data_17444 ####################### # Entry information # ####################### save_entry_information _Saveframe_category entry_information _Entry_title ; transmembrane domain of LR11/SorLA ; _BMRB_accession_number 17444 _BMRB_flat_file_name bmr17444.str _Entry_type original _Submission_date 2011-02-06 _Accession_date 2011-02-06 _Entry_origination author _NMR_STAR_version 2.1.1 _Experimental_method NMR _Details 'backbone assignment of transmembrane domain of LR11/SorLA in DPC' loop_ _Author_ordinal _Author_family_name _Author_given_name _Author_middle_initials _Author_family_title 1 Tian Fang . . 2 Wang Xingsheng . . 3 Gill Richard . . 4 Zhu Qin . . stop_ loop_ _Saveframe_category_type _Saveframe_category_type_count assigned_chemical_shifts 1 stop_ loop_ _Data_type _Data_type_count "1H chemical shifts" 25 "13C chemical shifts" 71 "15N chemical shifts" 25 stop_ loop_ _Revision_date _Revision_keyword _Revision_author _Revision_detail 2011-03-24 update BMRB 'update entry citation' 2011-03-09 original author 'original release' stop_ save_ ############################# # Citation for this entry # ############################# save_entry_citation _Saveframe_category entry_citation _Citation_full . _Citation_title 'Bacterial expression, purification, and model membrane reconstitution of the transmembrane and cytoplasmic domains of the human APP binding protein LR11/SorLA for NMR studies.' _Citation_status published _Citation_type journal _CAS_abstract_code . _MEDLINE_UI_code . _PubMed_ID 21320603 loop_ _Author_ordinal _Author_family_name _Author_given_name _Author_middle_initials _Author_family_title 1 Wang Xingsheng . . 2 Gill Richard L. Jr. 3 Zhu Qin . . 4 Tian Fang . . stop_ _Journal_abbreviation 'Protein Expr. Purif.' _Journal_name_full 'Protein expression and purification' _Journal_volume 77 _Journal_issue 2 _Journal_CSD . _Book_chapter_title . _Book_volume . _Book_series . _Book_ISBN . _Conference_state_province . _Conference_abstract_number . _Page_first 224 _Page_last 230 _Year 2011 _Details . loop_ _Keyword 'Alzheimer s disease' 'Amyloid precursor protein binding protein' LR11 'Membrane protein overexpression' SorLA stop_ save_ ################################## # Molecular system description # ################################## save_assembly _Saveframe_category molecular_system _Mol_system_name LR11_SorLA _Enzyme_commission_number . loop_ _Mol_system_component_name _Mol_label LR11_SorLA $LR11_SorLA stop_ _System_molecular_weight . _System_physical_state native _System_oligomer_state ? _System_paramagnetic no _System_thiol_state . loop_ _Biological_function 'LR11 plays a crucial role in APP trafficking and is a key regulator of APP processing' 'LR11 (SorLA) is a recently identified neuronal protein that interacts with amyloid precursor protein (APP)' stop_ _Database_query_date . _Details . save_ ######################## # Monomeric polymers # ######################## save_LR11_SorLA _Saveframe_category monomeric_polymer _Mol_type polymer _Mol_polymer_class protein _Name_common LR11_SorLA _Molecular_mass . _Mol_thiol_state 'not present' _Details . ############################## # Polymer residue sequence # ############################## _Residue_count 29 _Mol_residue_sequence ; RSTDVAAVVVPILFLILLSL GVGFAILYT ; loop_ _Residue_seq_code _Residue_author_seq_code _Residue_label 1 2132 ARG 2 2133 SER 3 2134 THR 4 2135 ASP 5 2136 VAL 6 2137 ALA 7 2138 ALA 8 2139 VAL 9 2140 VAL 10 2141 VAL 11 2142 PRO 12 2143 ILE 13 2144 LEU 14 2145 PHE 15 2146 LEU 16 2147 ILE 17 2148 LEU 18 2149 LEU 19 2150 SER 20 2151 LEU 21 2152 GLY 22 2153 VAL 23 2154 GLY 24 2155 PHE 25 2156 ALA 26 2157 ILE 27 2158 LEU 28 2159 TYR 29 2160 THR stop_ _Sequence_homology_query_date . _Sequence_homology_query_revised_last_date 2015-01-30 