data_17386 ####################### # Entry information # ####################### save_entry_information _Saveframe_category entry_information _Entry_title ; RBM10 RanBP2 zinc finger backbone chemical shifts ; _BMRB_accession_number 17386 _BMRB_flat_file_name bmr17386.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 Mackay Joel P. . 3 Nguyen Cuong D. . 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" 76 "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 'RBM10 ZnF' _Enzyme_commission_number . loop_ _Mol_system_component_name _Mol_label 'protein component' $RBM10_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_RBM10_ZnF _Saveframe_category monomeric_polymer _Mol_type polymer _Mol_polymer_class protein _Name_common RBM10_ZnF _Molecular_mass . _Mol_thiol_state 'all other bound' loop_ _Biological_function RNA-binding stop_ _Details . ############################## # Polymer residue sequence # ############################## _Residue_count 41 _Mol_residue_sequence ; GSSDPKPKINEDWLCNKCGV QNFKRREKCFKCGVPKSEAE Q ; loop_ _Residue_seq_code _Residue_author_seq_code _Residue_label 1 205 GLY 2 206 SER 3 207 SER 4 208 ASP 5 209 PRO 6 210 LYS 7 211 PRO 8 212 LYS 9 213 ILE 10 214 ASN 11 215 GLU 12 216 ASP 13 217 TRP 14 218 LEU 15 219 CYS 16 220 ASN 17 221 LYS 18 222 CYS 19 223 GLY 20 224 VAL 21 225 GLN 22 226 ASN 23 227 PHE 24 228 LYS 25 229 ARG 26 230 ARG 27 231 GLU 28 232 LYS 29 233 CYS 30 234 PHE 31 235 LYS 32 236 CYS 33 237 GLY 34 238 VAL 35 239 PRO 36 240 LYS 37 241 SER 38 242 GLU 39 243 ALA 40 244 GLU 41 245 GLN stop_ _Sequence_homology_query_date . _Sequence_homology_query_revised_last_date 2015-07-08 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 25433 entity_1 85.37 43 100.00 100.00 6.77e-16 PDB 2MXV "Nmr Structure Of The First Zinc Finger Domain Of Rbm10" 85.37 43 100.00 100.00 6.77e-16 DBJ BAA09471 "KIAA0122 [Homo sapiens]" 95.12 1010 100.00 100.00 1.89e-18 DBJ BAA12144 "S1-1 protein [Rattus norvegicus]" 95.12 852 100.00 100.00 7.38e-19 DBJ BAC31087 "unnamed protein product [Mus musculus]" 95.12 557 100.00 100.00 1.37e-19 DBJ BAC40753 "unnamed protein product [Mus musculus]" 95.12 853 100.00 100.00 8.80e-19 DBJ BAC65490 "mKIAA0122 protein [Mus musculus]" 95.12 857 100.00 100.00 7.72e-19 EMBL CAD97933 "hypothetical protein [Homo sapiens]" 95.12 995 100.00 100.00 1.35e-18 EMBL CAL37951 "hypothetical protein [synthetic construct]" 95.12 995 100.00 100.00 1.35e-18 GB AAH00681 "RBM10 protein, partial [Homo sapiens]" 95.12 541 100.00 100.00 3.89e-20 GB AAH03089 "RNA binding motif protein 10 [Homo sapiens]" 95.12 852 100.00 100.00 9.60e-19 GB AAH04181 "RNA binding motif protein 10 [Homo sapiens]" 95.12 930 100.00 100.00 1.08e-18 GB AAH04674 "RNA binding motif protein 10 [Mus musculus]" 95.12 930 100.00 100.00 1.16e-18 GB AAH08733 "RNA binding motif protein 10 [Homo sapiens]" 95.12 930 100.00 100.00 1.08e-18 REF NP_001161247 "RNA-binding protein 10 isoform 2 [Mus musculus]" 95.12 929 100.00 100.00 1.19e-18 REF NP_001161248 "RNA-binding protein 10 isoform 3 [Mus musculus]" 