data_2YH5 # _entry.id 2YH5 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.279 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 2YH5 PDBE EBI-48131 WWPDB D_1290048131 # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.content_type _pdbx_database_related.details PDB 2YH3 unspecified 'THE STRUCTURE OF BAMB FROM E. COLI' PDB 2YH6 unspecified 'STRUCTURE OF THE N-TERMINAL DOMAIN OF BAMC FROM E. COLI' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 2YH5 _pdbx_database_status.deposit_site PDBE _pdbx_database_status.process_site PDBE _pdbx_database_status.SG_entry . _pdbx_database_status.recvd_initial_deposition_date 2011-04-27 _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Zeth, K.' 1 'Albrecht, R.' 2 # _citation.id primary _citation.title 'Structural Basis of Outer Membrane Protein Biogenesis in Bacteria.' _citation.journal_abbrev J.Biol.Chem. _citation.journal_volume 286 _citation.page_first 27792 _citation.page_last ? _citation.year 2011 _citation.journal_id_ASTM JBCHA3 _citation.country US _citation.journal_id_ISSN 0021-9258 _citation.journal_id_CSD 0071 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 21586578 _citation.pdbx_database_id_DOI 10.1074/JBC.M111.238931 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Albrecht, R.' 1 primary 'Zeth, K.' 2 # _cell.entry_id 2YH5 _cell.length_a 29.740 _cell.length_b 59.120 _cell.length_c 31.060 _cell.angle_alpha 90.00 _cell.angle_beta 116.37 _cell.angle_gamma 90.00 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2YH5 _symmetry.space_group_name_H-M 'P 1 21 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer man 'DAPX PROTEIN' 13898.449 1 ? ? 'RESIDUES 25-143' ? 2 non-polymer syn 'PHOSPHATE ION' 94.971 2 ? ? ? ? 3 water nat water 18.015 60 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name BAMC # _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 ;TTMDVQSAADDTGLPMLVVRGPFNVVWQRLPAALEKVGMKVTDSTRSQGNMAVTYKPLSDSDWQELGASDPGLASGDYKL QVGDLDNRSSLQFIDPKGHTLTQSQNDALVAVFQAAFSKLEHHHHHH ; _entity_poly.pdbx_seq_one_letter_code_can ;TTMDVQSAADDTGLPMLVVRGPFNVVWQRLPAALEKVGMKVTDSTRSQGNMAVTYKPLSDSDWQELGASDPGLASGDYKL QVGDLDNRSSLQFIDPKGHTLTQSQNDALVAVFQAAFSKLEHHHHHH ; _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 THR n 1 2 THR n 1 3 MET n 1 4 ASP n 1 5 VAL n 1 6 GLN n 1 7 SER n 1 8 ALA n 1 9 ALA n 1 10 ASP n 1 11 ASP n 1 12 THR n 1 13 GLY n 1 14 LEU n 1 15 PRO n 1 16 MET n 1 17 LEU n 1 18 VAL n 1 19 VAL n 1 20 ARG n 1 21 GLY n 1 22 PRO n 1 23 PHE n 1 24 ASN n 1 25 VAL n 1 26 VAL n 1 27 TRP n 1 28 GLN n 1 29 ARG n 1 30 LEU n 1 31 PRO n 1 32 ALA n 1 33 ALA n 1 34 LEU n 1 35 GLU n 1 36 LYS n 1 37 VAL n 1 38 GLY n 1 39 MET n 1 40 LYS n 1 41 VAL n 1 42 THR n 1 43 ASP n 1 44 SER n 1 45 THR n 1 46 ARG n 1 47 SER n 1 48 GLN n 1 49 GLY n 1 50 ASN n 1 51 MET n 1 52 ALA n 1 53 VAL n 1 54 THR n 1 55 TYR n 1 56 LYS n 1 57 PRO n 1 58 LEU n 1 59 SER n 1 60 ASP n 1 61 SER n 1 62 ASP n 1 63 TRP n 1 64 GLN n 1 65 GLU n 1 66 LEU n 1 67 GLY n 1 68 ALA n 1 69 SER n 1 70 ASP n 1 71 PRO n 1 72 GLY n 1 73 LEU n 1 74 ALA n 1 75 SER n 1 76 GLY n 1 77 ASP n 1 78 TYR n 1 79 LYS n 1 80 LEU n 1 81 GLN n 1 82 VAL n 1 83 GLY n 1 84 ASP n 1 85 LEU n 1 86 ASP n 1 87 ASN n 1 88 ARG n 1 89 SER n 1 90 SER n 1 91 LEU n 1 92 GLN n 1 93 PHE n 1 94 ILE n 1 95 ASP n 1 96 PRO n 1 97 LYS n 1 98 GLY n 1 99 HIS n 1 100 THR n 1 101 