data_17055 ####################### # Entry information # ####################### save_entry_information _Saveframe_category entry_information _Entry_title ; Binding Site Structure of One LRP-RAP Complex Implications for a Common Ligand-Receptor Binding Motif ; _BMRB_accession_number 17055 _BMRB_flat_file_name bmr17055.str _Entry_type original _Submission_date 2010-07-13 _Accession_date 2010-07-13 _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 Jensen Gitte A. . 2 Andersen Olav M. . 3 Bonvin Alexandre M.J.J. . 4 Bjerrum-Bohr Ida . . 5 Etzerodt Michael . . 6 Thogersen Hans C. . 7 O'Shea Charlotte . . 8 Poulsen Flemming M. . 9 Kragelund Birthe B. . stop_ loop_ _Saveframe_category_type _Saveframe_category_type_count binding_constants 1 stop_ loop_ _Revision_date _Revision_keyword _Revision_author _Revision_detail 2010-09-08 original author . stop_ _Original_release_date 2010-09-08 save_ ############################# # Citation for this entry # ############################# save_entry_citation _Saveframe_category entry_citation _Citation_full . _Citation_title 'Binding Site Structure of One LRP-RAP Complex: Implications for a Common Ligand-Receptor Binding Motif' _Citation_status published _Citation_type journal _CAS_abstract_code . _MEDLINE_UI_code . _PubMed_ID 16938309 loop_ _Author_ordinal _Author_family_name _Author_given_name _Author_middle_initials _Author_family_title 1 Jensen Gitte A. . 2 Andersen Olav M. . 3 Bonvin Alexandre M.J.J. . 4 Bjerrum-Bohr Ida . . 5 Etzerodt Michael . . 6 Thogersen Hans C. . 7 O'Shea Charlotte . . 8 Poulsen Flemming M. . 9 Kragelund Birthe . . stop_ _Journal_abbreviation 'J. Mol. Biol.' _Journal_volume 362 _Journal_issue 4 _Journal_CSD . _Book_chapter_title . _Book_volume . _Book_series . _Book_ISBN . _Conference_state_province . _Conference_abstract_number . _Page_first 700 _Page_last 716 _Year 2006 _Details . save_ ################################## # Molecular system description # ################################## save_assembly _Saveframe_category molecular_system _Mol_system_name 'CR56/RAPd1 complex' _Enzyme_commission_number . loop_ _Mol_system_component_name _Mol_label CR56 $CR56 RAPd1 $RAPd1 stop_ _System_molecular_weight . _System_physical_state native _System_oligomer_state ? _System_paramagnetic no _System_thiol_state . _Database_query_date . _Details . save_ ######################## # Monomeric polymers # ######################## save_CR56 _Saveframe_category monomeric_polymer _Mol_type polymer _Mol_polymer_class protein _Name_common CR56 _Molecular_mass . _Mol_thiol_state 'not reported' _Details . ############################## # Polymer residue sequence # ############################## _Residue_count 82 _Mol_residue_sequence ; SARTCPPNQFSCASGRCIPI SWTCDLDDDCGDRSDESASC AYPTCFPLTQFTCNNGRCIN INWRCDNDNDCGDNSDEAGC SH ; loop_ _Residue_seq_code _Residue_label 1 SER 2 ALA 3 ARG 4 THR 5 CYS 6 PRO 7 PRO 8 ASN 9 GLN 10 PHE 11 SER 12 CYS 13 ALA 14 SER 15 GLY 16 ARG 17 CYS 18 ILE 19 PRO 20 ILE 21 SER 22 TRP 23 THR 24 CYS 25 ASP 26 LEU 27 ASP 28 ASP 29 ASP 30 CYS 31 GLY 32 ASP 33 ARG 34 SER 35 ASP 36 GLU 37 SER 38 ALA 39 SER 40 CYS 41 ALA 42 TYR 43 PRO 44 THR 45 CYS 46 PHE 47 PRO 48 LEU 49 THR 50 GLN 51 PHE 52 THR 53 CYS 54 ASN 55 ASN 56 GLY 57 ARG 58 CYS 59 ILE 60 ASN 61 ILE 62 ASN 63 TRP 64 ARG 65 CYS 66 ASP 67 ASN 68 ASP 69 ASN 70 ASP 71 CYS 72 GLY 73 ASP 74 ASN 75 SER 76 ASP 77 GLU 78 ALA 79 GLY 80 CYS 81 SER 82 HIS stop_ _Sequence_homology_query_date . _Sequence_homology_query_revised_last_date 2015-02-05 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 PDB 2FYJ "Nmr Solution Structure Of Calcium-Loaded Lrp Double Module" 100.00 82 100.00 100.00 4.99e-50 PDB 2FYL "Haddock Model Of The Complex Between Double Module Of Lrp, Cr56, And First Domain Of Receptor Associated Protein, Rap- D1" 100.00 82 100.00 100.00 4.99e-50 stop_ save_ save_RAPd1 _Saveframe_category monomeric_polymer _Mol_type polymer _Mol_polymer_class protein _Name_common RAPd1 _Molecular_mass . _Mol_thiol_state 'not present' _Details . _Residue_count 81 _Mol_residue_sequence ; GEEFRMEKLNQLWEKAQRLH LPPVRLAELHADLKIQERDE LAWKKLKLDGLDEDGEKEAR LIRNLNVILAKYGLDGKKDA R ; loop_ _Residue_seq_code _Residue_label 1 GLY 2 GLU 3 GLU 4 PHE 5 ARG 6 MET 7 GLU 8 LYS 9 LEU 10 ASN 11 GLN 12 LEU 13 TRP 14 GLU 15 LYS 16 ALA 17 GLN 18 ARG 19 LEU 20 HIS 21 LEU 22 PRO 23 PRO 24 VAL 25 ARG 26 LEU 27 ALA 28 GLU 29 LEU 30 HIS 31 ALA 32 ASP 33 LEU 34 LYS 35 ILE 36 GLN 37 GLU 38 ARG 39 ASP 40 GLU 41 LEU 42 ALA 43 TRP 44 LYS 45 LYS 46 LEU 47 LYS 48 LEU 49 ASP 50 GLY 51 LEU 52 ASP 53 GLU 54 ASP 55 GLY 56 GLU 57 LYS 58 GLU 59 ALA 60 ARG 61 LEU 62 ILE 63 ARG 64 ASN 65 LEU 66 ASN 67 VAL 68 ILE 69 LEU 70 ALA 71 LYS 72 TYR 73 GLY 74 LEU 75 ASP 76 GLY 77 LYS 78 LYS 79 ASP 80 ALA 81 ARG 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 BMRB 16454 RBD 100.00 357 98.77 98.77 1.92e-44 BMRB 5598 Domain_1_of_RAP 100.00 102 100.00 100.00 4.18e-48 PDB 1LRE "Receptor Associated Protein (Rap) Domain 1, Nmr, 20 Structures" 100.00 81 100.00 100.00 1.76e-47 PDB 1NRE "Receptor Associated Protein (Rap) Domain 1, Nmr, Minimized Average Structure" 100.00 81 100.00 100.00 1.76e-47 PDB 1OP1 "Solution Nmr Structure Of Domain 1 Of Receptor Associated Protein" 100.00 82 100.00 100.00 1.41e-47 PDB 1OV2 "Ensemble Of The Solution Structures Of Domain One Of Receptor Associated Protein" 100.00 99 100.00 100.00 5.91e-48 PDB 2FYL "Haddock Model Of The Complex Between Double Module Of Lrp, Cr56, And First Domain Of Receptor Associated Protein, Rap- D1" 100.00 81 100.00 100.00 1.76e-47 PDB 2P01 "The Structure Of Receptor-Associated Protein(Rap)" 100.00 323 100.00 100.00 2.57e-46 PDB 2P03 "The Structure Of Receptor-Associated Protein(Rap)" 100.00 323 100.00 100.00 2.57e-46 DBJ BAD96224 "low density lipoprotein receptor-related protein associated protein 1 variant [Homo sapiens]" 100.00 357 100.00 100.00 1.05e-45 DBJ BAD96247 "low density lipoprotein receptor-related protein associated protein 1 variant [Homo sapiens]" 100.00 357 98.77 98.77 1.54e-44 DBJ BAE01566 "unnamed protein product [Macaca fascicularis]" 100.00 194 97.53 100.00 9.30e-46 DBJ BAE87201 "unnamed protein product [Macaca fascicularis]" 100.00 358 97.53 100.00 2.09e-44 DBJ BAF85010 "unnamed protein product [Homo sapiens]" 100.00 357 100.00 100.00 1.10e-45 EMBL CAH90295 "hypothetical protein [Pongo abelii]" 100.00 358 98.77 98.77 6.73e-45 GB AAA51553 "alpha-2-macroglobulin receptor-associated protein [Homo sapiens]" 100.00 357 100.00 100.00 9.99e-46 GB AAC67373 "lipoprotein receptor associated protein [Homo sapiens]" 100.00 357 100.00 100.00 9.99e-46 GB AAI05075 "Low density lipoprotein receptor-related protein associated protein 1 [Homo sapiens]" 100.00 357 100.00 100.00 9.99e-46 GB AAI12068 "Low density lipoprotein receptor-related protein associated protein 1 [Homo sapiens]" 100.00 357 100.00 100.00 9.99e-46 GB AAY18903 "lipoprotein receptor associated protein; alpha-2-macroglobulin