data_3QKY # _entry.id 3QKY # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.373 _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 3QKY pdb_00003qky 10.2210/pdb3qky/pdb RCSB RCSB063775 ? ? WWPDB D_1000063775 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3QKY _pdbx_database_status.recvd_initial_deposition_date 2011-02-02 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Sandoval, C.M.' 1 'Baker, S.L.' 2 'Jansen, K.' 3 'Metzner, S.I.' 4 'Sousa, M.C.' 5 # _citation.id primary _citation.title 'Crystal structure of BamD: an essential component of the beta-Barrel assembly machinery of gram-negative bacteria.' _citation.journal_abbrev J.Mol.Biol. _citation.journal_volume 409 _citation.page_first 348 _citation.page_last 357 _citation.year 2011 _citation.journal_id_ASTM JMOBAK _citation.country UK _citation.journal_id_ISSN 1089-8638 _citation.journal_id_CSD 0070 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 21463635 _citation.pdbx_database_id_DOI 10.1016/j.jmb.2011.03.035 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Sandoval, C.M.' 1 ? primary 'Baker, S.L.' 2 ? primary 'Jansen, K.' 3 ? primary 'Metzner, S.I.' 4 ? primary 'Sousa, M.C.' 5 ? # _cell.entry_id 3QKY _cell.length_a 114.370 _cell.length_b 114.370 _cell.length_c 77.630 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 9 _cell.pdbx_unique_axis ? _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.entry_id 3QKY _symmetry.space_group_name_H-M 'H 3' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 146 _symmetry.space_group_name_Hall ? # 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 'Outer membrane assembly lipoprotein YfiO' 30879.482 1 ? ? 'Residues 24-280' ? 2 water nat water 18.015 152 ? ? ? ? # _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 ;GHMAAGSGRLRHSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQ IYQIDPRVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDATQKIRELRAKLARKQYEAARLYER RELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPLLRTAEELYTR ARQRLTELEGDASLAQGQRQN ; _entity_poly.pdbx_seq_one_letter_code_can ;GHMAAGSGRLRHSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQ IYQIDPRVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDATQKIRELRAKLARKQYEAARLYER RELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPLLRTAEELYTR ARQRLTELEGDASLAQGQRQN ; _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 GLY n 1 2 HIS n 1 3 MET n 1 4 ALA n 1 5 ALA n 1 6 GLY n 1 7 SER n 1 8 GLY n 1 9 ARG n 1 10 LEU n 1 11 ARG n 1 12 HIS n 1 13 SER n 1 14 SER n 1 15 PRO n 1 16 GLN n 1 17 GLU n 1 18 ALA n 1 19 PHE n 1 20 GLU n 1 21 ARG n 1 22 ALA n 1 23 MET n 1 24 GLU n 1 25 PHE n 1 26 TYR n 1 27 ASN n 1 28 GLN n 1 29 GLY n 1 30 LYS n 1 31 TYR n 1 32 ASP n 1 33 ARG n 1 34 ALA n 1 35 ILE n 1 36 GLU n 1 37 TYR n 1 38 PHE n 1 39 LYS n 1 40 ALA n 1 41 VAL n 1 42 PHE n 1 43 THR n 1 44 TYR n 1 45 GLY n 1 46 ARG n 