95.12 853 100.00 100.00 8.80e-19 REF NP_001191395 "RNA-binding protein 10 isoform 3 [Homo sapiens]" 95.12 853 100.00 100.00 8.63e-19 REF NP_001191396 "RNA-binding protein 10 isoform 4 [Homo sapiens]" 95.12 929 100.00 100.00 1.18e-18 REF NP_001191397 "RNA-binding protein 10 isoform 5 [Homo sapiens]" 95.12 995 100.00 100.00 1.33e-18 SP P70501 "RecName: Full=RNA-binding protein 10; AltName: Full=RNA-binding motif protein 10; AltName: Full=RNA-binding protein S1-1" 95.12 852 100.00 100.00 7.38e-19 SP P98175 "RecName: Full=RNA-binding protein 10; AltName: Full=G patch domain-containing protein 9; AltName: Full=RNA-binding motif protei" 95.12 930 100.00 100.00 1.08e-18 SP Q99KG3 "RecName: Full=RNA-binding protein 10; AltName: Full=RNA-binding motif protein 10" 95.12 930 100.00 100.00 1.16e-18 TPG DAA12902 "TPA: RNA binding motif protein 10 isoform 1 [Bos taurus]" 95.12 995 100.00 100.00 1.87e-18 TPG DAA12903 "TPA: RNA binding motif protein 10 isoform 2 [Bos taurus]" 95.12 852 100.00 100.00 9.60e-19 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 $RBM10_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 $RBM10_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 $RBM10_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_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 1 207 3 SER CA C 58.165 0.029 1 2 207 3 SER CB C 63.778 0.042 1 3 208 4 ASP H H 8.151 0.009 1 4 208 4 ASP CA C 52.851 0.000 1 5 208 4 ASP CB C 40.540 0.000 1 6 208 4 ASP N N 123.804 0.066 1 7 209 5 PRO CA C 63.163 0.005 1 8 209 5 PRO CB C 32.111 0.008 1 9 210 6 LYS H H 8.380 0.006 1 10 210 6 LYS CA C 54.206 0.000 1 11 210 6 LYS CB C 32.275 0.000 1 12 210 6 LYS N N 123.122 0.007 1 13 211 7 PRO CA C 63.085 0.000 1 14 211 7 PRO CB C 32.279 0.047 1 15 212 8 LYS H H 8.475 0.007 1 16 212 8 LYS CA C 56.222 0.014 1 17 212 8 LYS CB C 32.967 0.041 1 18 212 8 LYS N N 122.499 0.013 1 19 213 9 ILE H H 8.199 0.008 1 20 213 9 ILE CA C 61.027 0.038 1 21 213 9 ILE CB C 38.919 0.014 1 22 213 9 ILE N N 122.204 0.046 1 23 214 10 ASN H H 8.582 0.006 1 24 214 10 ASN CA C 53.453 0.040 1 25 214 10 ASN CB C 39.035 0.013 1 26 214 10 ASN N N 122.935 0.016 1 27 215 11 GLU H H 8.411 0.004 1 28 215 11 GLU CA C 56.201 0.030 1 29 215 11 GLU CB C 31.468 0.010 1 30 215 11 GLU N N 121.276 0.021 1 31 216 12 ASP H H 8.217 0.004 1 32 216 12 ASP CA C 55.184 0.030 1 33 216 12 ASP CB C 41.382 0.018 1 34 216 12 ASP N N 122.021 0.074 1 35 217 13 TRP H H 8.458 0.001 1 36 217 13 TRP CA C 54.324 0.029 1 37 217 13 TRP CB C 31.285 0.029 1 38 217 13 TRP N N 118.389 0.018 1 39 218 14 LEU H H 8.821 0.005 1 40 218 14 LEU CA C 53.681 0.057 1 41 218 14 LEU CB C 43.610 0.032 1 42 218 14 LEU N N 123.879 0.014 1 43 219 15 CYS H H 8.637 0.001 1 44 219 15 CYS CA C 59.743 0.017 1 45 219 15 CYS CB C 31.275 0.035 1 46 219 15 CYS N N 128.305 0.011 1 47 220 16 ASN H H 9.195 0.002 1 48 220 16 ASN CA C 55.123 0.022 1 49 220 16 ASN CB C 38.696 0.009 1 50 220 16 ASN N N 129.049 0.026 1 51 221 17 LYS H H 9.289 0.001 1 52 221 17 LYS CA C 57.502 0.014 1 53 221 17 LYS CB C 32.683 0.040 