receptor-associated protein [synthetic construct]" 100.00 381 100.00 100.00 1.15e-45 REF NP_001125136 "alpha-2-macroglobulin receptor-associated protein precursor [Pongo abelii]" 100.00 358 98.77 98.77 6.73e-45 REF NP_001233320 "alpha-2-macroglobulin receptor-associated protein precursor [Pan troglodytes]" 100.00 357 100.00 100.00 8.61e-46 REF NP_002328 "alpha-2-macroglobulin receptor-associated protein precursor [Homo sapiens]" 100.00 357 100.00 100.00 9.99e-46 REF XP_001085674 "PREDICTED: alpha-2-macroglobulin receptor-associated protein [Macaca mulatta]" 100.00 358 97.53 100.00 2.13e-44 REF XP_003279069 "PREDICTED: alpha-2-macroglobulin receptor-associated protein [Nomascus leucogenys]" 100.00 460 98.77 100.00 3.35e-44 SP P30533 "RecName: Full=Alpha-2-macroglobulin receptor-associated protein; Short=Alpha-2-MRAP; AltName: Full=Low density lipoprotein rece" 100.00 357 100.00 100.00 9.99e-46 stop_ save_ #################### # Natural source # #################### save_natural_source _Saveframe_category natural_source loop_ _Mol_label _Organism_name_common _NCBI_taxonomy_ID _Superkingdom _Kingdom _Genus _Species $CR56 Human 9606 Eukaryota Metazoa Homo sapiens $RAPd1 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 _Variant _Vector_name $CR56 'recombinant technology' . Escherichia coli BL21 DE3 na $RAPd1 'recombinant technology' . Escherichia coli BL21 DE3 na stop_ save_ ##################################### # Sample contents and methodology # ##################################### ######################## # Sample description # ######################## save_sample_1 _Saveframe_category sample _Sample_type solution _Details 'RAPd1 was titrated into solution in 10 steps' loop_ _Mol_label _Concentration_value _Concentration_value_units _Concentration_min_value _Concentration_max_value _Isotopic_labeling $CR56 20 uM . . [U-15N] $RAPd1 . uM 0 40 'natural abundance' 'sodium chloride' 100 mM . . 'natural abundance' 'calcium chloride' 10 mM . . 'natural abundance' 'magnesium chloride' 1 mM . . 'natural abundance' H2O 90 % . . 'natural abundance' D2O 10 % . . 'natural abundance' stop_ save_ ############################ # Computer software used # ############################ save_NACCESS _Saveframe_category software _Name NACCESS _Version . loop_ _Vendor _Address _Electronic_address 'Hubbard, S. J. and Thornton, J. M. (1993)' . . stop_ loop_ _Task 'data analysis' stop_ _Details . save_ 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_PRONTO3D _Saveframe_category software _Name PRONTO3D _Version . loop_ _Vendor _Address _Electronic_address 'Kj r, M., Andersen, K. V. & Poulsen, F. M. (1994).' . . stop_ loop_ _Task 'data analysis' stop_ _Details . save_ ######################### # Experimental detail # ######################### ################################## # NMR Spectrometer definitions # ################################## save_spectrometer_1 _Saveframe_category NMR_spectrometer _Manufacturer Varian _Model Unity _Field_strength 750 _Details . save_ save_spectrometer_2 _Saveframe_category NMR_spectrometer _Manufacturer Varian _Model Unity _Field_strength 800 _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_ ####################### # Sample conditions # ####################### save_sample_conditions_1 _Saveframe_category sample_conditions _Details . loop_ _Variable_type _Variable_value _Variable_value_error _Variable_value_units pH 7.0 . pH pressure 1 . atm temperature 298 . K stop_ save_