1 47 THR n 1 48 HIS n 1 49 GLU n 1 50 TRP n 1 51 ALA n 1 52 ALA n 1 53 ASP n 1 54 ALA n 1 55 GLN n 1 56 PHE n 1 57 TYR n 1 58 LEU n 1 59 ALA n 1 60 ARG n 1 61 ALA n 1 62 TYR n 1 63 TYR n 1 64 GLN n 1 65 ASN n 1 66 LYS n 1 67 GLU n 1 68 TYR n 1 69 LEU n 1 70 LEU n 1 71 ALA n 1 72 ALA n 1 73 SER n 1 74 GLU n 1 75 TYR n 1 76 GLU n 1 77 ARG n 1 78 PHE n 1 79 ILE n 1 80 GLN n 1 81 ILE n 1 82 TYR n 1 83 GLN n 1 84 ILE n 1 85 ASP n 1 86 PRO n 1 87 ARG n 1 88 VAL n 1 89 PRO n 1 90 GLN n 1 91 ALA n 1 92 GLU n 1 93 TYR n 1 94 GLU n 1 95 ARG n 1 96 ALA n 1 97 MET n 1 98 CYS n 1 99 TYR n 1 100 TYR n 1 101 LYS n 1 102 LEU n 1 103 SER n 1 104 PRO n 1 105 PRO n 1 106 TYR n 1 107 GLU n 1 108 LEU n 1 109 ASP n 1 110 GLN n 1 111 THR n 1 112 ASP n 1 113 THR n 1 114 ARG n 1 115 LYS n 1 116 ALA n 1 117 ILE n 1 118 GLU n 1 119 ALA n 1 120 PHE n 1 121 GLN n 1 122 LEU n 1 123 PHE n 1 124 ILE n 1 125 ASP n 1 126 ARG n 1 127 TYR n 1 128 PRO n 1 129 ASN n 1 130 HIS n 1 131 GLU n 1 132 LEU n 1 133 VAL n 1 134 ASP n 1 135 ASP n 1 136 ALA n 1 137 THR n 1 138 GLN n 1 139 LYS n 1 140 ILE n 1 141 ARG n 1 142 GLU n 1 143 LEU n 1 144 ARG n 1 145 ALA n 1 146 LYS n 1 147 LEU n 1 148 ALA n 1 149 ARG n 1 150 LYS n 1 151 GLN n 1 152 TYR n 1 153 GLU n 1 154 ALA n 1 155 ALA n 1 156 ARG n 1 157 LEU n 1 158 TYR n 1 159 GLU n 1 160 ARG n 1 161 ARG n 1 162 GLU n 1 163 LEU n 1 164 TYR n 1 165 GLU n 1 166 ALA n 1 167 ALA n 1 168 ALA n 1 169 VAL n 1 170 THR n 1 171 TYR n 1 172 GLU n 1 173 ALA n 1 174 VAL n 1 175 PHE n 1 176 ASP n 1 177 ALA n 1 178 TYR n 1 179 PRO n 1 180 ASP n 1 181 THR n 1 182 PRO n 1 183 TRP n 1 184 ALA n 1 185 ASP n 1 186 ASP n 1 187 ALA n 1 188 LEU n 1 189 VAL n 1 190 GLY n 1 191 ALA n 1 192 MET n 1 193 ARG n 1 194 ALA n 1 195 TYR n 1 196 ILE n 1 197 ALA n 1 198 TYR n 1 199 ALA n 1 200 GLU n 1 201 GLN n 1 202 SER n 1 203 VAL n 1 204 ARG n 1 205 ALA n 1 206 ARG n 1 207 GLN n 1 208 PRO n 1 209 GLU n 1 210 ARG n 1 211 TYR n 1 212 ARG n 1 213 ARG n 1 214 ALA n 1 215 VAL n 1 216 GLU n 1 217 LEU n 1 218 TYR n 1 219 GLU n 1 220 ARG n 1 221 LEU n 1 222 LEU n 1 223 GLN n 1 224 ILE n 1 225 PHE n 1 226 PRO n 1 227 ASP n 1 228 SER n 1 229 PRO n 1 230 LEU n 1 231 LEU n 1 232 ARG n 1 233 THR n 1 234 ALA n 1 235 GLU n 1 236 GLU n 1 237 LEU n 1 238 TYR n 1 239 THR n 1 240 ARG n 1 241 ALA n 1 242 ARG n 1 243 GLN n 1 244 ARG n 1 245 LEU n 1 246 THR n 1 247 GLU n 1 248 LEU n 1 249 GLU n 1 250 GLY n 1 251 ASP n 1 252 ALA n 1 253 SER n 1 254 LEU n 1 255 ALA n 1 256 GLN n 1 257 GLY n 1 258 GLN n 1 259 ARG n 1 260 GLN n 1 261 ASN 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 'Rhodothermus obamensis' _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene Rmar_0679 _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain 'ATCC 43812/DSM 4252/R-10' _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 'Rhodothermus marinus' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 