data_2LRV # _entry.id 2LRV # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.371 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 2LRV pdb_00002lrv 10.2210/pdb2lrv/pdb RCSB RCSB102755 ? ? BMRB 18283 ? ? WWPDB D_1000102755 ? ? # _pdbx_database_related.db_id 18283 _pdbx_database_related.db_name BMRB _pdbx_database_related.content_type unspecified _pdbx_database_related.details . # _pdbx_database_status.deposit_site BMRB _pdbx_database_status.entry_id 2LRV _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2012-04-13 _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code REL _pdbx_database_status.status_code_mr REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_cs REL _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data REL # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Wu, K.' 1 'Inouye, M.' 2 'Baum, J.' 3 'Hsu, S.' 4 'Masuda, H.' 5 # _citation.id primary _citation.title 'Solution structure of homodimeric periplasmic protein YmgD in E. coli' _citation.journal_abbrev 'To be Published' _citation.journal_volume ? _citation.page_first ? _citation.page_last ? _citation.year ? _citation.journal_id_ASTM ? _citation.country ? _citation.journal_id_ISSN ? _citation.journal_id_CSD 0353 _citation.book_publisher ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_DOI ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Wu, K.' 1 ? primary 'Masuda, H.' 2 ? primary 'Hsu, S.D.' 3 ? primary 'Baum, J.' 4 ? primary 'Inouye, M.' 5 ? # _entity.id 1 _entity.type polymer _entity.src_method man _entity.pdbx_description 'Uncharacterized protein ymgD' _entity.formula_weight 9737.120 _entity.pdbx_number_of_molecules 1 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment 'UNP residues 20-109' _entity.details ? # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code ;QDYNIKNGLPSETYITCAEANEMAKTDSAQVAEIVAVMGNASVASRDLKIEQSPELSAKVVEKLNQVCAKDPQMLLITAI DDTMRAIGKK ; _entity_poly.pdbx_seq_one_letter_code_can ;QDYNIKNGLPSETYITCAEANEMAKTDSAQVAEIVAVMGNASVASRDLKIEQSPELSAKVVEKLNQVCAKDPQMLLITAI DDTMRAIGKK ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 GLN n 1 2 ASP n 1 3 TYR n 1 4 ASN n 1 5 ILE n 1 6 LYS n 1 7 ASN n 1 8 GLY n 1 9 LEU n 1 10 PRO n 1 11 SER n 1 12 GLU n 1 13 THR n 1 14 TYR n 1 15 ILE n 1 16 THR n 1 17 CYS n 1 18 ALA n 1 19 GLU n 1 20 ALA n 1 21 ASN n 1 22 GLU n 1 23 MET n 1 24 ALA n 1 25 LYS n 1 26 THR n 1 27 ASP n 1 28 SER n 1 29 ALA n 1 30 GLN n 1 31 VAL n 1 32 ALA n 1 33 GLU n 1 34 ILE n 1 35 VAL n 1 36 ALA n 1 37 VAL n 1 38 MET n 1 39 GLY n 1 40 ASN n 1 41 ALA n 1 42 SER n 1 43 VAL n 1 44 ALA n 1 45 SER n 1 46 ARG n 1 47 ASP n 1 48 LEU n 1 49 LYS n 1 50 ILE n 1 51 GLU n 1 52 GLN n 1 53 SER n 1 54 PRO n 1 55 GLU n 1 56 LEU n 1 57 SER n 1 58 ALA n 1 59 LYS n 1 60 VAL n 1 