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 DBJ BAA13075 "LR11 [Oryctolagus cuniculus]" 100.00 2213 100.00 100.00 1.55e-08 DBJ BAA31219 "LR11 [Mus musculus]" 100.00 2215 100.00 100.00 1.55e-08 DBJ BAC26276 "unnamed protein product [Mus musculus]" 100.00 220 100.00 100.00 1.99e-08 DBJ BAC40177 "unnamed protein product [Mus musculus]" 100.00 469 100.00 100.00 9.04e-08 DBJ BAE27834 "unnamed protein product [Mus musculus]" 100.00 2215 100.00 100.00 1.55e-08 EMBL CAA69325 "mosaic protein LR11 [Homo sapiens]" 100.00 2214 100.00 100.00 1.55e-08 GB AAC16739 "gp250 precursor [Mus musculus]" 100.00 2033 100.00 100.00 1.53e-08 GB AAC50891 "gp250 precursor [Homo sapiens]" 100.00 2214 100.00 100.00 1.55e-08 GB AAI37172 "Sortilin-related receptor, L(DLR class) A repeats-containing [Homo sapiens]" 100.00 2214 100.00 100.00 1.55e-08 GB AAI56441 "Sortilin-related receptor, LDLR class A repeats-containing, partial [synthetic construct]" 100.00 2215 100.00 100.00 1.55e-08 GB AAI72714 "Sortilin-related receptor, LDLR class A repeats-containing [synthetic construct]" 100.00 2215 100.00 100.00 1.55e-08 REF NP_001076133 "sortilin-related receptor precursor [Oryctolagus cuniculus]" 100.00 2213 100.00 100.00 1.55e-08 REF NP_001179686 "sortilin-related receptor precursor [Bos taurus]" 100.00 2211 100.00 100.00 1.55e-08 REF NP_003096 "sortilin-related receptor preproprotein [Homo sapiens]" 100.00 2214 100.00 100.00 1.55e-08 REF NP_035566 "sortilin-related receptor precursor [Mus musculus]" 100.00 2215 100.00 100.00 1.55e-08 REF XP_001102178 "PREDICTED: sortilin-related receptor-like [Macaca mulatta]" 100.00 2086 100.00 100.00 1.54e-08 SP O88307 "RecName: Full=Sortilin-related receptor; AltName: Full=Gp250; AltName: Full=Low-density lipoprotein receptor relative with 11 l" 100.00 2215 100.00 100.00 1.55e-08 SP Q92673 "RecName: Full=Sortilin-related receptor; AltName: Full=Low-density lipoprotein receptor relative with 11 ligand-binding repeats" 100.00 2214 100.00 100.00 1.55e-08 SP Q95209 "RecName: Full=Sortilin-related receptor; AltName: Full=Low-density lipoprotein receptor relative with 11 ligand-binding repeats" 100.00 2213 100.00 100.00 1.55e-08 TPG DAA22319 "TPA: sortilin-related receptor, L(DLR class) A repeats-containing [Bos taurus]" 100.00 2310 100.00 100.00 1.56e-08 stop_ save_ #################### # Natural source # #################### save_natural_source _Saveframe_category natural_source loop_ _Mol_label _Organism_name_common _NCBI_taxonomy_ID _Superkingdom _Kingdom _Genus _Species $LR11_SorLA 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 _Details $LR11_SorLA 'recombinant technology' . Escherichia coli . pMTTH 'The protein was expressed with MBP-LBT-LR11TM-His6' 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 $LR11_SorLA 1 mM '[U-99% 13C; U-99% 15N]' DPC 128 mM 'natural abundance' stop_ save_ ############################ # Computer software used # ############################ save_NMRPipe _Saveframe_category software _Name NMRPipe _Version . loop_ _Vendor _Address _Electronic_address 'Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax' . . stop_ loop_ _Task 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 Avance _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_3D_HNCA_2 _Saveframe_category NMR_applied_experiment _Experiment_name '3D HNCA' _Sample_label $sample_1 save_ save_3D_HNCACB_3 _Saveframe_category NMR_applied_experiment _Experiment_name '3D HNCACB' _Sample_label $sample_1 save_ save_3D_CBCA(CO)NH_4 _Saveframe_category NMR_applied_experiment _Experiment_name '3D CBCA(CO)NH' _Sample_label $sample_1 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' 0.12 . M pH 7.0 . pH pressure 1 . atm temperature 310 . 