data_17387 ####################### # Entry information # ####################### save_entry_information _Saveframe_category entry_information _Entry_title ; RBM5 RanBP2 zinc finger backbone chemical shifts ; _BMRB_accession_number 17387 _BMRB_flat_file_name bmr17387.str _Entry_type original _Submission_date 2010-12-23 _Accession_date 2010-12-23 _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 Mansfield Robyn E. . 2 Nguyen Cuong D. . 3 Mackay Joel P. . stop_ loop_ _Saveframe_category_type _Saveframe_category_type_count assigned_chemical_shifts 1 stop_ loop_ _Data_type _Data_type_count "1H chemical shifts" 33 "13C chemical shifts" 69 "15N chemical shifts" 33 stop_ loop_ _Revision_date _Revision_keyword _Revision_author _Revision_detail 2011-03-24 update BMRB 'update entry citation' 2011-01-28 original author 'original release' stop_ save_ ############################# # Citation for this entry # ############################# save_entry_citation _Saveframe_category entry_citation _Citation_full . _Citation_title 'Characterization of a Family of RanBP2-Type Zinc Fingers that Can Recognize Single-Stranded RNA.' _Citation_status published _Citation_type journal _CAS_abstract_code . _MEDLINE_UI_code . _PubMed_ID 21256132 loop_ _Author_ordinal _Author_family_name _Author_given_name _Author_middle_initials _Author_family_title 1 Nguyen Cuong D. . 2 Mansfield Robyn E. . 3 Leung Wilfred . . 4 Vaz Paula M. . 5 Loughlin Fionna E. . 6 Grant Richard P. . 7 Mackay Joel P. . stop_ _Journal_abbreviation 'J. Mol. Biol.' _Journal_name_full 'Journal of molecular biology' _Journal_volume 407 _Journal_issue 2 _Journal_CSD . _Book_chapter_title . _Book_volume . _Book_series . _Book_ISBN . _Conference_state_province . _Conference_abstract_number . _Page_first 273 _Page_last 283 _Year 2011 _Details . loop_ _Keyword RanBP2 RNA-binding stop_ save_ ################################## # Molecular system description # ################################## save_assembly _Saveframe_category molecular_system _Mol_system_name 'RBM5 ZnF' _Enzyme_commission_number . loop_ _Mol_system_component_name _Mol_label 'protein component' $RBM5_ZnF 'zinc ion' $ZN stop_ _System_molecular_weight . _System_physical_state native _System_oligomer_state ? _System_paramagnetic no _System_thiol_state . loop_ _Biological_function RNA-binding stop_ _Database_query_date . _Details . save_ ######################## # Monomeric polymers # ######################## save_RBM5_ZnF _Saveframe_category monomeric_polymer _Mol_type polymer _Mol_polymer_class protein _Name_common RBM5_ZnF _Molecular_mass . _Mol_thiol_state 'all other bound' loop_ _Biological_function RNA-binding stop_ _Details . ############################## # Polymer residue sequence # ############################## _Residue_count 40 _Mol_residue_sequence ; GSSNPRPKFEDWLCNKCCLN NFRKRLKCFRCGADKFDSEQ ; loop_ _Residue_seq_code _Residue_author_seq_code _Residue_label 1 174 GLY 2 175 SER 3 176 SER 4 177 ASN 5 178 PRO 6 179 ARG 7 180 PRO 8 181 LYS 9 182 PHE 10 183 GLU 11 184 ASP 12 185 TRP 13 186 LEU 14 187 CYS 15 188 ASN 16 189 LYS 17 190 CYS 18 191 CYS 19 192 LEU 20 193 ASN 21 194 ASN 22 195 PHE 23 196 ARG 24 197 LYS 25 198 ARG 26 199 LEU 27 200 LYS 28 201 CYS 29 202 PHE 30 203 ARG 31 204 CYS 32 205 GLY 33 206 ALA 34 207 ASP 35 208 LYS 36 209 PHE 37 210 ASP 38 211 SER 39 212 GLU 40 213 GLN stop_ _Sequence_homology_query_date . _Sequence_homology_query_revised_last_date 2015-10-14 loop_ _Database_name _Database_accession_code _Database_entry_mol_name _Sequence_query_to_submitted_percentage _Sequence_subject_length _Sequence_identity _Sequence_positive _Sequence_homology_expectation_value BMRB 17969 RBM5-ZF1 75.00 32 100.00 100.00 3.07e-11 BMRB 17970 RBM5-ZF1 75.00 32 100.00 100.00 3.07e-11 PDB 2LK0 "Solution Structure And Binding Studies Of The Ranbp2-Type Zinc Finger Of Rbm5" 75.00 32 100.00 100.00 3.07e-11 PDB 2LK1 "Solution Structure And Binding Studies Of The Ranbp2-Type Zinc Finger Of Rbm5" 75.00 32 100.00 100.00 3.07e-11 DBJ BAE22042 "unnamed protein product [Mus musculus]" 95.00 815 100.00 100.00 2.39e-20 DBJ BAE27501 "unnamed protein product [Mus musculus]" 95.00 815 100.00 100.00 2.79e-20 DBJ BAE87995 "unnamed protein product [Macaca fascicularis]" 95.00 548 100.00 100.00 1.31e-21 DBJ BAG36742 "unnamed protein product [Homo sapiens]" 95.00 815 100.00 100.00 1.40e-20 DBJ BAG59728 "unnamed protein product [Homo sapiens]" 95.00 643 100.00 100.00 1.56e-20 EMBL CAC69136 "RNA binding motif protein 5 [Mus musculus]" 95.00 815 100.00 100.00 2.79e-20 GB AAA99715 "putative tumor suppressor [Homo sapiens]" 95.00 815 100.00 100.00 1.75e-20 GB AAB42216 "partial CDS, human putative tumor suppressor (U23946) [Homo sapiens]" 95.00 698 100.00 100.00 1.08e-20 GB AAD04159 "RNA binding motif protein 5 [Homo sapiens]" 95.00 815 100.00 100.00 1.40e-20 GB AAF02422 "lung cancer tumor suppressor H37 [Homo sapiens]" 95.00 815 100.00 100.00 1.40e-20 GB AAH19766 "Rbm5 protein, partial [Mus musculus]" 95.00 444 100.00 100.00 4.17e-22 REF NP_001039839 "RNA-binding protein 5 [Bos taurus]" 95.00 815 100.00 100.00 1.51e-20 REF NP_001094018 "RNA-binding protein 5 [Rattus norvegicus]" 95.00 815 100.00 100.00 2.69e-20 REF NP_001248103 "RNA-binding protein 5 [Macaca mulatta]" 95.00 815 100.00 100.00 1.33e-20 REF NP_005769 "RNA-binding protein 5 [Homo sapiens]" 95.00 815 100.00 100.00 1.40e-20 REF NP_683732 "RNA-binding protein 5 [Mus musculus]" 95.00 815 100.00 100.00 2.79e-20 SP B2GV05 "RecName: Full=RNA-binding protein 5; AltName: Full=RNA-binding motif protein 5" 95.00 815 100.00 100.00 2.69e-20 SP P52756 "RecName: Full=RNA-binding protein 5; AltName: Full=Protein G15; AltName: Full=Putative tumor suppressor LUCA15; AltName: Full=R" 95.00 815 100.00 100.00 1.40e-20 SP Q1RMU5 "RecName: Full=RNA-binding protein 5; AltName: Full=Putative tumor suppressor LUCA15; AltName: Full=RNA-binding motif protein 5" 95.00 815 100.00 100.00 1.51e-20 SP Q91YE7 "RecName: Full=RNA-binding protein 5; AltName: Full=Putative tumor suppressor LUCA15; AltName: Full=RNA-binding motif protein 5" 95.00 815 100.00 100.00 2.79e-20 TPG DAA16943 "TPA: RNA-binding protein 5 [Bos taurus]" 95.00 815 100.00 100.00 1.51e-20 stop_ save_ ############# # Ligands # ############# save_ZN _Saveframe_category ligand _Mol_type non-polymer _Name_common "ZN (ZINC ION)" _BMRB_code . _PDB_code ZN _Molecular_mass 65.409 _Mol_charge 2 _Mol_paramagnetic . _Mol_aromatic no _Details ; Information obtained from PDB's Chemical Component Dictionary at http://wwpdb-remediation.rutgers.edu/downloads.html Downloaded on Fri Dec 9 11:09:24 2011 ; loop_ _Atom_name _PDB_atom_name _Atom_type _Atom_chirality _Atom_charge _Atom_oxidation_number _Atom_unpaired_electrons ZN ZN ZN . 