61 VAL n 1 62 GLU n 1 63 LYS n 1 64 LEU n 1 65 ASN n 1 66 GLN n 1 67 VAL n 1 68 CYS n 1 69 ALA n 1 70 LYS n 1 71 ASP n 1 72 PRO n 1 73 GLN n 1 74 MET n 1 75 LEU n 1 76 LEU n 1 77 ILE n 1 78 THR n 1 79 ALA n 1 80 ILE n 1 81 ASP n 1 82 ASP n 1 83 THR n 1 84 MET n 1 85 ARG n 1 86 ALA n 1 87 ILE n 1 88 GLY n 1 89 LYS n 1 90 LYS n # _entity_src_gen.entity_id 1 _entity_src_gen.pdbx_src_id 1 _entity_src_gen.pdbx_alt_source_flag sample _entity_src_gen.pdbx_seq_type ? _entity_src_gen.pdbx_beg_seq_num ? _entity_src_gen.pdbx_end_seq_num ? _entity_src_gen.gene_src_common_name ? _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene 'ymgD, b1171, JW5177' _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain K12 _entity_src_gen.gene_src_tissue ? _entity_src_gen.gene_src_tissue_fraction ? _entity_src_gen.gene_src_details ? _entity_src_gen.pdbx_gene_src_fragment ? _entity_src_gen.pdbx_gene_src_scientific_name 'Escherichia coli' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 83333 _entity_src_gen.pdbx_gene_src_variant ? _entity_src_gen.pdbx_gene_src_cell_line ? _entity_src_gen.pdbx_gene_src_atcc ? _entity_src_gen.pdbx_gene_src_organ ? _entity_src_gen.pdbx_gene_src_organelle ? _entity_src_gen.pdbx_gene_src_cell ? _entity_src_gen.pdbx_gene_src_cellular_location ? _entity_src_gen.host_org_common_name ? _entity_src_gen.pdbx_host_org_scientific_name 'Escherichia coli' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 469008 _entity_src_gen.host_org_genus ? _entity_src_gen.pdbx_host_org_gene ? _entity_src_gen.pdbx_host_org_organ ? _entity_src_gen.host_org_species ? _entity_src_gen.pdbx_host_org_tissue ? _entity_src_gen.pdbx_host_org_tissue_fraction ? _entity_src_gen.pdbx_host_org_strain BL21 _entity_src_gen.pdbx_host_org_variant DE3 _entity_src_gen.pdbx_host_org_cell_line ? _entity_src_gen.pdbx_host_org_atcc ? _entity_src_gen.pdbx_host_org_culture_collection ? _entity_src_gen.pdbx_host_org_cell ? _entity_src_gen.pdbx_host_org_organelle ? _entity_src_gen.pdbx_host_org_cellular_location ? _entity_src_gen.pdbx_host_org_vector_type ? _entity_src_gen.pdbx_host_org_vector pET21c _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name ? _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code YMGD_ECOLI _struct_ref.pdbx_db_accession P0AB46 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;QDYNIKNGLPSETYITCAEANEMAKTDSAQVAEIVAVMGNASVASRDLKIEQSPELSAKVVEKLNQVCAKDPQMLLITAI DDTMRAIGKK ; _struct_ref.pdbx_align_begin 20 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 2LRV _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 90 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession P0AB46 _struct_ref_seq.db_align_beg 20 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 109 