LEU n 1 102 THR n 1 103 GLN n 1 104 SER n 1 105 GLN n 1 106 ASN n 1 107 ASP n 1 108 ALA n 1 109 LEU n 1 110 VAL n 1 111 ALA n 1 112 VAL n 1 113 PHE n 1 114 GLN n 1 115 ALA n 1 116 ALA n 1 117 PHE n 1 118 SER n 1 119 LYS n 1 120 LEU n 1 121 GLU n 1 122 HIS n 1 123 HIS n 1 124 HIS n 1 125 HIS n 1 126 HIS n 1 127 HIS 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 ? _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain K-12 _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(DE3)' _entity_src_gen.pdbx_host_org_variant ? _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 PLASMID _entity_src_gen.pdbx_host_org_vector PET24D _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 Q47548_ECOLX _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? _struct_ref.pdbx_db_accession Q47548 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 2YH5 _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 119 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q47548 _struct_ref_seq.db_align_beg 25 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 143 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 202 _struct_ref_seq.pdbx_auth_seq_align_end 320 # loop_ _struct_ref_seq_dif.align_id _struct_ref_seq_dif.pdbx_pdb_id_code _struct_ref_seq_dif.mon_id _struct_ref_seq_dif.pdbx_pdb_strand_id _struct_ref_seq_dif.seq_num _struct_ref_seq_dif.pdbx_pdb_ins_code _struct_ref_seq_dif.pdbx_seq_db_name _struct_ref_seq_dif.pdbx_seq_db_accession_code _struct_ref_seq_dif.db_mon_id _struct_ref_seq_dif.pdbx_seq_db_seq_num _struct_ref_seq_dif.details _struct_ref_seq_dif.pdbx_auth_seq_num _struct_ref_seq_dif.pdbx_ordinal 1 2YH5 LEU A 120 ? UNP Q47548 ? ? 'expression tag' 321 1 1 2YH5 GLU A 121 ? UNP Q47548 ? ? 'expression tag' 322 2 1 2YH5 HIS A 122 ? UNP Q47548 ? ? 'expression tag' 323 3 1 2YH5 HIS A 123 ? UNP Q47548 ? ? 'expression tag' 324 4 1 2YH5 HIS A 124 ? UNP Q47548 ? ? 'expression tag' 325 5 1 2YH5 HIS A 125 ? UNP Q47548 ? ? 'expression tag' 326 6 1 2YH5 HIS A 126 ? UNP Q47548 ? ? 'expression tag' 327 7 1 2YH5 HIS A 127 ? UNP Q47548 ? ? 'expression tag' 328 8 # 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 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 HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.162 HOH non-polymer . WATER ? 'H2 O' 18.015 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 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PO4 non-polymer . 'PHOSPHATE ION' ? 'O4 P -3' 94.971 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 TRP 'L-peptide linking' y TRYPTOPHAN ? 'C11 H12 N2 O2' 204.225 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # _exptl.entry_id 2YH5 _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 1.72 _exptl_crystal.density_percent_sol 27.78 _exptl_crystal.description NONE # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method ? _exptl_crystal_grow.temp ? _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 6.5 _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.pdbx_details '25% PEG1000, 0.1 M MES PH 6.5' # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector PIXEL _diffrn_detector.type 'DECTRIS PILATUS 6M' _diffrn_detector.pdbx_collection_date ? _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'SLS BEAMLINE X10SA' _diffrn_source.pdbx_synchrotron_site SLS _diffrn_source.pdbx_synchrotron_beamline