data_6042 ####################### # Entry information # ####################### save_entry_information _Saveframe_category entry_information _Entry_title ; NMR structure of the 30mer stemloop-D of coxsackieviral RNA ; _BMRB_accession_number 6042 _BMRB_flat_file_name bmr6042.str _Entry_type original _Submission_date 2003-12-11 _Accession_date 2003-12-11 _Entry_origination author _NMR_STAR_version 2.1.1 _Experimental_method NMR _Details . loop_ _Author_ordinal _Author_family_name _Author_given_name _Author_middle_initials _Author_family_title 1 Ohlenschlager O. . . 2 Wohnert J. . . 3 Bucci E. . . 4 Seitz S. . . 5 Hafner S. . . 6 Ramachandran R. . . 7 Zell R. . . 8 Gorlach M. . . stop_ loop_ _Saveframe_category_type _Saveframe_category_type_count coupling_constants 1 stop_ loop_ _Revision_date _Revision_keyword _Revision_author _Revision_detail 2004-11-30 original author . stop_ _Original_release_date 2004-11-30 save_ ############################# # Citation for this entry # ############################# save_entry_citation _Saveframe_category entry_citation _Citation_full . _Citation_title ; The Structure of the Stemloop D Subdomain of Coxsackievirus B3 Cloverleaf RNA and its Interaction with the Proteinase 3C ; _Citation_status published _Citation_type journal _CAS_abstract_code . _MEDLINE_UI_code . _PubMed_ID 14962384 loop_ _Author_ordinal _Author_family_name _Author_given_name _Author_middle_initials _Author_family_title 1 Ohlenschlager O. . . 2 Wohnert J. . . 3 Bucci E. . . 4 Seitz S. . . 5 Hafner S. . . 6 Ramachandran R. . . 7 Zell R. . . 8 Gorlach M. . . stop_ _Journal_abbreviation Stucture _Journal_volume 12 _Journal_issue . _Journal_CSD . _Book_chapter_title . _Book_volume . _Book_series . _Book_ISBN . _Conference_state_province . _Conference_abstract_number . _Page_first 237 _Page_last 248 _Year 2004 _Details . loop_ _Keyword 'A-form helix stems' 'base-paired U:U-C:U-U:U mismatch' 'loop with conformation similar to stable UNCG-tetraloops and U:G closing base pair' stop_ save_ ################################## # Molecular system description # ################################## save_system_SLD-RNA _Saveframe_category molecular_system _Mol_system_name '30mer stemloop-D of coxsackieviral RNA' _Abbreviation_common SLD-RNA _Enzyme_commission_number . loop_ _Mol_system_component_name _Mol_label SLD-RNA $SLD-RNA stop_ _System_molecular_weight . _System_physical_state native _System_oligomer_state monomer _System_paramagnetic no _System_thiol_state 'not present' _Database_query_date . _Details . save_ ######################## # Monomeric polymers # ######################## save_SLD-RNA _Saveframe_category monomeric_polymer _Mol_type polymer _Mol_polymer_class RNA _Name_common SLD-RNA _Abbreviation_common SLD-RNA _Molecular_mass . _Mol_thiol_state 'not present' _Details . ############################## # Polymer residue sequence # ############################## _Residue_count 30 _Mol_residue_sequence ; GGCACUCUGGUAUCACGGUA CCUUUGUGUC ; loop_ _Residue_seq_code _Residue_label 1 G 2 G 3 C 4 A 5 C 6 U 7 C 8 U 9 G 10 G 11 U 12 A 13 U 14 C 15 A 16 C 17 G 18 G 19 U 20 A 21 C 22 C 23 U 24 U 25 U 26 G 27 U 28 G 29 U 30 C stop_ _Sequence_homology_query_date . _Sequence_homology_query_revised_last_date . save_ #################### # Natural source # #################### save_natural_source _Saveframe_category natural_source loop_ _Mol_label _Organism_name_common _NCBI_taxonomy_ID _Superkingdom _Kingdom _Genus _Species $SLD-RNA 'COXSACKIEVIRUS B3' 12072 Viruses . Enterovirus 'Human enterovirus B' stop_ save_ ######################### # Experimental source # ######################### save_experimental_source _Saveframe_category experimental_source loop_ _Mol_label _Production_method _Host_organism_name_common _Genus _Species _Strain _Vector_name $SLD-RNA 'recombinant technology' . . . . . stop_ save_ ##################################### # Sample contents and methodology # ##################################### ######################## # Sample