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 90 # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.211 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # loop_ _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.solution_id _pdbx_nmr_exptl.type 1 1 1 '2D 1H-15N HSQC' 1 2 1 '2D 1H-13C HSQC' 1 3 1 '2D 1H-13C HSQC aliphatic' 1 4 1 '3D HNCO' 1 5 1 '3D HN(CA)CO' 1 6 1 '3D C(CO)NH' 1 7 1 '3D HNCACB' 1 8 1 '3D H(CCO)NH' 1 9 1 '3D HCCH-TOCSY' 1 10 1 '3D CBCA(CO)NH' 1 11 1 '3D 1H-15N NOESY' 1 12 1 '3D 1H-15N TOCSY' 1 13 1 '3D 1H-13C NOESY' # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.ionic_strength 0.05 _pdbx_nmr_exptl_sample_conditions.pH 5 _pdbx_nmr_exptl_sample_conditions.pressure ambient _pdbx_nmr_exptl_sample_conditions.pressure_units ? _pdbx_nmr_exptl_sample_conditions.temperature 308 _pdbx_nmr_exptl_sample_conditions.temperature_units K # _pdbx_nmr_sample_details.contents '0.4 mM [U-99% 13C; U-99% 15N] YmgD, 90 % H2O, 10 % D2O, 100 mM Sodium acetate, 50 mM NaCl, 90% H2O/10% D2O' _pdbx_nmr_sample_details.solution_id 1 _pdbx_nmr_sample_details.solvent_system '90% H2O/10% D2O' # _pdbx_nmr_spectrometer.field_strength 800 _pdbx_nmr_spectrometer.manufacturer Varian _pdbx_nmr_spectrometer.model INOVA _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.type 'Varian INOVA' # _pdbx_nmr_refine.entry_id 2LRV _pdbx_nmr_refine.method 'simulated annealing' _pdbx_nmr_refine.details 'NOE, Dihedral angles, RDC and symmetry restraints, explicit solvent refinement and full electrostatics' _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_ensemble.average_constraint_violations_per_residue ? _pdbx_nmr_ensemble.average_constraints_per_residue ? _pdbx_nmr_ensemble.average_distance_constraint_violation ? _pdbx_nmr_ensemble.average_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.conformer_selection_criteria 'structures with the lowest energy' _pdbx_nmr_ensemble.conformers_calculated_total_number 200 _pdbx_nmr_ensemble.conformers_submitted_total_number 20 _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.entry_id 2LRV _pdbx_nmr_ensemble.maximum_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_lower_distance_constraint_violation 0.2 _pdbx_nmr_ensemble.maximum_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.maximum_upper_distance_constraint_violation 0.5 _pdbx_nmr_ensemble.torsion_angle_constraint_violation_method ? # _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.entry_id 2LRV _pdbx_nmr_representative.selection_criteria 'lowest energy' # loop_ _pdbx_nmr_software.authors _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.ordinal 'Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax' processing NMRPipe ? 1 Goddard 'chemical shift assignment' Sparky ? 