-05 _Entry.Accession_date 2023-04-05 _Entry.Last_release_date 2023-08-11 _Entry.Original_release_date 2023-08-11 _Entry.Origination author _Entry.NMR_STAR_version 3.2.10.4 _Entry.Experimental_method NMR _Entry.Experimental_method_subtype solution _Entry.DOI 10.12018/bmse012338 loop_ _Entry_experimental_methods.ID _Entry_experimental_methods.Method _Entry_experimental_methods.Subtype _Entry_experimental_methods.Entry_ID 1 NMR solution bmse012338 stop_ loop_ _Entry_author.Ordinal _Entry_author.Given_name _Entry_author.Family_name _Entry_author.First_initial _Entry_author.Entry_ID 1 Sridhar Sreeramulu S. bmse012338 2 Christian Richter C. bmse012338 3 Harald Schwalbe H. bmse012338 4 Hannes Berg . bmse012338 stop_ loop_ _Entry_src.ID _Entry_src.Project_name _Entry_src.Entry_ID 1 EUOS bmse012338 stop_ loop_ _Release.Release_number _Release.Format_type _Release.Format_version _Release.Date _Release.Type _Release.Author _Release.Entry_ID 1 NMR-STAR 3.2.1.18 2023-11-09 original author bmse012338 stop_ loop_ _Auxiliary_files.ID _Auxiliary_files.Name _Auxiliary_files.Format _Auxiliary_files.URI _Auxiliary_files.Details _Auxiliary_files.Entry_ID 1 bmse012338.mol sdf na 'Structure Definition File' bmse012338 stop_ save_ ############### # Citations # ############### save_citations_1 _Citation.Sf_category citations _Citation.Sf_framecode citations_1 _Citation.Entry_ID bmse012338 _Citation.ID 1 _Citation.PubMed_ID 32533387 _Citation.DOI 10.1007/s10858-020-00327-9 _Citation.Title 'NMR quality control of fragment libraries for screening.' _Citation.Status published _Citation.Type journal _Citation.Journal_abbrev 'J Biomol NMR' _Citation.Journal_name_full 'Journal of biomolecular NMR' _Citation.Journal_volume 74 _Citation.Journal_issue 10-11 _Citation.Journal_ISSN 1573-5001 _Citation.Page_first 555 _Citation.Page_last 563 _Citation.Year 2020 loop_ _Citation_author.Ordinal _Citation_author.Given_name _Citation_author.Family_name _Citation_author.First_initial _Citation_author.Entry_ID _Citation_author.Citation_ID 1 Sridhar Sreeramulu S. bmse012338 1 2 Christian Richter C. bmse012338 1 3 Till Kuehn T. bmse012338 1 4 Kamal Azzaoui K. bmse012338 1 5 'Marcel Jules Jose' Blommers . bmse012338 1 6 Rebecca 'Del Conte' R. bmse012338 1 7 Marco Fragai M. bmse012338 1 8 Nils Trieloff N. bmse012338 1 9 Peter Schmieder P. bmse012338 1 10 Marc Nazare M. bmse012338 1 11 Edgar Specker E. bmse012338 1 12 Vladimir Ivanov V. bmse012338 1 13 Hartmut Oschkinat H. bmse012338 1 14 Lucia Banci L. bmse012338 1 15 Harald Schwalbe H. bmse012338 1 stop_ save_ ############################################# # Molecular system (assembly) description # ############################################# save_assembly_1 _Assembly.Sf_category assembly _Assembly.Sf_framecode assembly_1 _Assembly.Entry_ID bmse012338 _Assembly.ID 1 _Assembly.Name N-benzylpyridine-4-carboxamide _Assembly.Number_of_components 1 _Assembly.Thiol_state 'not present' loop_ _Entity_assembly.ID _Entity_assembly.Entity_assembly_name _Entity_assembly.Entity_ID _Entity_assembly.Experimental_data_reported _Entity_assembly.Physical_state _Entity_assembly.Conformational_isomer _Entity_assembly.Chemical_exchange_state _Entity_assembly.Entry_ID _Entity_assembly.Assembly_ID 1 chem_comp_1 1 yes native no no bmse012338 1 stop_ loop_ _Atom.Assembly_atom_ID _Atom.Entity_assembly_ID _Atom.Entity_ID _Atom.Comp_index_ID _Atom.Seq_ID _Atom.Atom_ID _Atom.Type_symbol _Atom.Entry_ID _Atom.Assembly_ID 1 1 1 1 1 C1 C bmse012338 1 2 1 1 1 1 C2 C bmse012338 1 3 1 1 1 1 C3 C bmse012338 1 4 1 1 1 1 C4 C bmse012338 1 5 1 1 1 1 C5 C bmse012338 1 6 1 1 1 1 C6 C bmse012338 1 7 1 1 1 1 C7 C bmse012338 1 8 1 1 1 1 C8 C bmse012338 1 9 1 1 1 1 C9 C bmse012338 1 10 1 1 1 1 C10 C bmse012338 1 11 1 1 1 1 C11 C bmse012338 1 12 1 1 1 1 C12 C bmse012338 1 13 1 1 1 1 C13 C bmse012338 1 14 1 1 1 1 N14 N bmse012338 1 15 1 1 1 1 N15 N bmse012338 1 16 1 1 1 1 O16 O bmse012338 1 stop_ save_ #################################### # Biological polymers and ligands # #################################### save_entity_1 _Entity.Sf_category entity _Entity.Sf_framecode entity_1 _Entity.Entry_ID bmse012338 _Entity.ID 1 _Entity.Name N-benzylpyridine-4-carboxamide _Entity.Type non-polymer _Entity.Ambiguous_conformational_states no _Entity.Ambiguous_chem_comp_sites no _Entity.Nstd_linkage no _Entity.Nonpolymer_comp_label chem_comp_1 _Entity.Number_of_monomers 1 _Entity.Number_of_nonpolymer_components 1 _Entity.Thiol_state 'not present' _Entity.Formula_weight 212.24718000000001 loop_ _Entity_comp_index.ID _Entity_comp_index.Auth_seq_ID _Entity_comp_index.Comp_label _Entity_comp_index.Entry_ID _Entity_comp_index.Entity_ID 1 1 chem_comp_1 bmse012338 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 bmse012338 _Chem_comp.Name N-benzylpyridine-4-carboxamide _Chem_comp.Number_atoms_all 16 _Chem_comp.InChI_code InChI=1S/C13H12N2O/c16-13(12-6-8-14-9-7-12)15-10-11-4-2-1-3-5-11/h1-9H,10H2,(H,15,16) _Chem_comp.Formal_charge 0 _Chem_comp.Aromatic yes _Chem_comp.Formula C13H12N2O _Chem_comp.Formula_weight 212.24718000000001 _Chem_comp.Formula_mono_iso_wt_nat 212.094963014 _Chem_comp.Formula_mono_iso_wt_13C 225.13857590800006 _Chem_comp.Formula_mono_iso_wt_15N 214.0890328 _Chem_comp.Formula_mono_iso_wt_13C_15N 227.13264569400008 _Chem_comp.Image_file_name bmse012338.png _Chem_comp.Image_file_format png _Chem_comp.Struct_file_name bmse012338.sdf _Chem_comp.Struct_file_format sdf loop_ _Chem_comp_descriptor.Descriptor _Chem_comp_descriptor.Type _Chem_comp_descriptor.Program _Chem_comp_descriptor.Program_version _Chem_comp_descriptor.Entry_ID O=C(NCc1ccccc1)c1ccncc1 SMILES_CANONICAL RDKit 2022.03.5 bmse012338 O=C(NCc1ccccc1)c1ccncc1 SMILES_ISOMERIC RDKit 2022.03.5 bmse012338 O=C(NCc1ccccc1)c1ccncc1 SMILES RDKit 2022.03.5 bmse012338 O=C(c1ccncc1)NCc1ccccc1 SMILES_CANONICAL OpenBabel 3.1.0 bmse012338 O=C(c1ccncc1)NCc1ccccc1 SMILES OpenBabel 3.1.0 bmse012338 InChI=1S/C13H12N2O/c16-13(12-6-8-14-9-7-12)15-10-11-4-2-1-3-5-11/h1-9H,10H2,(H,15,16) InChI OpenBabel 3.1.0 bmse012338 YIGMDKYIWMVZDV-UHFFFAOYSA-N InChI_KEY OpenBabel 3.1.0 bmse012338 InChI=1S/C13H12N2O/c16-13(12-6-8-14-9-7-12)15-10-11-4-2-1-3-5-11/h1-9H,10H2,(H,15,16) InChI ALATIS na bmse012338 stop_ loop_ _Chem_comp_identifier.Identifier _Chem_comp_identifier.Type _Chem_comp_identifier.Program _Chem_comp_identifier.Program_version _Chem_comp_identifier.Entry_ID b'N-(phenylmethyl)pyridine-4-carboxamide' 'IUPAC NAME' http://cactus.nci.nih.gov/chemical/structure na bmse012338 stop_ loop_ _Chem_comp_atom.Atom_ID _Chem_comp_atom.Type_symbol _Chem_comp_atom.Stereo_config _Chem_comp_atom.Charge _Chem_comp_atom.Aromatic_flag _Chem_comp_atom.PDBX_ordinal _Chem_comp_atom.Entry_ID C1 C N 0 yes 1 bmse012338 C2 C N 0 yes 2 bmse012338 C3 C N 0 yes 3 bmse012338 