518766 _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 ? _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id ? _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 ? _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 ? _entity_src_gen.pdbx_host_org_vector ? _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 D0MFQ0_RHOM4 _struct_ref.pdbx_db_accession D0MFQ0 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;AGSGRLRHSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQI DPRVPQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDATQKIRELRAKLARKQYEAARLYERRELY EAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPLLRTAEELYTRARQR LTELEGDASLAQGQRQN ; _struct_ref.pdbx_align_begin 24 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 3QKY _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 5 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 261 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession D0MFQ0 _struct_ref_seq.db_align_beg 24 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 280 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 24 _struct_ref_seq.pdbx_auth_seq_align_end 280 # 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 3QKY GLY A 1 ? UNP D0MFQ0 ? ? 'expression tag' 20 1 1 3QKY HIS A 2 ? UNP D0MFQ0 ? ? 'expression tag' 21 2 1 3QKY MET A 3 ? UNP D0MFQ0 ? ? 'expression tag' 22 3 1 3QKY ALA A 4 ? UNP D0MFQ0 ? ? 'expression tag' 23 4 # 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 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 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 3QKY _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 3.16 _exptl_crystal.density_percent_sol 61.13 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _diffrn.id 1 _diffrn.ambient_temp ? _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'ADSC QUANTUM 315r' _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 1.0 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'ALS BEAMLINE 8.2.1' _diffrn_source.pdbx_synchrotron_site ALS _diffrn_source.pdbx_synchrotron_beamline 8.2.1 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 1.0 # _reflns.entry_id 3QKY _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 42 _reflns.d_resolution_high 2.15 _reflns.number_obs 20524 _reflns.number_all ? _reflns.percent_possible_obs ? _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy ? _reflns.R_free_details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _refine.entry_id 3QKY _refine.ls_number_reflns_obs 20524 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 1.99 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low ? _refine.ls_d_res_high 2.15 _refine.ls_percent_reflns_obs 99.45 _refine.ls_R_factor_obs 0.1706 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.1687 _refine.ls_R_factor_R_free 0.2097 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.03 _refine.ls_number_reflns_R_free 1032 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean ? _refine.aniso_B[1][1] 1.8629 _refine.aniso_B[2][2] 1.8629 _refine.aniso_B[3][3] -3.7257 _refine.aniso_B[1][2] 0.0000 _refine.aniso_B[1][3] -0.0000 _refine.aniso_B[2][3] 0.0000 _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.solvent_model_param_ksol 0.409 _refine.solvent_model_param_bsol 48.338 _refine.pdbx_solvent_vdw_probe_radii 1.00 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.72 _refine.pdbx_ls_cross_valid_method ? _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ML _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML 0.30 _refine.overall_SU_B ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_overall_phase_error ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_overall_ESU_R ? _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _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 2117 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 152 _refine_hist.number_atoms_total 2269 _refine_hist.d_res_high 2.15 _refine_hist.d_res_low . # 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 f_bond_d 0.007 ? ? 2169 'X-RAY DIFFRACTION' ? f_angle_d 1.007 ? ? 2936 'X-RAY DIFFRACTION' ? f_dihedral_angle_d 15.474 ? ? 826 'X-RAY DIFFRACTION' ? f_chiral_restr 0.077 ? ? 294 'X-RAY DIFFRACTION' ? f_plane_restr 0.004 ? ? 392 'X-RAY DIFFRACTION' ? # loop_ _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_R_work _refine_ls_shell.R_factor_R_work _refine_ls_shell.percent_reflns_obs _refine_ls_shell.R_factor_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.number_reflns_R_free _refine_ls_shell.number_reflns_all _refine_ls_shell.R_factor_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.redundancy_reflns_obs _refine_ls_shell.pdbx_refine_id . 2.15 2.2616 2715 0.2072 98.00 0.2791 . . 145 . . . . 'X-RAY DIFFRACTION' . 2.2616 2.4034 2791 0.1870 100.00 0.2238 . . 148 . . . . 'X-RAY DIFFRACTION' . 2.4034 2.5889 2810 0.1809 100.00 0.2437 . . 145 . . . . 'X-RAY DIFFRACTION' . 2.5889 2.8494 2814 0.1937 100.00 0.2326 . . 153 . . . . 'X-RAY DIFFRACTION' . 2.8494 3.2617 2787 0.1813 100.00 0.2335 . . 140 . . . . 'X-RAY DIFFRACTION' . 3.2617 4.1093 2787 0.1442 99.00 0.2018 . . 147 . . . . 'X-RAY DIFFRACTION' . 4.1093 57.2052 2788 0.1560 100.00 0.1682 . . 154 . . . . 'X-RAY DIFFRACTION' # _struct.entry_id 3QKY _struct.title 'Crystal structure of Rhodothermus marinus BamD' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3QKY _struct_keywords.pdbx_keywords 'MEMBRANE PROTEIN' _struct_keywords.text 'outer membrane, MEMBRANE PROTEIN' # 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 ? # _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 SER A 14 ? GLN A 28 ? SER A 33 GLN A 47 1 ? 15 HELX_P HELX_P2 2 LYS A 30 ? PHE A 42 ? LYS A 49 PHE A 61 1 ? 13 HELX_P HELX_P3 3 THR A 43 ? GLY A 45 ? THR A 62 GLY A 64 5 ? 