2 'Schwieters, Kuszewski, Tjandra and Clore' refinement Xplor-NIH ? 3 # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.crystals_number ? _exptl.details ? _exptl.entry_id 2LRV _exptl.method 'SOLUTION NMR' _exptl.method_details ? # _struct.entry_id 2LRV _struct.title 'Assignment of E coli periplasmic protein YmgD' _struct.pdbx_model_details 'lowest energy, model 1' _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2LRV _struct_keywords.pdbx_keywords 'UNKNOWN FUNCTION' _struct_keywords.text 'UNKNOWN FUNCTION' # _struct_asym.id A _struct_asym.pdbx_blank_PDB_chainid_flag N _struct_asym.pdbx_modified N _struct_asym.entity_id 1 _struct_asym.details ? # _struct_biol.id 1 _struct_biol.details ? # loop_ _struct_conf.conf_type_id _struct_conf.id _struct_conf.pdbx_PDB_helix_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_seq_id _struct_conf.pdbx_beg_PDB_ins_code _struct_conf.end_label_comp_id _struct_conf.end_label_asym_id _struct_conf.end_label_seq_id _struct_conf.pdbx_end_PDB_ins_code _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_seq_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.details _struct_conf.pdbx_PDB_helix_length HELX_P HELX_P1 1 PRO A 10 ? ILE A 15 ? PRO A 10 ILE A 15 1 ? 6 HELX_P HELX_P2 2 THR A 16 ? LYS A 25 ? THR A 16 LYS A 25 1 ? 10 HELX_P HELX_P3 3 ASP A 27 ? ASP A 47 ? ASP A 27 ASP A 47 1 ? 21 HELX_P HELX_P4 4 SER A 53 ? ASP A 71 ? SER A 53 ASP A 71 1 ? 19 HELX_P HELX_P5 5 LEU A 75 ? ILE A 87 ? LEU A 75 ILE A 87 1 ? 13 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # _struct_conn.id disulf1 _struct_conn.conn_type_id disulf _struct_conn.pdbx_leaving_atom_flag ? _struct_conn.pdbx_PDB_id ? _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 17 _struct_conn.ptnr1_label_atom_id SG _struct_conn.pdbx_ptnr1_label_alt_id ? _struct_conn.pdbx_ptnr1_PDB_ins_code ? _struct_conn.pdbx_ptnr1_standard_comp_id ? _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id A _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 68 _struct_conn.ptnr2_label_atom_id SG _struct_conn.pdbx_ptnr2_label_alt_id ? _struct_conn.pdbx_ptnr2_PDB_ins_code ? _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 17 _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 68 _struct_conn.ptnr2_symmetry 1_555 _struct_conn.pdbx_ptnr3_label_atom_id ? _struct_conn.pdbx_ptnr3_label_seq_id ? _struct_conn.pdbx_ptnr3_label_comp_id ? _struct_conn.pdbx_ptnr3_label_asym_id ? _struct_conn.pdbx_ptnr3_label_alt_id ? _struct_conn.pdbx_ptnr3_PDB_ins_code ? _struct_conn.details ? _struct_conn.pdbx_dist_value 2.018 _struct_conn.pdbx_value_order ? _struct_conn.pdbx_role ? # _struct_conn_type.id disulf _struct_conn_type.criteria ? _struct_conn_type.reference ? # _atom_sites.entry_id 2LRV _atom_sites.fract_transf_matrix[1][1] 1.000000 