2 . ? stop_ _Mol_thiol_state . _Sequence_homology_query_date . save_ #################### # Natural source # #################### save_natural_source _Saveframe_category natural_source loop_ _Mol_label _Organism_name_common _NCBI_taxonomy_ID _Superkingdom _Kingdom _Genus _Species $RBM5_ZnF Human 9606 Eukaryota Metazoa Homo sapiens 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 $RBM5_ZnF 'recombinant technology' . Escherichia coli . pGEX-2T 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 $RBM5_ZnF 1 mM '[U-100% 13C; U-100% 15N]' DTT 1 mM 'natural abundance' 'sodium phosphate' 25 mM 'natural abundance' 'sodium chloride' 100 mM 'natural abundance' DSS 20 uM 'natural abundance' H2O 93 % 'natural abundance' D2O 7 % 'natural abundance' stop_ save_ ############################ # Computer software used # ############################ save_TOPSPIN _Saveframe_category software _Name TOPSPIN _Version . loop_ _Vendor _Address _Electronic_address 'Bruker Biospin' . . stop_ loop_ _Task collection processing stop_ _Details . save_ save_SPARKY _Saveframe_category software _Name SPARKY _Version . loop_ _Vendor _Address _Electronic_address Goddard . . stop_ loop_ _Task 'chemical shift assignment' stop_ _Details . save_ ######################### # Experimental detail # ######################### ################################## # NMR Spectrometer definitions # ################################## save_spectrometer_1 _Saveframe_category NMR_spectrometer _Manufacturer Bruker _Model DRX _Field_strength 600 _Details . save_ ############################# # NMR applied experiments # ############################# save_2D_1H-15N_HSQC_1 _Saveframe_category NMR_applied_experiment _Experiment_name '2D 1H-15N HSQC' _Sample_label $sample_1 save_ save_2D_1H-13C_HSQC_2 _Saveframe_category NMR_applied_experiment _Experiment_name '2D 1H-13C HSQC' _Sample_label $sample_1 save_ save_3D_CBCA(CO)NH_3 _Saveframe_category NMR_applied_experiment _Experiment_name '3D CBCA(CO)NH' _Sample_label $sample_1 save_ save_3D_HNCACB_4 _Saveframe_category NMR_applied_experiment _Experiment_name '3D HNCACB' _Sample_label $sample_1 save_ save_3D_H(CCO)NH_5 _Saveframe_category NMR_applied_experiment _Experiment_name '3D H(CCO)NH' _Sample_label $sample_1 save_ save_NMR_spectrometer_expt _Saveframe_category NMR_applied_experiment _Experiment_name . _BMRB_pulse_sequence_accession_number . _Details . save_ ####################### # Sample conditions # ####################### save_sample_conditions_1 _Saveframe_category sample_conditions _Details . loop_ _Variable_type _Variable_value _Variable_value_error _Variable_value_units 'ionic strength' 0.125 . M pH 6.5 . pH pressure 1 . atm temperature 298 . K stop_ save_ #################### # NMR parameters # #################### ############################## # Assigned chemical shifts # ############################## ################################ # Chemical shift referencing # ################################ save_chemical_shift_reference_1 _Saveframe_category chemical_shift_reference _Details . loop_ _Mol_common_name _Atom_type _Atom_isotope_number _Atom_group _Chem_shift_units _Chem_shift_value _Reference_method _Reference_type _External_reference_sample_geometry _External_reference_location _External_reference_axis _Indirect_shift_ratio _Indirect_shift_ratio_citation_label _Correction_value_citation_label DSS C 13 'methyl protons' ppm 0.00 . indirect . . . 