3 HELX_P HELX_P4 4 TRP A 50 ? ASN A 65 ? TRP A 69 ASN A 84 1 ? 16 HELX_P HELX_P5 5 GLU A 67 ? TYR A 82 ? GLU A 86 TYR A 101 1 ? 16 HELX_P HELX_P6 6 ARG A 87 ? SER A 103 ? ARG A 106 SER A 122 1 ? 17 HELX_P HELX_P7 7 GLN A 110 ? TYR A 127 ? GLN A 129 TYR A 146 1 ? 18 HELX_P HELX_P8 8 LEU A 132 ? ARG A 161 ? LEU A 151 ARG A 180 1 ? 30 HELX_P HELX_P9 9 LEU A 163 ? TYR A 178 ? LEU A 182 TYR A 197 1 ? 16 HELX_P HELX_P10 10 TRP A 183 ? GLN A 201 ? TRP A 202 GLN A 220 1 ? 19 HELX_P HELX_P11 11 VAL A 203 ? ALA A 205 ? VAL A 222 ALA A 224 5 ? 3 HELX_P HELX_P12 12 ARG A 206 ? PHE A 225 ? ARG A 225 PHE A 244 1 ? 20 HELX_P HELX_P13 13 PRO A 229 ? GLY A 250 ? PRO A 248 GLY A 269 1 ? 22 HELX_P HELX_P14 14 GLY A 257 ? ASN A 261 ? GLY A 276 ASN A 280 5 ? 5 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # _database_PDB_matrix.entry_id 3QKY _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 3QKY _atom_sites.fract_transf_matrix[1][1] 0.008744 _atom_sites.fract_transf_matrix[1][2] 0.005048 _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] 0.010096 _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] 0.012882 _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 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 GLY 1 20 ? ? ? A . n A 1 2 HIS 2 21 ? ? ? A . n A 1 3 MET 3 22 ? ? ? A . n A 1 4 ALA 4 23 ? ? ? A . n A 1 5 ALA 5 24 ? ? ? A . n A 1 6 GLY 6 25 ? ? ? A . n A 1 7 SER 7 26 ? ? ? A . n A 1 8 GLY 8 27 ? ? ? A . n A 1 9 ARG 9 28 ? ? ? A . n A 1 10 LEU 10 29 ? ? ? A . n A 1 11 ARG 11 30 30 ARG ARG A . n A 1 12 HIS 12 31 31 HIS HIS A . n A 1 13 SER 13 32 32 SER SER A . n A 1 14 SER 14 33 33 SER SER A . n A 1 15 PRO 15 34 34 PRO PRO A . n A 1 16 GLN 16 35 35 GLN GLN A . n A 1 17 GLU 17 36 36 GLU GLU A . n A 1 18 ALA 18 37 37 ALA ALA A . n A 1 19 PHE 19 38 38 PHE PHE A . n A 1 20 GLU 20 39 39 GLU GLU A . n A 1 21 ARG 21 40 40 ARG ARG A . n A 1 22 ALA 22 41 41 ALA ALA A . n A 1 23 MET 23 42 42 MET MET A . n A 1 24 GLU 24 43 43 GLU GLU A . n A 1 25 PHE 25 44 44 PHE PHE A . n A 1 26 TYR 26 45 45 TYR TYR A . n A 1 27 ASN 27 46 46 ASN ASN A . n A 1 28 GLN 28 47 47 GLN GLN A . n A 1 29 GLY 29 48 48 GLY GLY A . n A 1 30 LYS 30 49 49 LYS LYS A . n A 1 31 TYR 31 50 50 TYR TYR A . n A 1 32 ASP 32 51 51 ASP ASP A . n A 1 33 ARG 33 52 52 ARG ARG A . n A 1 34 ALA 34 53 53 ALA ALA A . n A 1 35 ILE 35 54 54 ILE ILE A . n A 1 36 GLU 36 55 55 GLU GLU A . n A 1 37 TYR 37 56 56 TYR TYR A . n A 1 38 PHE 38 57 57 PHE PHE A . n A 1 39 LYS 39 58 58 LYS LYS A . n A 1 40 ALA 40 59 59 ALA ALA A . n A 1 41 VAL 41 60 60 VAL VAL A . n A 1 42 PHE 42 61 61 PHE PHE A . n A 1 43 THR 43 62 62 THR THR A . n A 1 44 TYR 44 63 63 TYR TYR A . n A 1 45 GLY 45 64 64 GLY GLY A . n A 1 46 ARG 46 65 65 ARG ARG A . n A 1 47 THR 47 66 66 THR THR A . n A 1 48 HIS 48 67 67 HIS HIS A . n A 1 49 GLU 49 68 68 GLU GLU A . n A 1 50 TRP 50 69 69 TRP TRP