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 1.000000 _atom_sites.fract_transf_matrix[2][3] 0.000000 _atom_sites.fract_transf_matrix[3][1] 0.000000 _atom_sites.fract_transf_matrix[3][2] 0.000000 _atom_sites.fract_transf_matrix[3][3] 1.000000 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C H N O S # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 GLN 1 1 ? ? ? A . n A 1 2 ASP 2 2 ? ? ? A . n A 1 3 TYR 3 3 ? ? ? A . n A 1 4 ASN 4 4 ? ? ? A . n A 1 5 ILE 5 5 ? ? ? A . n A 1 6 LYS 6 6 ? ? ? A . n A 1 7 ASN 7 7 7 ASN ASN A . n A 1 8 GLY 8 8 8 GLY GLY A . n A 1 9 LEU 9 9 9 LEU LEU A . n A 1 10 PRO 10 10 10 PRO PRO A . n A 1 11 SER 11 11 11 SER SER A . n A 1 12 GLU 12 12 12 GLU GLU A . n A 1 13 THR 13 13 13 THR THR A . n A 1 14 TYR 14 14 14 TYR TYR A . n A 1 15 ILE 15 15 15 ILE ILE A . n A 1 16 THR 16 16 16 THR THR A . n A 1 17 CYS 17 17 17 CYS CYS A . n A 1 18 ALA 18 18 18 ALA ALA A . n A 1 19 GLU 19 19 19 GLU GLU A . n A 1 20 ALA 20 20 20 ALA ALA A . n A 1 21 ASN 21 21 21 ASN ASN A . n A 1 22 GLU 22 22 22 GLU GLU A . n A 1 23 MET 23 23 23 MET MET A . n A 1 24 ALA 24 24 24 ALA ALA A . n A 1 25 LYS 25 25 25 LYS LYS A . n A 1 26 THR 26 26 26 THR THR A . n A 1 27 ASP 27 27 27 ASP ASP A . n A 1 28 SER 28 28 28 SER SER A . n A 1 29 ALA 29 29 29 ALA ALA A . n A 1 30 GLN 30 30 30 GLN GLN A . n A 1 31 VAL 31 31 31 VAL VAL A . n A 1 32 ALA 32 32 32 ALA ALA A . n A 1 33 GLU 33 33 33 GLU GLU A . n A 1 34 ILE 34 34 34 ILE ILE A . n A 1 35 VAL 35 35 35 VAL VAL A . n A 1 36 ALA 36 36 36 ALA ALA A . n A 1 37 VAL 37 37 37 VAL VAL A . n A 1 38 MET 38 38 38 MET MET A . n A 1 39 GLY 39 39 39 GLY GLY A . n A 1 40 ASN 40 40 40 ASN ASN A . n A 1 41 ALA 41 41 41 ALA ALA A . n A 1 42 SER 42 42 42 SER SER A . n A 1 43 VAL 43 43 43 VAL VAL A . n A 1 44 ALA 44 44 44 ALA ALA A . n A 1 45 SER 45 45 45 SER SER A . n A 1 46 ARG 46 46 46 ARG ARG A . n A 1 47 ASP 47 47 47 ASP ASP A . n A 1 48 LEU 48 48 48 LEU LEU A . n A 1 49 LYS 49 49 49 LYS LYS A . n A 1 50 ILE 50 50 50 ILE ILE A . n A 1 51 GLU 51 51 51 GLU GLU A . n A 1 52 GLN 52 52 52 GLN GLN A . n A 1 53 SER 53 53 53 SER SER A . n A 1 54 PRO 54 54 54 PRO PRO A . n A 1 55 GLU 55 55 55 GLU GLU A . n A 1 56 LEU 56 56 56 LEU LEU A . n A 1 57 SER 57 57 57 SER SER A . n A 1 58 ALA 58 58 58 ALA ALA A . n A 1 59 LYS 59 59 59 LYS LYS A . n A 1 60 VAL 60 60 60 VAL VAL A . n A 1 61 VAL 61 61 61 VAL VAL A . n A 1 62 GLU 62 62 62 GLU GLU A . n A 1 63 LYS 63 63 63 LYS LYS A . n A 1 64 LEU 64 64 64 LEU LEU A . n A 1 65 ASN 65 65 65 ASN ASN A . n A 1 66 GLN 66 66 66 GLN GLN A . n A 1 67 VAL 67 67 67 VAL VAL A . n A 1 68 CYS 68 68 68 CYS CYS A . n A 1 69 ALA 69 69 69 ALA ALA A . n A 1 70 LYS 70 70 70 LYS LYS A . n A 1 71 ASP 71 71 71 ASP ASP A . n A 1 72 PRO 72 72 72 PRO