0.251449530 $entry_citation $entry_citation DSS H 1 'methyl protons' ppm 0.00 internal direct . . . 1.000000000 $entry_citation $entry_citation DSS N 15 'methyl protons' ppm 0.00 . indirect . . . 0.101329118 $entry_citation $entry_citation stop_ save_ ################################### # Assigned chemical shift lists # ################################### ################################################################### # Chemical Shift Ambiguity Index Value Definitions # # # # The values other than 1 are used for those atoms with different # # chemical shifts that cannot be assigned to stereospecific atoms # # or to specific residues or chains. # # # # Index Value Definition # # # # 1 Unique (including isolated methyl protons, # # geminal atoms, and geminal methyl # # groups with identical chemical shifts) # # (e.g. ILE HD11, HD12, HD13 protons) # # 2 Ambiguity of geminal atoms or geminal methyl # # proton groups (e.g. ASP HB2 and HB3 # # protons, LEU CD1 and CD2 carbons, or # # LEU HD11, HD12, HD13 and HD21, HD22, # # HD23 methyl protons) # # 3 Aromatic atoms on opposite sides of # # symmetrical rings (e.g. TYR HE1 and HE2 # # protons) # # 4 Intraresidue ambiguities (e.g. LYS HG and # # HD protons or TRP HZ2 and HZ3 protons) # # 5 Interresidue ambiguities (LYS 12 vs. LYS 27) # # 6 Intermolecular ambiguities (e.g. ASP 31 CA # # in monomer 1 and ASP 31 CA in monomer 2 # # of an asymmetrical homodimer, duplex # # DNA assignments, or other assignments # # that may apply to atoms in one or more # # molecule in the molecular assembly) # # 9 Ambiguous, specific ambiguity not defined # # # ################################################################### save_assigned_chem_shift_list_1 _Saveframe_category assigned_chemical_shifts _Details . loop_ _Experiment_label '2D 1H-15N HSQC' '3D CBCA(CO)NH' '3D HNCACB' stop_ loop_ _Sample_label $sample_1 stop_ _Sample_conditions_label $sample_conditions_1 _Chem_shift_reference_set_label $chemical_shift_reference_1 _Mol_system_component_name 'protein component' _Text_data_format . _Text_data . loop_ _Atom_shift_assign_ID _Residue_author_seq_code _Residue_seq_code _Residue_label _Atom_name _Atom_type _Chem_shift_value _Chem_shift_value_error _Chem_shift_ambiguity_code 1 176 3 SER CA C 59.337 0.087 1 2 176 3 SER CB C 63.713 0.069 1 3 177 4 ASN H H 7.916 0.004 1 4 177 4 ASN CA C 55.444 0.000 1 5 177 4 ASN CB C 42.244 0.000 1 6 177 4 ASN N N 123.175 0.044 1 7 179 6 ARG H H 8.396 0.002 1 8 179 6 ARG N N 122.633 0.039 1 9 180 7 PRO CA C 63.043 0.031 1 10 180 7 PRO CB C 32.150 0.006 1 11 181 8 LYS H H 8.347 0.002 1 12 181 8 LYS CA C 56.596 0.049 1 13 181 8 LYS CB C 33.207 0.004 1 14 181 8 LYS N N 121.649 0.034 1 15 182 9 PHE H H 8.325 0.006 1 16 182 9 PHE CA C 57.164 0.071 1 17 182 9 PHE CB C 39.214 0.017 1 18 182 9 PHE N N 120.749 0.039 1 19 183 10 GLU H H 8.205 0.008 1 20 183 10 GLU CA C 55.947 0.069 1 21 183 10 GLU CB C 31.804 0.017 1 22 183 10 GLU N N 121.161 0.019 1 23 184 11 ASP H H 8.221 0.003 1 24 184 11 ASP CA C 55.506 0.099 1 25 184 11 ASP CB C 41.186 0.011 1 26 184 11 ASP N N 122.916 0.053 1 27 185 12 TRP H H 8.559 0.004 1 28 185 12 TRP HE1 H 9.698 0.003 1 29 185 12 TRP CA C 54.070 0.011 1 30 185 12 TRP CB C 31.335 0.022 1 31 185 12 TRP N N 118.146 0.023 1 32 185 12 TRP NE1 N 130.328 0.025 1 33 186 13 LEU H H 8.798 0.007 1 34 186 13 LEU CA C 53.683 0.117 1 35 186 13 LEU CB C 43.397 0.019 1 36 186 13 LEU