X10SA _diffrn_source.pdbx_wavelength 1 _diffrn_source.pdbx_wavelength_list ? # _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.entry_id 2YH5 _reflns.observed_criterion_sigma_I 2.1 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 1.31 _reflns.d_resolution_high 1.28 _reflns.number_obs 25297 _reflns.number_all ? _reflns.percent_possible_obs 98.4 _reflns.pdbx_Rmerge_I_obs 0.06 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 10.30 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 5.2 # _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_ordinal 1 _reflns_shell.d_res_high 1.28 _reflns_shell.d_res_low 1.31 _reflns_shell.percent_possible_all 95.6 _reflns_shell.Rmerge_I_obs 0.57 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 2.10 _reflns_shell.pdbx_redundancy ? # _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.entry_id 2YH5 _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.ls_number_reflns_obs 25297 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F . _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 29.56 _refine.ls_d_res_high 1.25 _refine.ls_percent_reflns_obs 100.00 _refine.ls_R_factor_obs 0.14828 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.14643 _refine.ls_R_factor_R_free 0.18387 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.0 _refine.ls_number_reflns_R_free 1332 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.974 _refine.correlation_coeff_Fo_to_Fc_free 0.962 _refine.B_iso_mean 13.829 _refine.aniso_B[1][1] -0.03 _refine.aniso_B[2][2] 0.48 _refine.aniso_B[3][3] -0.56 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] -0.13 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details MASK _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.40 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS.' _refine.pdbx_starting_model NONE _refine.pdbx_method_to_determine_struct MIRAS _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'MAAIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R 0.047 _refine.pdbx_overall_ESU_R_Free 0.047 _refine.overall_SU_ML ? _refine.pdbx_overall_phase_error ? _refine.overall_SU_B ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 916 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 10 _refine_hist.number_atoms_solvent 60 _refine_hist.number_atoms_total 986 _refine_hist.d_res_high 1.25 _refine_hist.d_res_low 29.56 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function r_bond_refined_d 0.029 0.022 ? 973 'X-RAY DIFFRACTION' ? r_bond_other_d 0.005 0.020 ? 633 'X-RAY DIFFRACTION' ? r_angle_refined_deg 2.157 1.974 ? 1333 'X-RAY DIFFRACTION' ? r_angle_other_deg 1.197 3.000 ? 1569 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 6.241 5.000 ? 132 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 43.347 26.047 ? 43 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 15.571 15.000 ? 164 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 19.244 15.000 ? 4 'X-RAY DIFFRACTION' ? r_chiral_restr 0.157 0.200 ? 153 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.012 0.021 ? 1098 'X-RAY DIFFRACTION' ? r_gen_planes_other 0.001 0.020 ? 176 'X-RAY DIFFRACTION' ? r_nbd_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcbond_it 2.884 1.500 ? 619 'X-RAY DIFFRACTION' ? r_mcbond_other 0.951 1.500 ? 250 'X-RAY DIFFRACTION' ? r_mcangle_it 4.325 2.000 ? 