A . n A 1 51 ALA 51 70 70 ALA ALA A . n A 1 52 ALA 52 71 71 ALA ALA A . n A 1 53 ASP 53 72 72 ASP ASP A . n A 1 54 ALA 54 73 73 ALA ALA A . n A 1 55 GLN 55 74 74 GLN GLN A . n A 1 56 PHE 56 75 75 PHE PHE A . n A 1 57 TYR 57 76 76 TYR TYR A . n A 1 58 LEU 58 77 77 LEU LEU A . n A 1 59 ALA 59 78 78 ALA ALA A . n A 1 60 ARG 60 79 79 ARG ARG A . n A 1 61 ALA 61 80 80 ALA ALA A . n A 1 62 TYR 62 81 81 TYR TYR A . n A 1 63 TYR 63 82 82 TYR TYR A . n A 1 64 GLN 64 83 83 GLN GLN A . n A 1 65 ASN 65 84 84 ASN ASN A . n A 1 66 LYS 66 85 85 LYS LYS A . n A 1 67 GLU 67 86 86 GLU GLU A . n A 1 68 TYR 68 87 87 TYR TYR A . n A 1 69 LEU 69 88 88 LEU LEU A . n A 1 70 LEU 70 89 89 LEU LEU A . n A 1 71 ALA 71 90 90 ALA ALA A . n A 1 72 ALA 72 91 91 ALA ALA A . n A 1 73 SER 73 92 92 SER SER A . n A 1 74 GLU 74 93 93 GLU GLU A . n A 1 75 TYR 75 94 94 TYR TYR A . n A 1 76 GLU 76 95 95 GLU GLU A . n A 1 77 ARG 77 96 96 ARG ARG A . n A 1 78 PHE 78 97 97 PHE PHE A . n A 1 79 ILE 79 98 98 ILE ILE A . n A 1 80 GLN 80 99 99 GLN GLN A . n A 1 81 ILE 81 100 100 ILE ILE A . n A 1 82 TYR 82 101 101 TYR TYR A . n A 1 83 GLN 83 102 102 GLN GLN A . n A 1 84 ILE 84 103 103 ILE ILE A . n A 1 85 ASP 85 104 104 ASP ASP A . n A 1 86 PRO 86 105 105 PRO PRO A . n A 1 87 ARG 87 106 106 ARG ARG A . n A 1 88 VAL 88 107 107 VAL VAL A . n A 1 89 PRO 89 108 108 PRO PRO A . n A 1 90 GLN 90 109 109 GLN GLN A . n A 1 91 ALA 91 110 110 ALA ALA A . n A 1 92 GLU 92 111 111 GLU GLU A . n A 1 93 TYR 93 112 112 TYR TYR A . n A 1 94 GLU 94 113 113 GLU GLU A . n A 1 95 ARG 95 114 114 ARG ARG A . n A 1 96 ALA 96 115 115 ALA ALA A . n A 1 97 MET 97 116 116 MET MET A . n A 1 98 CYS 98 117 117 CYS CYS A . n A 1 99 TYR 99 118 118 TYR TYR A . n A 1 100 TYR 100 119 119 TYR TYR A . n A 1 101 LYS 101 120 120 LYS LYS A . n A 1 102 LEU 102 121 121 LEU LEU A . n A 1 103 SER 103 122 122 SER SER A . n A 1 104 PRO 104 123 123 PRO PRO A . n A 1 105 PRO 105 124 124 PRO PRO A . n A 1 106 TYR 106 125 125 TYR TYR A . n A 1 107 GLU 107 126 126 GLU GLU A . n A 1 108 LEU 108 127 127 LEU LEU A . n A 1 109 ASP 109 128 128 ASP ASP A . n A 1 110 GLN 110 129 129 GLN GLN A . n A 1 111 THR 111 130 130 THR THR A . n A 1 112 ASP 112 131 131 ASP ASP A . n A 1 113 THR 113 132 132 THR THR A . n A 1 114 ARG 114 133 133 ARG ARG A . n A 1 115 LYS 115 134 134 LYS LYS A . n A 1 116 ALA 116 135 135 ALA ALA A . n A 1 117 ILE 117 136 136 ILE ILE A . n A 1 118 GLU 118 137 137 GLU GLU A . n A 1 119 ALA 119 138 138 ALA ALA A . n A 1 120 PHE 120 139 139 PHE PHE A . n A 1 121 GLN 121 140 140 GLN GLN A . n A 1 122 LEU 122 141 141 LEU LEU A . n A 1 123 PHE 123 142 142 PHE PHE A . n A 1 124 ILE 124 143 143 ILE ILE A . n A 1 125 ASP 125 144 144 ASP ASP A . n A 1 126 ARG 126 145 145 ARG ARG A . n A 1 127 TYR 127 146 146 TYR TYR A . n A 1 128 PRO 128 147 147 PRO PRO A . n A 1 129 ASN 129 148 148 ASN ASN A . n A 1 130 HIS 130 149 