C4 C N 0 yes 4 bmse012338 C5 C N 0 yes 5 bmse012338 C6 C N 0 yes 6 bmse012338 C7 C N 0 yes 7 bmse012338 C8 C N 0 yes 8 bmse012338 C9 C N 0 yes 9 bmse012338 C10 C N 0 no 10 bmse012338 C11 C N 0 yes 11 bmse012338 C12 C N 0 yes 12 bmse012338 C13 C N 0 no 13 bmse012338 N14 N N 0 yes 14 bmse012338 N15 N N 0 no 15 bmse012338 O16 O N 0 no 16 bmse012338 stop_ loop_ _Atom_nomenclature.Atom_ID _Atom_nomenclature.Atom_name _Atom_nomenclature.Naming_system _Atom_nomenclature.Entry_ID C16 C1 ALATIS bmse012338 C14 C2 ALATIS bmse012338 C15 C3 ALATIS bmse012338 C12 C4 ALATIS bmse012338 C13 C5 ALATIS bmse012338 C10 C6 ALATIS bmse012338 C11 C7 ALATIS bmse012338 C9 C8 ALATIS bmse012338 C8 C9 ALATIS bmse012338 C6 C10 ALATIS bmse012338 C7 C11 ALATIS bmse012338 C5 C12 ALATIS bmse012338 C1 C13 ALATIS bmse012338 N4 N14 ALATIS bmse012338 N2 N15 ALATIS bmse012338 O3 O16 ALATIS bmse012338 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.Aromatic_flag _Chem_comp_bond.Stereo_config _Chem_comp_bond.Ordinal _Chem_comp_bond.Entry_ID 1 covalent AROM C2 C1 yes N 1 bmse012338 2 covalent AROM C3 C1 yes N 2 bmse012338 3 covalent AROM C4 C2 yes N 3 bmse012338 4 covalent AROM C5 C3 yes N 4 bmse012338 5 covalent AROM C8 C6 yes N 5 bmse012338 6 covalent AROM C9 C7 yes N 6 bmse012338 7 covalent SING C10 C11 no N 7 bmse012338 8 covalent AROM C11 C4 yes N 8 bmse012338 9 covalent AROM C11 C5 yes N 9 bmse012338 10 covalent AROM C12 C6 yes N 10 bmse012338 11 covalent AROM C12 C7 yes N 11 bmse012338 12 covalent SING C13 C12 no N 12 bmse012338 13 amide SING C13 N15 no N 13 bmse012338 14 carbonyl DOUB C13 O16 no N 14 bmse012338 15 covalent AROM N14 C8 yes N 15 bmse012338 16 covalent AROM N14 C9 yes N 16 bmse012338 17 covalent SING N15 C10 no N 17 bmse012338 stop_ loop_ _Chem_comp_db_link.Database_code _Chem_comp_db_link.Accession_code _Chem_comp_db_link.Accession_code_type _Chem_comp_db_link.Entry_ID EU-OPENSCREEN EOS103084 'compound ID' bmse012338 stop_ save_ ##################################### # Sample contents and methodology # ##################################### ######################## # Sample description # ######################## save_sample_1 _Sample.Sf_category sample _Sample.Sf_framecode sample_1 _Sample.Entry_ID bmse012338 _Sample.ID 1 _Sample.Name 'sample 1' _Sample.Type solution _Sample.Aggregate_sample_number 1 loop_ _Sample_component.ID _Sample_component.Mol_common_name _Sample_component.Isotopic_labeling _Sample_component.Assembly_ID _Sample_component.Assembly_label _Sample_component.Entity_ID _Sample_component.Entity_label _Sample_component.Type _Sample_component.Concentration_val _Sample_component.Concentration_val_units _Sample_component.Entry_ID _Sample_component.Sample_ID 1 N-benzylpyridine-4-carboxamide 'natural abundance' 1 $assembly_1 1 $entity_1 solute 2 mM bmse012338 1 2 'Sodium phosphate' 'natural abundance' . . . . buffer 25 mM bmse012338 1 3 'Sodium chloride' 'natural abundance' . . . . salt 150 mM bmse012338 1 4 DSS 'natural abundance' . . . . reference 10 uM bmse012338 1 5 H2O 'natural abundance' . . . . solvent 95 % bmse012338 1 6 DMSO '[2H U-100%]' . . . . solvent 5 % bmse012338 1 stop_ save_ ####################### # Sample conditions # ####################### save_sample_conditions_1 _Sample_condition_list.Sf_category sample_conditions _Sample_condition_list.Sf_framecode sample_conditions_1 _Sample_condition_list.Entry_ID