PRO A . n A 1 73 GLN 73 73 73 GLN GLN A . n A 1 74 MET 74 74 74 MET MET A . n A 1 75 LEU 75 75 75 LEU LEU A . n A 1 76 LEU 76 76 76 LEU LEU A . n A 1 77 ILE 77 77 77 ILE ILE A . n A 1 78 THR 78 78 78 THR THR A . n A 1 79 ALA 79 79 79 ALA ALA A . n A 1 80 ILE 80 80 80 ILE ILE A . n A 1 81 ASP 81 81 81 ASP ASP A . n A 1 82 ASP 82 82 82 ASP ASP A . n A 1 83 THR 83 83 83 THR THR A . n A 1 84 MET 84 84 84 MET MET A . n A 1 85 ARG 85 85 85 ARG ARG A . n A 1 86 ALA 86 86 86 ALA ALA A . n A 1 87 ILE 87 87 87 ILE ILE A . n A 1 88 GLY 88 88 88 GLY GLY A . n A 1 89 LYS 89 89 89 LYS LYS A . n A 1 90 LYS 90 90 90 LYS LYS A . n # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2013-04-17 2 'Structure model' 1 1 2023-06-14 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Data collection' 2 2 'Structure model' 'Database references' 3 2 'Structure model' Other # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 2 'Structure model' database_2 2 2 'Structure model' pdbx_database_status 3 2 'Structure model' pdbx_nmr_software # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 2 'Structure model' '_database_2.pdbx_DOI' 2 2 'Structure model' '_database_2.pdbx_database_accession' 3 2 'Structure model' '_pdbx_database_status.status_code_nmr_data' 4 2 'Structure model' '_pdbx_nmr_software.name' # loop_ _pdbx_nmr_exptl_sample.component _pdbx_nmr_exptl_sample.concentration _pdbx_nmr_exptl_sample.concentration_range _pdbx_nmr_exptl_sample.concentration_units _pdbx_nmr_exptl_sample.isotopic_labeling _pdbx_nmr_exptl_sample.solution_id YmgD-1 0.4 ? mM '[U-99% 13C; U-99% 15N]' 1 H2O-2 90 ? % ? 1 D2O-3 10 ? % ? 1 'Sodium acetate-4' 100 ? mM ? 1 NaCl-5 50 ? mM ? 1 # _pdbx_nmr_constraints.disulfide_bond_constraints_total_count ? _pdbx_nmr_constraints.entry_id 2LRV _pdbx_nmr_constraints.hydrogen_bond_constraints_total_count ? _pdbx_nmr_constraints.NA_alpha-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_beta-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_chi-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_delta-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_epsilon-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_gamma-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_other-angle_constraints_total_count ? _pdbx_nmr_constraints.NA_sugar_pucker_constraints_total_count ? _pdbx_nmr_constraints.NOE_constraints_total 1045 _pdbx_nmr_constraints.NOE_interentity_total_count ? _pdbx_nmr_constraints.NOE_interproton_distance_evaluation ? _pdbx_nmr_constraints.NOE_intraresidue_total_count 260 _pdbx_nmr_constraints.NOE_long_range_total_count 94 _pdbx_nmr_constraints.NOE_medium_range_total_count 315 _pdbx_nmr_constraints.NOE_motional_averaging_correction ? _pdbx_nmr_constraints.NOE_pseudoatom_corrections ? _pdbx_nmr_constraints.NOE_sequential_total_count 376 _pdbx_nmr_constraints.protein_chi_angle_constraints_total_count ? _pdbx_nmr_constraints.protein_other_angle_constraints_total_count ? _pdbx_nmr_constraints.protein_phi_angle_constraints_total_count ? _pdbx_nmr_constraints.protein_psi_angle_constraints_total_count ? # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 4 O A VAL 43 ? ? H A ASP 47 ? ? 1.60 2 8 HZ2 A LYS 49 ? ? O A LYS 90 ? ? 1.59 3 12 HG1 A THR 16 ? ? OE2 A GLU 19 ? ? 1.58 4 12 O A SER 42 ? ? HG A SER 45 ? ? 1.60 5 14 OD2 A ASP 47 ? ? HZ3 A LYS 49 ? ? 1.59 6 15 O A MET 23 ? ? H A ASP 27 ? ? 1.60 7 18 OD1 A ASP 47 ? ? HZ3 A LYS 49 ? ? 1.59 # loop_ _pdbx_validate_torsion.id _pdbx_validate_torsion.PDB_model_num _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.PDB_ins_code _pdbx_validate_torsion.label_alt_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi 1 1 LEU A 48 ? ? 73.33 -7.34 2 4 ALA A 44 ? ? -58.73 -9.60 3 4 ASP A 47 ? ? -111.25 67.20 4 4 LEU A 48 ? ? -58.91 -5.04 5 5 LEU A 48 ? ? 76.87 -17.39 6 6 THR A 26 ? ? -130.21 -37.08 7 6 ASP A 27 ? ? -119.37 50.63 8 6 LEU A 48 ? ? 77.07 -7.85 9 6 GLN A 52 ? ? 58.94 8.85 10 7 LEU A 48 ? ? 73.18 -32.10 11 8 THR A 26 ? ? -131.60 -38.76 12 8 ASP A 27 ? ? -109.73 47.22 13 9 ASP A 47 ? ? -94.19 -60.50 14 10 ASP A 47 ? ? -136.93 -34.69 15 10 LEU A 48 ? ? 74.17 -40.25 16 11 LEU A 48 ? ? 70.67 -19.29 17 12 LEU A 48 ? ? 69.94 -0.50 18 13 LEU A 48 ? ? 74.82 -8.00 19 14 LEU A 48 ? ? 69.27 -40.06 20 15 LEU A 48 ? ? 73.31 -30.27 21 17 LEU A 48 ? ? 70.65 -57.98 22 17 LYS A 49 ? ? -81.63 32.40 23 18 ASP A 71 ? ? -164.22 111.72 24 20 GLN A 52 ? ? -68.59 89.75 # loop_ _pdbx_unobs_or_zero_occ_residues.id _pdbx_unobs_or_zero_occ_residues.PDB_model_num _pdbx_unobs_or_zero_occ_residues.polymer_flag _pdbx_unobs_or_zero_occ_residues.occupancy_flag _pdbx_unobs_or_zero_occ_residues.auth_asym_id _pdbx_unobs_or_zero_occ_residues.auth_comp_id _pdbx_unobs_or_zero_occ_residues.auth_seq_id _pdbx_unobs_or_zero_occ_residues.PDB_ins_code _pdbx_unobs_or_zero_occ_residues.label_asym_id _pdbx_unobs_or_zero_occ_residues.label_comp_id _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 1 Y 1 A GLN 1 ? A GLN 1 2 1 Y 1 A ASP 2 ? A ASP 2 3 1 Y 1 A TYR 3 ? A TYR 3 4 1 Y 1 A ASN 4 ? A ASN 4 5 1 Y 1 A ILE 5 ? A ILE 5 6 1 Y 1 A LYS 6 ? A LYS 6 7 2 Y 1 A GLN 1 ? A GLN 1 8 2 Y 1 A ASP 2 ? A ASP 2 9 2 Y 1 A TYR 3 ? A TYR 3 10 2 Y 1 A ASN 4 ? A ASN 4 11 2 Y 1 A ILE 5 ? A ILE 5 12 2 Y 1 A LYS 6 ? A LYS 6 13 3 Y 1 A GLN 1 ? A GLN 1 14 3 Y 1 A ASP 2 ? A ASP 2 15 3 Y 1 A TYR 3 ? A TYR 3 16 3 Y 1 A ASN 4 ? A ASN 4 17 3 Y 1 A ILE 5 ? A ILE 5 18 3 Y 1 A LYS 6 ? A LYS 6 19 4 Y 1 A GLN 1 ? A GLN 1 20 4 Y 1 A ASP 2 ? A ASP 2 21 4 Y 1 A TYR 3 ? A TYR 3 22 4 Y 1 A ASN 4 ? A ASN 4 23 4 Y 1 A ILE 5 ? A ILE 5 24 4 Y 1 A LYS 6 ? A LYS 6 25 5 Y 1 A GLN 1 ? A GLN 1 26 5 Y 1 A ASP 2 ? A ASP 2 27 5 Y 1 A TYR 3 ? A TYR 3 28 5 Y 1 A ASN 4 ? A ASN 4 29 5 Y 1 A ILE 5 ? A ILE 5 30 5 Y 1 A LYS 6 ? A LYS 6 31 6 Y 1 A GLN 1 ? A GLN 1 32 6 Y 1 A ASP 2 ? A ASP 2 33 6 Y 1 A TYR 3 ? A TYR 3 34 6 Y 1 A ASN 4 ? A ASN 4 35 6 Y 1 A ILE 5 ? A ILE 5 36 6 Y 1 A LYS 6 ? A LYS 6 37 7 Y 1 A GLN 1 ? A GLN 1 38 7 Y 1 A ASP 2 ? A ASP 2 39 7 Y 1 A TYR 3 ? A TYR 3 40 7 Y 1 A ASN 4 ? A ASN 4 41 7 Y 1 A ILE 5 ? A ILE 5 42 7 Y 1 A LYS 6 ? A LYS 6 43 8 Y 1 A GLN 1 ? A GLN 1 44 8 Y 1 A ASP 2 ? A ASP 2 45 8 Y 1 A TYR 3 ? A TYR 3 46 8 Y 1 A ASN 4 ? A ASN 4 47 8 Y 1 A ILE 5 ? A ILE 5 48 8 Y 1 A LYS 6 ? A LYS 6 49 9 Y 1 A GLN 1 ? A GLN 1 50 9 Y 1 A ASP 2 ? A ASP 2 51 9 Y 1 A TYR 3 ? A TYR 3 52 9 Y 1 A ASN 4 ? A ASN 4 53 9 Y 1 A ILE 5 ? A ILE 5 54 9 Y 1 A LYS 6 ? A LYS 6 55 10 Y 1 A GLN 1 ? A GLN 1 56 10 Y 1 A ASP 2 ? A ASP 2 57 10 Y 1 A TYR 3 ? A TYR 3 58 10 Y 1 A ASN 4 ? A ASN 4 59 10 Y 1 A ILE 5 ? A ILE 5 60 10 Y 1 A LYS 6 ? A LYS 6 61 11 Y 1 A GLN 1 ? A GLN 1 62 11 Y 1 A ASP 2 ? A ASP 2 63 11 Y 1 A TYR 3 ? A TYR 3 64 11 Y 1 A ASN 4 ? A ASN 4 65 11 Y 1 A ILE 5 ? A ILE 5 66 11 Y 1 A LYS 6 ? A LYS 6 67 12 Y 1 A GLN 1 ? A GLN 1 68 12 Y 1 A ASP 2 ? A ASP 2 69 12 Y 1 A TYR 3 ? A TYR 3 70 12 Y 1 A ASN 4 ? A ASN 4 71 12 Y 1 A ILE 5 ? A ILE 5 72 12 Y 1 A LYS 6 ? A LYS 6 73 13 Y 1 A GLN 1 ? A GLN 1 74 13 Y 1 A ASP 2 ? A ASP 2 75 13 Y 1 A TYR 3 ? A TYR 3 76 13 Y 1 A ASN 4 ? A ASN 4 77 13 Y 1 A ILE 5 ? A ILE 5 78 13 Y 1 A LYS 6 ? A LYS 6 79 14 Y 1 A GLN 1 ? A GLN 1 80 14 Y 1 A ASP 2 ? A ASP 2 81 14 Y 1 A TYR 3 ? A TYR 3 82 14 Y 1 A ASN 4 ? A ASN 4 83 14 Y 1 A ILE 5 ? A ILE 5 84 14 Y 1 A LYS 6 ? A LYS 6 85 15 Y 1 A GLN 1 ? A GLN 1 86 15 Y 1 A ASP 2 ? A ASP 2 87 15 Y 1 A TYR 3 ? A TYR 3 88 15 Y 1 A ASN 4 ? A ASN 4 89 15 Y 1 A ILE 5 ? A ILE 5 90 15 Y 1 A LYS 6 ? A LYS 6 91 16 Y 1 A GLN 1 ? A GLN 1 92 16 Y 1 A ASP 2 ? A ASP 2 93 16 Y 1 A TYR 3 ? A TYR 3 94 16 Y 1 A ASN 4 ? A ASN 4 95 16 Y 1 A ILE 5 ? A ILE 5 96 16 Y 1 A LYS 6 ? A LYS 6 97 17 Y 1 A GLN 1 ? A GLN 1 98 17 Y 1 A ASP 2 ? A ASP 2 99 17 Y 1 A TYR 3 ? A TYR 3 100 17 Y 1 A ASN 4 ? A ASN 4 101 17 Y 1 A ILE 5 ? A ILE 5 102 17 Y 1 A LYS 6 ? A LYS 6 103 18 Y 1 A GLN 1 ? A GLN 1 104 18 Y 1 A ASP 2 ? A ASP 2 105 18 Y 1 A TYR 3 ? A TYR 3 106 18 Y 1 A ASN 4 ? A ASN 4 107 18 Y 1 A ILE 5 ? A ILE 5 108 18 Y 1 A LYS 6 ? A LYS 6 109 19 Y 1 A GLN 1 ? A GLN 1 110 19 Y 1 A ASP 2 ? A ASP 2 111 19 Y 1 A TYR 3 ? A TYR 3 112 19 Y 1 A ASN 4 ? A ASN 4 113 19 Y 1 A ILE 5 ? A ILE 5 114 19 Y 1 A LYS 6 ? A LYS 6 115 20 Y 1 A GLN 1 ? A GLN 1 116 20 Y 1 A ASP 2 ? A ASP 2 117 20 Y 1 A TYR 3 ? A TYR 3 118 20 Y 1 A ASN 4 ? A ASN 4 119 20 Y 1 A ILE 5 ? A ILE 5 120 20 Y 1 A LYS 6 ? A LYS 6 #