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 HNCA' '3D HNCACB' '3D CBCA(CO)NH' 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 LR11_SorLA _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 2132 1 ARG H H 7.913 . 1 2 2132 1 ARG CA C 56.030 . 1 3 2132 1 ARG CB C 30.160 . 1 4 2132 1 ARG N N 116.060 . 1 5 2133 2 SER H H 7.932 . 1 6 2133 2 SER C C 175.320 . . 7 2133 2 SER CA C 60.620 . 1 8 2133 2 SER CB C 63.240 . 1 9 2133 2 SER N N 116.060 . 1 10 2134 3 THR H H 7.844 . 1 11 2134 3 THR C C 175.230 . . 12 2134 3 THR CA C 64.600 . 1 13 2134 3 THR CB C 68.900 . 1 14 2134 3 THR N N 115.410 . 1 15 2135 4 ASP H H 7.860 . 1 16 2135 4 ASP C C 177.510 . . 17 2135 4 ASP CA C 56.180 . 1 18 2135 4 ASP CB C 40.750 . 1 19 2135 4 ASP N N 122.480 . 1 20 2136 5 VAL H H 7.753 . 1 21 2136 5 VAL C C 177.590 . . 22 2136 5 VAL CA C 64.610 . 1 23 2136 5 VAL CB C 31.780 . 1 24 2136 5 VAL N N 117.910 . 1 25 2137 6 ALA H H 8.235 . 1 26 2137 6 ALA C C 177.840 . . 27 2137 6 ALA CA C 55.740 . 1 28 2137 6 ALA CB C 18.460 . 1 29 2137 6 ALA N N 123.810 . 1 30 2138 7 ALA H H 7.792 . 1 31 2138 7 ALA C C 176.450 . . 32 2138 7 ALA CA C 54.510 . 1 33 2138 7 ALA CB C 18.550 . 1 34 2138 7 ALA N N 117.260 . 1 35 2139 8 VAL H H 7.131 . 1 36 2139 8 VAL C C 176.330 . . 37 2139 8 VAL CA C 63.460 . 1 38 2139 8 VAL CB C 32.840 . 1 39 2139 8 VAL N N 111.110 . 1 40 2140 9 VAL H H 7.928 . 1 41 2140 9 VAL C C 176.930 . . 42 2140 9 VAL CA C 66.270 . 1 43 2140 9 VAL CB C 32.300 . 1 44 2140 9 VAL N N 116.750 . 1 45 2141 10 VAL H H 8.321 . 1 46 2141 10 VAL CA C 69.420 . 1 47 2141 10 VAL CB C 28.540 . 1 48 2141 10 VAL N N 118.250 . 1 49 2142 11 PRO C C 177.400 . . 50 2142 11 PRO CA C 66.710 . 1 51 2142 11 PRO CB C 31.060 . 1 52 2143 12 ILE H H 6.913 . 1 53 2143 12 ILE C C 177.150 . . 54 2143 12 ILE CA C 65.540 . 1 55 2143 12 ILE CB C 36.990 . 1 56 2143 12 ILE N N 115.350 . 1 57 2144 13 LEU H H 8.382 . 1 58 2144 13 LEU C C 178.520 . . 59 2144 13 LEU CA C 58.360 . 1 60 2144 13 LEU CB C 41.460 . 1 61 2144 13 LEU N N 120.280 . 1 62 2145 14 PHE H H 8.350 . 1 63 2145 14 PHE CA C 61.710 . 1 64 2145 14 PHE CB C 38.690 . 1 65 2145 14 PHE N N 118.000 . 1 66 2146 15 LEU H H 8.023 . 1 67 2146 15 LEU C C 179.720 . . 68 2146 15 LEU CA C 58.140 . 1 69 2146 15 LEU CB C 41.610 . 1 70 2146 15 LEU N N 119.380 . 1 71 2147 16 ILE H H 8.305 . 1 72 2147 16 ILE CA C 65.540 . 1 73 2147 16 ILE CB C 37.160 . 1 74 2147 16 ILE N N 121.840 . 1 75 2148 17 LEU H H 8.184 . 1 76 2148 17 LEU CA C 58.570 . 1 77 2148 17 LEU CB C 41.510 . 1 78 2148 17 LEU N N 120.290 . 1 79 2149 18 LEU H H 8.351 . 1 80 2149 18 LEU C C 178.280 . . 81 2149 18 LEU CA C 58.290 . 1 82 2149 18 LEU CB C 41.910 . 1 83 2149 18 LEU N N 118.490 . 1 84 2151 20 LEU C C 178.630 . . 85 2151 20 LEU CA C 57.760 . 1 86 2151 20 LEU CB C 41.690 . 1 87 2152 21 GLY H H 8.356 . 1 88 2152 21 GLY C C 174.690 . . 89 2152 21 GLY CA C 47.730 . 1 90 2152 21 GLY N N 106.960 . 1 91 2153 22 VAL H H 8.456 . 1 92 2153 22 VAL C C 177.850 . . 93 2153 22 VAL CA C 66.790 . 1 94 2153 22 VAL CB C 31.170 . 1 95 2153 22 VAL N N 121.410 . 1 96 2154 23 GLY H H 8.447 . 1 97 2154 23 GLY C C 174.900 . . 98 2154 23 GLY CA C 47.730 . 1 99 2154 23 GLY N N 107.650 . 1 100 2155 24 PHE H H 8.824 . 1 101 2155 24 PHE C C 176.970 . . 102 2155 24 PHE CA C 61.720 . 1 103 2155 24 PHE CB C 38.660 . 1 104 2155 24 PHE N N 121.310 . 1 105 2156 25 ALA H H 8.341 . 1 106 2156 25 ALA C C 180.230 . . 107 2156 25 ALA CA C 55.590 . 1 108 2156 25 ALA CB C 18.160 . 1 109 2156 25 ALA N N 121.770 . 1 110 2157 26 ILE H H 8.265 . 1 111 2157 26 ILE CA C 64.900 . 1 112 2157 26 ILE N N 118.240 . 1 113 2158 27 LEU CA C 57.410 . 1 114 2158 27 LEU CB C 42.060 . 1 115 2159 28 TYR H H 8.455 . 1 116 2159 28 TYR CA C 61.650 . 1 117 2159 28 TYR CB C 38.770 . 1 118 2159 28 TYR N N 118.710 . 1 119 2160 29 THR H H 7.705 . 1 120 2160 29 THR CA C 64.560 . 1 121 2160 29 THR N N 110.670 . 1 stop_ save_