1002 'X-RAY DIFFRACTION' ? r_mcangle_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_scbond_it 6.290 3.000 ? 354 'X-RAY DIFFRACTION' ? r_scbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_scangle_it 9.119 4.500 ? 325 'X-RAY DIFFRACTION' ? r_scangle_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_long_range_B_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_long_range_B_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_rigid_bond_restr 2.582 3.000 ? 1606 'X-RAY DIFFRACTION' ? r_sphericity_free ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_bonded ? ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 1.250 _refine_ls_shell.d_res_low 1.282 _refine_ls_shell.number_reflns_R_work 1852 _refine_ls_shell.R_factor_R_work 0.251 _refine_ls_shell.percent_reflns_obs 100.00 _refine_ls_shell.R_factor_R_free 0.273 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 98 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? # _struct.entry_id 2YH5 _struct.title 'Structure of the C-terminal domain of BamC' _struct.pdbx_descriptor 'DAPX PROTEIN' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2YH5 _struct_keywords.pdbx_keywords 'LIPID BINDING PROTEIN' _struct_keywords.text 'LIPID BINDING PROTEIN, LIPOPROTEIN, BAM COMPLEX' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 2 ? D N N 3 ? # _struct_biol.id 1 # 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 22 ? VAL A 37 ? PRO A 223 VAL A 238 1 ? 16 HELX_P HELX_P2 2 ARG A 46 ? GLN A 48 ? ARG A 247 GLN A 249 5 ? 3 HELX_P HELX_P3 3 SER A 59 ? GLY A 67 ? SER A 260 GLY A 268 1 ? 9 HELX_P HELX_P4 4 THR A 102 ? GLU A 121 ? THR A 303 GLU A 322 1 ? 20 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # _struct_sheet.id AA _struct_sheet.type ? _struct_sheet.number_strands 6 _struct_sheet.details ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense AA 1 2 ? anti-parallel AA 2 3 ? anti-parallel AA 3 4 ? anti-parallel AA 4 5 ? anti-parallel AA 5 6 ? anti-parallel # loop_ _struct_sheet_range.sheet_id _struct_sheet_range.id _struct_sheet_range.beg_label_comp_id _struct_sheet_range.beg_label_asym_id _struct_sheet_range.beg_label_seq_id _struct_sheet_range.pdbx_beg_PDB_ins_code _struct_sheet_range.end_label_comp_id _struct_sheet_range.end_label_asym_id _struct_sheet_range.end_label_seq_id _struct_sheet_range.pdbx_end_PDB_ins_code _struct_sheet_range.beg_auth_comp_id _struct_sheet_range.beg_auth_asym_id _struct_sheet_range.beg_auth_seq_id _struct_sheet_range.end_auth_comp_id _struct_sheet_range.end_auth_asym_id _struct_sheet_range.end_auth_seq_id AA 1 VAL A 5 ? ALA A 9 ? VAL A 206 ALA A 210 AA 2 PRO A 15 ? ARG A 20 ? PRO A 216 ARG A 221 AA 3 ARG A 88 ? ILE A 94 ? ARG A 289 ILE A 295 AA 4 GLY A 76 ? LEU A 85 ? GLY A 277 LEU A 286 AA 5 ASN A 50 ? TYR A 55 ? ASN A 251 TYR A 256 AA 6 MET A 39 ? THR A 45 ? MET A 240 THR A 246 # loop_ _pdbx_struct_sheet_hbond.sheet_id _pdbx_struct_sheet_hbond.range_id_1 _pdbx_struct_sheet_hbond.range_id_2 _pdbx_struct_sheet_hbond.range_1_label_atom_id _pdbx_struct_sheet_hbond.range_1_label_comp_id _pdbx_struct_sheet_hbond.range_1_label_asym_id _pdbx_struct_sheet_hbond.range_1_label_seq_id _pdbx_struct_sheet_hbond.range_1_PDB_ins_code _pdbx_struct_sheet_hbond.range_1_auth_atom_id _pdbx_struct_sheet_hbond.range_1_auth_comp_id _pdbx_struct_sheet_hbond.range_1_auth_asym_id _pdbx_struct_sheet_hbond.range_1_auth_seq_id _pdbx_struct_sheet_hbond.range_2_label_atom_id _pdbx_struct_sheet_hbond.range_2_label_comp_id _pdbx_struct_sheet_hbond.range_2_label_asym_id _pdbx_struct_sheet_hbond.range_2_label_seq_id _pdbx_struct_sheet_hbond.range_2_PDB_ins_code _pdbx_struct_sheet_hbond.range_2_auth_atom_id _pdbx_struct_sheet_hbond.range_2_auth_comp_id _pdbx_struct_sheet_hbond.range_2_auth_asym_id _pdbx_struct_sheet_hbond.range_2_auth_seq_id AA 1 2 N ALA A 8 ? N ALA A 209 O MET A 16 ? O MET A 217 AA 2 3 N VAL A 19 ? N VAL A 220 O SER A 89 ? O SER A 290 AA 3 4 N ILE A 94 ? N ILE A 295 O LYS A 79 ? O LYS A 280 AA 4 5 N LEU A 80 ? N LEU A 281 O MET A 51 ? O MET A 252 AA 5 6 N THR A 54 ? N THR A 255 O LYS A 40 ? O LYS A 241 # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software ? ? ? ? 5 'BINDING SITE FOR RESIDUE PO4 A 1323' AC2 Software ? ? ? ? 8 'BINDING SITE FOR RESIDUE PO4 A 1324' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 5 THR A 12 ? THR A 213 . ? 1_555 ? 2 AC1 5 TRP A 27 ? TRP A 228 . ? 1_455 ? 3 AC1 5 SER A 44 ? SER A 245 . ? 1_455 ? 4 AC1 5 THR A 45 ? THR A 246 . ? 1_455 ? 5 AC1 5 ARG A 46 ? ARG A 247 . ? 1_455 ? 6 AC2 8 PRO A 22 ? PRO A 223 . ? 1_454 ? 7 AC2 8 PHE A 23 ? PHE A 224 . ? 1_454 ? 8 AC2 8 ASN A 24 ? ASN A 225 . ? 1_454 ? 9 AC2 8 VAL A 25 ? VAL A 226 . ? 1_454 ? 10 AC2 8 ALA A 74 ? ALA A 275 . ? 1_555 ? 11 AC2 8 TYR A 78 ? TYR A 279 . ? 1_555 ? 12 AC2 8 GLN A 105 ? GLN A 306 . ? 1_555 ? 13 AC2 8 HOH D . ? HOH A 2060 . ? 1_555 ? # _database_PDB_matrix.entry_id 2YH5 _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _atom_sites.entry_id 2YH5 _atom_sites.fract_transf_matrix[1][1] 0.033625 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.016670 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.016915 _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] 0.035935 _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 N O P 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 THR 1 202 202 THR THR A . n A 1 2 THR 2 203 203 THR THR A . n A 1 3 MET 3 204 204 MET MET A . n A 1 4 ASP 4 205 205 ASP ASP A . n A 1 5 VAL 5 206 206 VAL VAL A . n A 1 6 GLN 6 207 207 GLN GLN A . n A 1 7 SER 7 208 208 SER SER A . n A 1 8 ALA 8 209 209 ALA ALA A . n A 1 9 ALA 9 210 210 ALA ALA A . n A 1 10 ASP 10 211 211 ASP ASP A . n A 1 11 ASP 11 212 212 ASP ASP A . n A 1 12 THR 12 213 213 THR THR A . n A 1 13 GLY 13 214 214 GLY GLY A . n A 1 14 LEU 14 215 215 LEU LEU A . n A 1 15 PRO 15 216 216 PRO PRO A . n A 1 16 MET 16 217 217 MET MET A . n A 1 17 LEU 17 218 218 LEU LEU A . n A 1 18 VAL 18 219 219 VAL VAL A . n A 1 19 VAL 19 220 220 VAL VAL A . n A 1 20 ARG 20 221 221 ARG ARG A . n A 1 21 GLY 21 222 222 GLY GLY A . n A 1 22 PRO 22 223 223 PRO PRO A . n A 1 23 PHE 23 224 224 PHE PHE A . n A 1 24 ASN 24 225 225 ASN ASN A . n A 1 25 VAL 25 226 226 VAL VAL A . n A 1 26 VAL 26 227 227 VAL VAL A . n A 1 27 TRP 27 228 228 TRP TRP A . n A 1 28 GLN 28 229 229 GLN GLN A . n A 1 29 ARG 29 230 230 ARG ARG A . n A 1 30 LEU 30 231 231 LEU LEU A . n A 1 31 PRO 31 232 232 PRO PRO A . n A 1 32 ALA 32 233 233 ALA ALA A . n A 1 33 ALA 33 234 234 ALA ALA A . n A 1 34 LEU 34 235 235 LEU LEU A . n A 1 35 GLU 35 236 236 GLU GLU A . n A 1 36 LYS 36 237 237 LYS LYS A . n A 1 37 VAL 37 238 238 VAL VAL A . n A 1 38 GLY 38 239 239 GLY GLY A . n