N N 124.172 0.009 1 37 187 14 CYS H H 8.563 0.002 1 38 187 14 CYS CA C 59.714 0.004 1 39 187 14 CYS CB C 31.132 0.003 1 40 187 14 CYS N N 129.072 0.028 1 41 188 15 ASN H H 9.194 0.004 1 42 188 15 ASN CA C 55.044 0.051 1 43 188 15 ASN CB C 38.625 0.033 1 44 188 15 ASN N N 128.831 0.030 1 45 189 16 LYS H H 9.256 0.004 1 46 189 16 LYS CA C 57.686 0.053 1 47 189 16 LYS CB C 33.020 0.044 1 48 189 16 LYS N N 122.348 0.028 1 49 190 17 CYS H H 8.910 0.002 1 50 190 17 CYS CA C 58.921 0.086 1 51 190 17 CYS CB C 32.031 0.016 1 52 190 17 CYS N N 120.023 0.031 1 53 191 18 CYS H H 7.876 0.002 1 54 191 18 CYS CA C 61.430 0.000 1 55 191 18 CYS CB C 25.302 0.000 1 56 191 18 CYS N N 116.595 0.030 1 57 192 19 LEU CA C 55.703 0.030 1 58 192 19 LEU CB C 43.514 0.108 1 59 193 20 ASN H H 8.476 0.001 1 60 193 20 ASN CA C 53.787 0.061 1 61 193 20 ASN CB C 38.975 0.038 1 62 193 20 ASN N N 124.794 0.027 1 63 194 21 ASN H H 9.201 0.006 1 64 194 21 ASN CA C 52.552 0.016 1 65 194 21 ASN CB C 43.423 0.007 1 66 194 21 ASN N N 124.794 0.074 1 67 195 22 PHE H H 7.817 0.004 1 68 195 22 PHE CA C 57.183 0.000 1 69 195 22 PHE CB C 39.827 0.000 1 70 195 22 PHE N N 119.285 0.018 1 71 197 24 LYS CA C 57.049 0.000 1 72 197 24 LYS CB C 32.411 0.001 1 73 198 25 ARG H H 8.395 0.002 1 74 198 25 ARG CA C 57.334 0.084 1 75 198 25 ARG CB C 31.096 0.012 1 76 198 25 ARG N N 119.864 0.018 1 77 199 26 LEU H H 8.834 0.010 1 78 199 26 LEU CA C 55.572 0.058 1 79 199 26 LEU CB C 42.914 0.054 1 80 199 26 LEU N N 122.664 0.067 1 81 200 27 LYS H H 7.680 0.008 1 82 200 27 LYS CA C 53.585 0.061 1 83 200 27 LYS CB C 36.288 0.006 1 84 200 27 LYS N N 117.915 0.060 1 85 201 28 CYS H H 9.756 0.005 1 86 201 28 CYS CA C 59.418 0.037 1 87 201 28 CYS CB C 31.052 0.022 1 88 201 28 CYS N N 126.409 0.015 1 89 202 29 PHE H H 9.142 0.005 1 90 202 29 PHE CA C 60.473 0.049 1 91 202 29 PHE CB C 40.572 0.025 1 92 202 29 PHE N N 131.654 0.014 1 93 203 30 ARG H H 8.955 0.004 1 94 203 30 ARG CA C 58.231 0.029 1 95 203 30 ARG CB C 32.834 0.000 1 96 203 30 ARG N N 121.215 0.042 1 97 204 31 CYS H H 8.448 0.003 1 98 204 31 CYS CA C 59.176 0.069 1 99 204 31 CYS CB C 32.618 0.008 1 100 204 31 CYS N N 118.779 0.044 1 101 205 32 GLY H H 7.697 0.002 1 102 205 32 GLY CA C 46.282 0.022 1 103 205 32 GLY N N 112.543 0.029 1 104 206 33 ALA H H 8.879 0.001 1 105 206 33 ALA CA C 53.418 0.047 1 106 206 33 ALA CB C 20.942 0.023 1 107 206 33 ALA N N 126.024 0.015 1 108 207 34 ASP H H 8.594 0.002 1 109 207 34 ASP CA C 55.352 0.051 1 110 207 34 ASP CB C 42.561 0.000 1 111 207 34 ASP N N 120.907 0.049 1 112 208 35 LYS H H 7.691 0.004 1 113 208 35 LYS CA C 58.300 0.009 1 114 208 35 LYS CB C 32.668 0.012 1 115 208 35 LYS N N 124.114 0.041 1 116 209 36 PHE H H 7.904 0.005 1 117 209 36 PHE CA C 57.761 0.099 1 118 209 36 PHE CB C 39.309 0.025 1 119 209 36 PHE N N 119.637 0.181 1 120 210 37 ASP H H 7.929 0.002 1 121 210 37 ASP CA C 54.498 0.067 1 122 210 37 ASP CB C 41.399 0.004 1 123 210 37 ASP N N 122.106 0.015 1 124 211 38 SER H H 8.083 0.011 1 125 211 38 SER CA C 58.676 0.026 1 126 211 38 SER CB C 64.184 0.015 1 127 211 38 SER N N 116.080 0.102 1 128 212 39 GLU H H 8.302 0.003 1 129 212 39 GLU CA C 56.759 0.027 1 130 212 39 GLU CB C 30.276 0.068 1 131 212 39 GLU N N 122.696 0.034 1 132 213 40 GLN H H 7.960 0.002 1 133 213 40 GLN CA C 57.543 0.000 1 134 213 40 GLN CB C 30.181 0.000 1 135 213 40 GLN N N 126.353 0.015 1 stop_ save_