bmse012338 _Sample_condition_list.ID 1 _Sample_condition_list.Name 'sample conditions 1' loop_ _Sample_condition_variable.Type _Sample_condition_variable.Val _Sample_condition_variable.Val_err _Sample_condition_variable.Val_units _Sample_condition_variable.Entry_ID _Sample_condition_variable.Sample_condition_list_ID pH 7.5 . pH bmse012338 1 pressure 1 . atm bmse012338 1 temperature 298 0.1 K bmse012338 1 stop_ save_ ############################ # Computer software used # ############################ save_software_1 _Software.Sf_category software _Software.Sf_framecode software_1 _Software.Entry_ID bmse012338 _Software.ID 1 _Software.Name TopSpin _Software.Version 4.0.3 loop_ _Vendor.Name _Vendor.Electronic_address _Vendor.Entry_ID _Vendor.Software_ID 'Bruker Biospin' http://www.bruker.com/products/mr/nmr/nmr-software/software/topspin/ bmse012338 1 stop_ loop_ _Task.Task _Task.Entry_ID _Task.Software_ID 'data analysis' bmse012338 1 'peak picking' bmse012338 1 processing bmse012338 1 stop_ save_ ######################### # Experimental detail # ######################### ################################## # NMR Spectrometer definitions # ################################## save_NMR_spectrometer_1 _NMR_spectrometer.Sf_category NMR_spectrometer _NMR_spectrometer.Sf_framecode NMR_spectrometer_1 _NMR_spectrometer.Entry_ID bmse012338 _NMR_spectrometer.ID 1 _NMR_spectrometer.Name 'spectrometer Bruker' _NMR_spectrometer.Manufacturer Bruker _NMR_spectrometer.Model Avance _NMR_spectrometer.Field_strength 600 save_ ############################# # NMR applied experiments # ############################# save_experiment_list_1 _Experiment_list.Sf_category experiment_list _Experiment_list.Sf_framecode experiment_list_1 _Experiment_list.Entry_ID bmse012338 _Experiment_list.ID 1 loop_ _Experiment.ID _Experiment.Name _Experiment.Raw_data_flag _Experiment.Sample_ID _Experiment.Sample_label _Experiment.Sample_state _Experiment.Sample_condition_list_ID _Experiment.Sample_condition_list_label _Experiment.NMR_spectrometer_ID _Experiment.NMR_spectrometer_label _Experiment.Entry_ID _Experiment.Experiment_list_ID 1 '1D 1H' yes 1 $sample_1 isotropic 1 $sample_conditions_1 1 $NMR_spectrometer_1 bmse012338 1 stop_ loop_ _Experiment_file.Experiment_ID _Experiment_file.Name _Experiment_file.Type _Experiment_file.Content _Experiment_file.Directory_path _Experiment_file.Entry_ID _Experiment_file.Experiment_list_ID 1 1 text/directory 'NMR experiment directory' nmr/set01/ bmse012338 1 1 cmcproject.xml text/xml 'spectrum analysis' nmr/set01/1/pdata/1/ bmse012338 1 1 multiplet.txt text 'Peak list' nmr/set01/1/pdata/1/ bmse012338 1 1 spectrum_overview.pdf pdf 'Spectrum image' nmr/set01/1/pdata/1/ bmse012338 1 1 spectrum_overview.png image/png 'Spectral image' nmr/set01/1/pdata/1/ bmse012338 1 stop_ save_ #################### # NMR parameters # #################### ############################## # Assigned chemical shifts # ############################## ################################ # Chemical shift referencing # ################################ save_chem_shift_reference_1 _Chem_shift_reference.Sf_category chem_shift_reference _Chem_shift_reference.Sf_framecode chem_shift_reference_1 _Chem_shift_reference.Entry_ID bmse012338 _Chem_shift_reference.ID 1 _Chem_shift_reference.Name 'chem shift ref set' 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 DSS 