description # ######################## save_sample_1 _Saveframe_category sample _Sample_type solution _Details . loop_ _Mol_label _Concentration_value _Concentration_value_units _Isotopic_labeling $SLD-RNA 0.9 mM '[U-13C; U-15N]' KH2PO4/K2HPO4 10 mM . KCl 40 mM . EDTA 0.2 mM . H2O 95 % . D2O 5 % . stop_ save_ save_sample_2 _Saveframe_category sample _Sample_type solution _Details . loop_ _Mol_label _Concentration_value _Concentration_value_units _Isotopic_labeling $SLD-RNA 0.9 mM '[U-13C; U-15N]' KH2PO4/K2HPO4 10 mM . KCl 40 mM . EDTA 0.2 mM . D2O 99.99 % . stop_ save_ save_sample_3 _Saveframe_category sample _Sample_type solution _Details . loop_ _Mol_label _Concentration_value _Concentration_value_units _Isotopic_labeling $SLD-RNA 1.2 mM '[U-13C; U-15N]-G, C' KH2PO4/K2HPO4 10 mM . KCl 40 mM . EDTA 0.2 mM . H2O 95 % . D2O 5 % . stop_ save_ save_sample_4 _Saveframe_category sample _Sample_type solution _Details . loop_ _Mol_label _Concentration_value _Concentration_value_units _Isotopic_labeling $SLD-RNA 1.2 mM '[U-13C; U-15N]-G, C' KH2PO4/K2HPO4 10 mM . KCl 40 mM . EDTA 0.2 mM . D2O 99.99 % . stop_ save_ save_sample_5 _Saveframe_category sample _Sample_type solution _Details . loop_ _Mol_label _Concentration_value _Concentration_value_units _Isotopic_labeling $SLD-RNA 1.2 mM '[U-13C; U-15N]-A, U' KH2PO4/K2HPO4 10 mM . KCl 40 mM . EDTA 0.2 mM . H2O 95 % . D2O 5 % . stop_ save_ save_sample_6 _Saveframe_category sample _Sample_type solution _Details . loop_ _Mol_label _Concentration_value _Concentration_value_units _Isotopic_labeling $SLD-RNA 1.2 mM '[U-13C; U-15N]-A, U' KH2PO4/K2HPO4 10 mM . KCl 40 mM . EDTA 0.2 mM . D2O 99.99 % . stop_ save_ save_sample_7 _Saveframe_category sample _Sample_type solution _Details . loop_ _Mol_label _Concentration_value _Concentration_value_units _Isotopic_labeling $SLD-RNA 1.4 mM [U-15N] KH2PO4/K2HPO4 10 mM . KCl 40 mM . EDTA 0.2 mM . H2O 95 % . D2O 5 % . stop_ save_ save_sample_8 _Saveframe_category sample _Sample_type solution _Details . loop_ _Mol_label _Concentration_value _Concentration_value_units _Isotopic_labeling $SLD-RNA 1.2 mM [U-15N] KH2PO4/K2HPO4 10 mM . KCl 40 mM . EDTA 0.2 mM . D2O 99.99 % . stop_ save_ ############################ # Computer software used # ############################ save_VNMR _Saveframe_category software _Name VNMR _Version '6.1, rev. c' loop_ _Task collection processing stop_ _Details 'Varian Inc.' save_ save_XEASY _Saveframe_category software _Name XEASY _Version 1.3.9 loop_ _Task 'data analysis' stop_ _Details Bartels save_ save_FOUND _Saveframe_category software _Name FOUND _Version 'implemented in CYANA-1.0.6' loop_ _Task 'structure solution' stop_ _Details Guntert save_ save_CYANA _Saveframe_category software _Name CYANA _Version 1.0.6 loop_ _Task 'structure solution' stop_ _Details Herrmann save_ save_OPAL _Saveframe_category software _Name OPAL _Version 2.6 loop_ _Task refinement stop_ _Details Luginbuhl save_ ######################### # Experimental detail # ######################### ################################## # NMR Spectrometer definitions # ################################## save_spectrometer_1 _Saveframe_category NMR_spectrometer _Manufacturer Varian _Model INOVA _Field_strength 750 _Details . save_ ############################# # NMR applied experiments # ############################# save__1 _Saveframe_category NMR_applied_experiment _Sample_label . save_ ####################### # Sample conditions # ####################### save_sample_cond_1 _Saveframe_category sample_conditions _Details . loop_ _Variable_type _Variable_value _Variable_value_error _Variable_value_units 'ionic strength' 50 . mM pH 6.2 . n/a pressure 1 . atm temperature 298 . K stop_ save_ save_sample_cond_2 _Saveframe_category sample_conditions _Details . loop_ _Variable_type _Variable_value _Variable_value_error _Variable_value_units 'ionic strength' 50 . mM pH 6.2 . n/a pressure 1 . atm temperature 283 . K stop_ save_