1 54 221 17 LYS N N 122.409 0.032 1 55 222 18 CYS H H 9.014 0.003 1 56 222 18 CYS CA C 59.638 0.030 1 57 222 18 CYS CB C 32.410 0.025 1 58 222 18 CYS N N 120.774 0.032 1 59 223 19 GLY H H 7.870 0.005 1 60 223 19 GLY CA C 46.419 0.000 1 61 223 19 GLY N N 112.202 0.033 1 62 224 20 VAL CA C 61.611 0.002 1 63 224 20 VAL CB C 33.389 0.022 1 64 225 21 GLN H H 8.254 0.003 1 65 225 21 GLN CA C 55.693 0.027 1 66 225 21 GLN CB C 29.704 0.007 1 67 225 21 GLN N N 123.132 0.022 1 68 226 22 ASN H H 9.081 0.002 1 69 226 22 ASN CA C 52.289 0.015 1 70 226 22 ASN CB C 43.347 0.036 1 71 226 22 ASN N N 124.200 0.023 1 72 227 23 PHE H H 7.883 0.004 1 73 227 23 PHE CA C 57.137 0.035 1 74 227 23 PHE CB C 40.234 0.022 1 75 227 23 PHE N N 118.832 0.036 1 76 228 24 LYS H H 8.540 0.005 1 77 228 24 LYS CA C 59.109 0.000 1 78 228 24 LYS CB C 32.576 0.000 1 79 228 24 LYS N N 121.841 0.032 1 80 229 25 ARG CA C 56.791 0.017 1 81 229 25 ARG CB C 29.776 0.018 1 82 230 26 ARG H H 8.382 0.001 1 83 230 26 ARG CA C 57.302 0.015 1 84 230 26 ARG CB C 31.091 0.020 1 85 230 26 ARG N N 120.779 0.007 1 86 231 27 GLU H H 8.996 0.005 1 87 231 27 GLU CA C 57.339 0.032 1 88 231 27 GLU CB C 30.818 0.060 1 89 231 27 GLU N N 121.427 0.027 1 90 232 28 LYS H H 7.908 0.001 1 91 232 28 LYS CA C 54.317 0.028 1 92 232 28 LYS CB C 35.731 0.003 1 93 232 28 LYS N N 118.021 0.041 1 94 233 29 CYS H H 8.707 0.001 1 95 233 29 CYS CA C 59.488 0.009 1 96 233 29 CYS CB C 31.001 0.042 1 97 233 29 CYS N N 125.984 0.033 1 98 234 30 PHE H H 9.401 0.003 1 99 234 30 PHE CA C 59.904 0.042 1 100 234 30 PHE CB C 38.466 0.004 1 101 234 30 PHE N N 130.829 0.020 1 102 235 31 LYS H H 8.802 0.002 1 103 235 31 LYS CA C 57.451 0.020 1 104 235 31 LYS CB C 33.390 0.009 1 105 235 31 LYS N N 125.945 0.030 1 106 236 32 CYS H H 8.443 0.001 1 107 236 32 CYS CA C 59.279 0.045 1 108 236 32 CYS CB C 32.071 0.023 1 109 236 32 CYS N N 119.294 0.021 1 110 237 33 GLY H H 7.561 0.001 1 111 237 33 GLY CA C 46.429 0.012 1 112 237 33 GLY N N 112.147 0.020 1 113 238 34 VAL H H 8.175 0.001 1 114 238 34 VAL CA C 61.834 0.000 1 115 238 34 VAL CB C 32.297 0.000 1 116 238 34 VAL N N 123.927 0.024 1 117 239 35 PRO CA C 63.117 0.010 1 118 239 35 PRO CB C 32.779 0.068 1 119 240 36 LYS H H 7.899 0.002 1 120 240 36 LYS CA C 58.418 0.055 1 121 240 36 LYS CB C 32.672 0.037 1 122 240 36 LYS N N 124.123 0.011 1 123 241 37 SER H H 8.138 0.006 1 124 241 37 SER CA C 59.104 0.035 1 125 241 37 SER CB C 63.354 0.039 1 126 241 37 SER N N 114.750 0.010 1 127 242 38 GLU H H 7.969 0.002 1 128 242 38 GLU CA C 56.876 0.015 1 129 242 38 GLU CB C 30.529 0.025 1 130 242 38 GLU N N 122.261 0.028 1 131 243 39 ALA H H 8.243 0.004 1 132 243 39 ALA CA C 53.058 0.019 1 133 243 39 ALA CB C 20.293 0.026 1 134 243 39 ALA N N 124.136 0.021 1 135 244 40 GLU H H 8.185 0.003 1 136 244 40 GLU CA C 56.656 0.044 1 137 244 40 GLU CB C 30.312 0.019 1 138 244 40 GLU N N 118.933 0.028 1 139 245 41 GLN H H 7.814 0.002 1 140 245 41 GLN CA C 57.646 0.000 1 141 245 41 GLN CB C 30.351 0.000 1 142 245 41 GLN N N 126.017 0.029 1 stop_ save_