'methyl protons' ppm 0.0 internal direct 1.0 bmse012338 1 stop_ save_ ######################### # Spectral peak lists # ######################### save_spectral_peak_list_1 _Spectral_peak_list.Sf_category spectral_peak_list _Spectral_peak_list.Sf_framecode spectral_peak_list_1 _Spectral_peak_list.Entry_ID bmse012338 _Spectral_peak_list.ID 1 _Spectral_peak_list.Name 'spectral peaks 1D 1H' _Spectral_peak_list.Sample_ID 1 _Spectral_peak_list.Sample_label $sample_1 _Spectral_peak_list.Sample_condition_list_ID 1 _Spectral_peak_list.Sample_condition_list_label $sample_conditions_1 _Spectral_peak_list.Chem_shift_reference_ID 1 _Spectral_peak_list.Experiment_ID 1 _Spectral_peak_list.Experiment_name '1D 1H' _Spectral_peak_list.Number_of_spectral_dimensions 1 _Spectral_peak_list.Assigned_chem_shift_list_ID 1 _Spectral_peak_list.Details 'F1: 1H' loop_ _Spectral_dim.ID _Spectral_dim.Spectrometer_frequency _Spectral_dim.Atom_type _Spectral_dim.Atom_isotope_number _Spectral_dim.Spectral_region _Spectral_dim.Sweep_width _Spectral_dim.Sweep_width_units _Spectral_dim.Entry_ID _Spectral_dim.Spectral_peak_list_ID 1 600.1728185 H 1 'Full H' 12.0157698570257 ppm bmse012338 1 stop_ loop_ _Spectral_peak_software.Software_ID _Spectral_peak_software.Software_label _Spectral_peak_software.Entry_ID _Spectral_peak_software.Spectral_peak_list_ID 1 $software_1 bmse012338 1 stop_ loop_ _Peak.ID _Peak.Entry_ID _Peak.Spectral_peak_list_ID 1 bmse012338 1 2 bmse012338 1 3 bmse012338 1 4 bmse012338 1 5 bmse012338 1 6 bmse012338 1 stop_ loop_ _Peak_char.Peak_ID _Peak_char.Spectral_dim_ID _Peak_char.Chem_shift_val _Peak_char.Details _Peak_char.Entry_ID _Peak_char.Spectral_peak_list_ID 1 1 4.6544 SUP bmse012338 1 2 1 8.5823 9,10_m_Q2 bmse012338 1 3 1 7.2532 16_m_Q1 bmse012338 1 4 1 2.5706 DMSO bmse012338 1 5 1 7.6406 6,7_m bmse012338 1 6 1 7.3087 11,12,14,15 bmse012338 1 stop_ loop_ _Spectral_transition.ID _Spectral_transition.Entry_ID _Spectral_transition.Spectral_peak_list_ID 1 bmse012338 1 2 bmse012338 1 3 bmse012338 1 4 bmse012338 1 5 bmse012338 1 6 bmse012338 1 7 bmse012338 1 8 bmse012338 1 9 bmse012338 1 10 bmse012338 1 11 bmse012338 1 12 bmse012338 1 13 bmse012338 1 14 bmse012338 1 15 bmse012338 1 16 bmse012338 1 17 bmse012338 1 18 bmse012338 1 19 bmse012338 1 20 bmse012338 1 21 bmse012338 1 stop_ loop_ _Spectral_transition_char.Spectral_transition_ID _Spectral_transition_char.Spectral_dim_ID _Spectral_transition_char.Chem_shift_val _Spectral_transition_char.Entry_ID _Spectral_transition_char.Spectral_peak_list_ID 1 1 4.6544 bmse012338 1 2 1 8.5877 bmse012338 1 3 1 8.5850 bmse012338 1 4 1 8.5796 bmse012338 1 5 1 8.5769 bmse012338 1 6 1 7.2657 bmse012338 1 7 1 7.2628 bmse012338 1 8 1 7.2591 bmse012338 1 9 1 7.2516 bmse012338 1 10 1 7.2406 bmse012338 1 11 1 2.5641 bmse012338 1 12 1 2.5677 bmse012338 1 13 1 2.5704 bmse012338 1 14 1 2.5739 bmse012338 1 15 1 2.5770 bmse012338 1 16 1 7.6458 bmse012338 1 17 1 7.6434 bmse012338 1 18 1 7.6380 bmse012338 1 19 1 7.6353 bmse012338 1 20 1 7.3433 bmse012338 1 21 1 7.2740 bmse012338 1 stop_ loop_ _Peak_coupling.ID _Peak_coupling.Peak_ID _Peak_coupling.Spectral_dim_ID _Peak_coupling.Coupling_val _Peak_coupling.Entry_ID _Peak_coupling.Spectral_peak_list_ID 1 1 1 0.0000 bmse012338 1 2 2 1 2.1519 bmse012338 1 3 3 1 3.7780 bmse012338 1 4 4 1 1.9440 bmse012338 1 5 5 1 2.1030 bmse012338 1 6 6 1 41.5538 bmse012338 1 stop_ save_