A 1 39 MET 39 240 240 MET MET A . n A 1 40 LYS 40 241 241 LYS LYS A . n A 1 41 VAL 41 242 242 VAL VAL A . n A 1 42 THR 42 243 243 THR THR A . n A 1 43 ASP 43 244 244 ASP ASP A . n A 1 44 SER 44 245 245 SER SER A . n A 1 45 THR 45 246 246 THR THR A . n A 1 46 ARG 46 247 247 ARG ARG A . n A 1 47 SER 47 248 248 SER SER A . n A 1 48 GLN 48 249 249 GLN GLN A . n A 1 49 GLY 49 250 250 GLY GLY A . n A 1 50 ASN 50 251 251 ASN ASN A . n A 1 51 MET 51 252 252 MET MET A . n A 1 52 ALA 52 253 253 ALA ALA A . n A 1 53 VAL 53 254 254 VAL VAL A . n A 1 54 THR 54 255 255 THR THR A . n A 1 55 TYR 55 256 256 TYR TYR A . n A 1 56 LYS 56 257 257 LYS LYS A . n A 1 57 PRO 57 258 258 PRO PRO A . n A 1 58 LEU 58 259 259 LEU LEU A . n A 1 59 SER 59 260 260 SER SER A . n A 1 60 ASP 60 261 261 ASP ASP A . n A 1 61 SER 61 262 262 SER SER A . n A 1 62 ASP 62 263 263 ASP ASP A . n A 1 63 TRP 63 264 264 TRP TRP A . n A 1 64 GLN 64 265 265 GLN GLN A . n A 1 65 GLU 65 266 266 GLU GLU A . n A 1 66 LEU 66 267 267 LEU LEU A . n A 1 67 GLY 67 268 268 GLY GLY A . n A 1 68 ALA 68 269 269 ALA ALA A . n A 1 69 SER 69 270 270 SER SER A . n A 1 70 ASP 70 271 271 ASP ASP A . n A 1 71 PRO 71 272 272 PRO PRO A . n A 1 72 GLY 72 273 273 GLY GLY A . n A 1 73 LEU 73 274 274 LEU LEU A . n A 1 74 ALA 74 275 275 ALA ALA A . n A 1 75 SER 75 276 276 SER SER A . n A 1 76 GLY 76 277 277 GLY GLY A . n A 1 77 ASP 77 278 278 ASP ASP A . n A 1 78 TYR 78 279 279 TYR TYR A . n A 1 79 LYS 79 280 280 LYS LYS A . n A 1 80 LEU 80 281 281 LEU LEU A . n A 1 81 GLN 81 282 282 GLN GLN A . n A 1 82 VAL 82 283 283 VAL VAL A . n A 1 83 GLY 83 284 284 GLY GLY A . n A 1 84 ASP 84 285 285 ASP ASP A . n A 1 85 LEU 85 286 286 LEU LEU A . n A 1 86 ASP 86 287 287 ASP ASP A . n A 1 87 ASN 87 288 288 ASN ASN A . n A 1 88 ARG 88 289 289 ARG ARG A . n A 1 89 SER 89 290 290 SER SER A . n A 1 90 SER 90 291 291 SER SER A . n A 1 91 LEU 91 292 292 LEU LEU A . n A 1 92 GLN 92 293 293 GLN GLN A . n A 1 93 PHE 93 294 294 PHE PHE A . n A 1 94 ILE 94 295 295 ILE ILE A . n A 1 95 ASP 95 296 296 ASP ASP A . n A 1 96 PRO 96 297 297 PRO PRO A . n A 1 97 LYS 97 298 298 LYS LYS A . n A 1 98 GLY 98 299 299 GLY GLY A . n A 1 99 HIS 99 300 300 HIS HIS A . n A 1 100 THR 100 301 301 THR THR A . n A 1 101 LEU 101 302 302 LEU LEU A . n A 1 102 THR 102 303 303 THR THR A . n A 1 103 GLN 103 304 304 GLN GLN A . n A 1 104 SER 104 305 305 SER SER A . n A 1 105 GLN 105 306 306 GLN GLN A . n A 1 106 ASN 106 307 307 ASN ASN A . n A 1 107 ASP 107 308 308 ASP ASP A . n A 1 108 ALA 108 309 309 ALA ALA A . n A 1 109 LEU 109 310 310 LEU LEU A . n A 1 110 VAL 110 311 311 VAL VAL A . n A 1 111 ALA 111 312 312 ALA ALA A . n A 1 112 VAL 112 313 313 VAL VAL A . n A 1 113 PHE 113 314 314 PHE PHE A . n A 1 114 GLN 114 315 315 GLN GLN A . n A 1 115 ALA 115 316 316 ALA ALA A . n A 1 116 ALA 116 317 317 ALA ALA A . n A 1 117 PHE 117 318 318 PHE PHE A . n A 1 118 SER 118 319 319 SER SER A . n A 1 119 LYS 119 320 320 LYS LYS A . n A 1 120 LEU 120 321 321 LEU LEU A . n A 1 121 GLU 121 322 322 GLU GLU A . n A 1 122 HIS 122 323 ? ? ? A . n A 1 123 HIS 123 324 ? ? ? A . n A 1 124 HIS 124 325 ? ? ? A . n A 1 125 HIS 125 326 ? ? ? A . n A 1 126 HIS 126 327 ? ? ? A . n A 1 127 HIS 127 328 ? ? ? A . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 PO4 1 1323 1323 PO4 PO4 A . C 2 PO4 1 1324 1324 PO4 PO4 A . D 3 HOH 1 2001 2001 HOH HOH A . D 3 HOH 2 2002 2002 HOH HOH A . D 3 HOH 3 2003 2003 HOH HOH A . D 3 HOH 4 2004 2004 HOH HOH A . D 3 HOH 5 2005 2005 HOH HOH A . D 3 HOH 6 2006 2006 HOH HOH A . D 3 HOH 7 2007 2007 HOH HOH A . D 3 HOH 8 2008 2008 HOH HOH A . D 3 HOH 9 2009 2009 HOH HOH A . D 3 HOH 10 2010 2010 HOH HOH A . D 3 HOH 11 2011 2011 HOH HOH A . D 3 HOH 12 2012 2012 HOH HOH A . D 3 HOH 13 2013 2013 HOH HOH A . D 3 HOH 14 2014 2014 HOH HOH A . D 3 HOH 15 2015 2015 HOH HOH A . D 3 HOH 16 2016 2016 HOH HOH A . D 3 HOH 17 2017 2017 HOH HOH A . D 3 HOH 18 2018 2018 HOH HOH A . D 3 HOH 19 2019 2019 HOH HOH A . D 3 HOH 20 2020 2020 HOH HOH A . D 3 HOH 21 2021 2021 HOH HOH A . D 3 HOH 22 2022 2022 HOH HOH A . D 3 HOH 23 2023 2023 HOH HOH A . D 3 HOH 24 2024 2024 HOH HOH A . D 3 HOH 25 2025 2025 HOH HOH A . D 3 HOH 26 2026 2026 HOH HOH A . D 3 HOH 27 2027 2027 HOH HOH A . D 3 HOH 28 2028 2028 HOH HOH A . D 3 HOH 29 2029 2029 HOH HOH A . D 3 HOH 30 2030 2030 HOH HOH A . D 3 HOH 31 2031 2031 HOH HOH A . D 3 HOH 32 2032 2032 HOH HOH A . D 3 HOH 33 2033 2033 HOH HOH A . D 3 HOH 34 2034 2034 HOH HOH A . D 3 HOH 35 2035 2035 HOH HOH A . D 3 HOH 36 2036 2036 HOH HOH A . D 3 HOH 37 2037 2037 HOH HOH A . D 3 HOH 38 2038 2038 HOH HOH A . D 3 HOH 39 2039 2039 HOH HOH A . D 3 HOH 40 2040 2040 HOH HOH A . D 3 HOH 41 2041 2041 HOH HOH A . D 3 HOH 42 2042 2042 HOH HOH A . D 3 HOH 43 2043 2043 HOH HOH A . D 3 HOH 44 2044 2044 HOH HOH A . D 3 HOH 45 2045 2045 HOH HOH A . D 3 HOH 46 2046 2046 HOH HOH A . D 3 HOH 47 2047 2047 HOH HOH A . D 3 HOH 48 2048 2048 HOH HOH A . D 3 HOH 49 2049 2049 HOH HOH A . D 3 HOH 50 2050 2050 HOH HOH A . D 3 HOH 51 2051 2051 HOH HOH A . D 3 HOH 52 2052 2052 HOH HOH A . D 3 HOH 53 2053 2053 HOH HOH A . D 3 HOH 54 2054 2054 HOH HOH A . D 3 HOH 55 2055 2055 HOH HOH A . D 3 HOH 56 2056 2056 HOH HOH A . D 3 HOH 57 2057 2057 HOH HOH A . D 3 HOH 58 2058 2058 HOH HOH A . D 3 HOH 59 2059 2059 HOH HOH A . D 3 HOH 60 2060 2060 HOH HOH A . # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _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,B,C,D # _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 2011-05-25 2 'Structure model' 1 1 2011-08-10 3 'Structure model' 1 2 2014-02-05 # _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 ? # 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' 'Database references' 2 2 'Structure model' 'Version format compliance' 3 3 'Structure model' 'Refinement description' # loop_ _pdbx_refine_tls.pdbx_refine_id _pdbx_refine_tls.id _pdbx_refine_tls.details _pdbx_refine_tls.method _pdbx_refine_tls.origin_x _pdbx_refine_tls.origin_y _pdbx_refine_tls.origin_z _pdbx_refine_tls.T[1][1] _pdbx_refine_tls.T[2][2] _pdbx_refine_tls.T[3][3] _pdbx_refine_tls.T[1][2] _pdbx_refine_tls.T[1][3] _pdbx_refine_tls.T[2][3] _pdbx_refine_tls.L[1][1] _pdbx_refine_tls.L[2][2] _pdbx_refine_tls.L[3][3] _pdbx_refine_tls.L[1][2] _pdbx_refine_tls.L[1][3] _pdbx_refine_tls.L[2][3] _pdbx_refine_tls.S[1][1] _pdbx_refine_tls.S[1][2] _pdbx_refine_tls.S[1][3] _pdbx_refine_tls.S[2][1] _pdbx_refine_tls.S[2][2] _pdbx_refine_tls.S[2][3] _pdbx_refine_tls.S[3][1] _pdbx_refine_tls.S[3][2] _pdbx_refine_tls.S[3][3] 'X-RAY DIFFRACTION' 1 ? refined 5.6220 25.3460 3.7260 0.0900 0.0725 0.0942 0.0004 0.0155 -0.0095 0.1937 0.3904 1.4455 0.1203 -0.0357 -0.6957 -0.0158 -0.0209 0.1205 -0.0866 -0.0453 0.0283 0.1805 0.0282 0.0611 'X-RAY DIFFRACTION' 2 ? refined -3.5970 30.5200 11.4740 0.0506 0.0765 0.0562 0.0288 0.0089 0.0087 0.9904 0.8036 2.2566 0.0469 -0.0878 -0.5438 0.0500 -0.0114 0.0839 0.0533 0.0268 0.0625 -0.0611 -0.1834 -0.0768 'X-RAY DIFFRACTION' 3 ? refined 3.5470 25.7670 15.6000 0.0438 0.0457 0.0747 0.0073 -0.0024 -0.0093 0.7136 0.5618 1.2965 -0.0085 -0.4335 -0.0230 -0.0057 0.0331 -0.0594 0.0662 -0.0304 -0.0164 -0.0489 -0.0602 0.0361 'X-RAY DIFFRACTION' 4 ? refined 6.1290 20.6570 13.0660 0.0689 0.0505 0.0511 0.0200 0.0062 -0.0081 5.2979 1.8073 2.4755 2.3505 0.8803 1.4764 -0.0824 0.1905 -0.0859 0.0474 0.0100 0.0351 0.1350 0.0621 0.0723 # loop_ _pdbx_refine_tls_group.pdbx_refine_id _pdbx_refine_tls_group.id _pdbx_refine_tls_group.refine_tls_id _pdbx_refine_tls_group.beg_auth_asym_id _pdbx_refine_tls_group.beg_auth_seq_id _pdbx_refine_tls_group.beg_label_asym_id _pdbx_refine_tls_group.beg_label_seq_id _pdbx_refine_tls_group.end_auth_asym_id _pdbx_refine_tls_group.end_auth_seq_id _pdbx_refine_tls_group.end_label_asym_id _pdbx_refine_tls_group.end_label_seq_id _pdbx_refine_tls_group.selection _pdbx_refine_tls_group.selection_details 'X-RAY DIFFRACTION' 1 1 A 202 ? ? A 227 ? ? ? ? 'X-RAY DIFFRACTION' 2 2 A 228 ? ? A 249 ? ? ? ? 'X-RAY DIFFRACTION' 3 3 A 250 ? ? A 297 ? ? ? ? 'X-RAY DIFFRACTION' 4 4 A 298 ? ? A 320 ? ? ? ? # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal REFMAC refinement 5.5.0102 ? 1 SHARP phasing . ? 2 DM phasing . ? 3 BUCCANEER phasing . ? 4 # _pdbx_entry_details.entry_id 2YH5 _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ;N-TERMINAL SEQUENCE WAS ASSIGNED DUE TO SUBTILISIN TREATMENT AND X-RAY DATA ; # 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 1 NH2 A ARG 230 ? ? O A HOH 2019 ? ? 2.05 2 1 OD2 A ASP 205 ? ? O A HOH 2004 ? ? 2.09 3 1 CB A GLN 207 ? ? O A HOH 2005 ? ? 2.15 # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 CB A VAL 254 ? ? CG2 A VAL 254 ? ? 1.357 1.524 -0.167 0.021 N 2 1 CB A SER 276 ? ? OG A SER 276 ? ? 1.281 1.418 -0.137 0.013 N # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 CB A ASP 212 ? ? CG A ASP 212 ? ? OD2 A ASP 212 ? ? 112.14 118.30 -6.16 0.90 N 2 1 NE A ARG 247 ? ? CZ A ARG 247 ? ? NH1 A ARG 247 ? ? 128.78 120.30 8.48 0.50 N 3 1 NE A ARG 247 ? ? CZ A ARG 247 ? ? NH2 A ARG 247 ? ? 113.87 120.30 -6.43 0.50 N 4 1 CB A ASP 287 ? ? CG A ASP 287 ? ? OD2 A ASP 287 ? ? 112.38 118.30 -5.92 0.90 N # _pdbx_validate_torsion.id 1 _pdbx_validate_torsion.PDB_model_num 1 _pdbx_validate_torsion.auth_comp_id ASP _pdbx_validate_torsion.auth_asym_id A _pdbx_validate_torsion.auth_seq_id 287 _pdbx_validate_torsion.PDB_ins_code ? _pdbx_validate_torsion.label_alt_id ? _pdbx_validate_torsion.phi 68.04 _pdbx_validate_torsion.psi -94.84 # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 Y 0 A MET 204 ? CA A A MET 3 CA 2 1 Y 0 A MET 204 ? CB A A MET 3 CB 3 1 Y 0 A MET 204 ? CG A A MET 3 CG 4 1 Y 0 A MET 204 ? SD A A MET 3 SD 5 1 Y 0 A MET 204 ? CE A A MET 3 CE # 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 HIS 323 ? A HIS 122 2 1 Y 1 A HIS 324 ? A HIS 123 3 1 Y 1 A HIS 325 ? A HIS 124 4 1 Y 1 A HIS 326 ? A HIS 125 5 1 Y 1 A HIS 327 ? A HIS 126 6 1 Y 1 A HIS 328 ? A HIS 127 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'PHOSPHATE ION' PO4 3 water HOH #