149 HIS HIS A . n A 1 131 GLU 131 150 150 GLU GLU A . n A 1 132 LEU 132 151 151 LEU LEU A . n A 1 133 VAL 133 152 152 VAL VAL A . n A 1 134 ASP 134 153 153 ASP ASP A . n A 1 135 ASP 135 154 154 ASP ASP A . n A 1 136 ALA 136 155 155 ALA ALA A . n A 1 137 THR 137 156 156 THR THR A . n A 1 138 GLN 138 157 157 GLN GLN A . n A 1 139 LYS 139 158 158 LYS LYS A . n A 1 140 ILE 140 159 159 ILE ILE A . n A 1 141 ARG 141 160 160 ARG ARG A . n A 1 142 GLU 142 161 161 GLU GLU A . n A 1 143 LEU 143 162 162 LEU LEU A . n A 1 144 ARG 144 163 163 ARG ARG A . n A 1 145 ALA 145 164 164 ALA ALA A . n A 1 146 LYS 146 165 165 LYS LYS A . n A 1 147 LEU 147 166 166 LEU LEU A . n A 1 148 ALA 148 167 167 ALA ALA A . n A 1 149 ARG 149 168 168 ARG ARG A . n A 1 150 LYS 150 169 169 LYS LYS A . n A 1 151 GLN 151 170 170 GLN GLN A . n A 1 152 TYR 152 171 171 TYR TYR A . n A 1 153 GLU 153 172 172 GLU GLU A . n A 1 154 ALA 154 173 173 ALA ALA A . n A 1 155 ALA 155 174 174 ALA ALA A . n A 1 156 ARG 156 175 175 ARG ARG A . n A 1 157 LEU 157 176 176 LEU LEU A . n A 1 158 TYR 158 177 177 TYR TYR A . n A 1 159 GLU 159 178 178 GLU GLU A . n A 1 160 ARG 160 179 179 ARG ARG A . n A 1 161 ARG 161 180 180 ARG ARG A . n A 1 162 GLU 162 181 181 GLU GLU A . n A 1 163 LEU 163 182 182 LEU LEU A . n A 1 164 TYR 164 183 183 TYR TYR A . n A 1 165 GLU 165 184 184 GLU GLU A . n A 1 166 ALA 166 185 185 ALA ALA A . n A 1 167 ALA 167 186 186 ALA ALA A . n A 1 168 ALA 168 187 187 ALA ALA A . n A 1 169 VAL 169 188 188 VAL VAL A . n A 1 170 THR 170 189 189 THR THR A . n A 1 171 TYR 171 190 190 TYR TYR A . n A 1 172 GLU 172 191 191 GLU GLU A . n A 1 173 ALA 173 192 192 ALA ALA A . n A 1 174 VAL 174 193 193 VAL VAL A . n A 1 175 PHE 175 194 194 PHE PHE A . n A 1 176 ASP 176 195 195 ASP ASP A . n A 1 177 ALA 177 196 196 ALA ALA A . n A 1 178 TYR 178 197 197 TYR TYR A . n A 1 179 PRO 179 198 198 PRO PRO A . n A 1 180 ASP 180 199 199 ASP ASP A . n A 1 181 THR 181 200 200 THR THR A . n A 1 182 PRO 182 201 201 PRO PRO A . n A 1 183 TRP 183 202 202 TRP TRP A . n A 1 184 ALA 184 203 203 ALA ALA A . n A 1 185 ASP 185 204 204 ASP ASP A . n A 1 186 ASP 186 205 205 ASP ASP A . n A 1 187 ALA 187 206 206 ALA ALA A . n A 1 188 LEU 188 207 207 LEU LEU A . n A 1 189 VAL 189 208 208 VAL VAL A . n A 1 190 GLY 190 209 209 GLY GLY A . n A 1 191 ALA 191 210 210 ALA ALA A . n A 1 192 MET 192 211 211 MET MET A . n A 1 193 ARG 193 212 212 ARG ARG A . n A 1 194 ALA 194 213 213 ALA ALA A . n A 1 195 TYR 195 214 214 TYR TYR A . n A 1 196 ILE 196 215 215 ILE ILE A . n A 1 197 ALA 197 216 216 ALA ALA A . n A 1 198 TYR 198 217 217 TYR TYR A . n A 1 199 ALA 199 218 218 ALA ALA A . n A 1 200 GLU 200 219 219 GLU GLU A . n A 1 201 GLN 201 220 220 GLN GLN A . n A 1 202 SER 202 221 221 SER SER A . n A 1 203 VAL 203 222 222 VAL VAL A . n A 1 204 ARG 204 223 223 ARG ARG A . n A 1 205 ALA 205 224 224 ALA ALA A . n A 1 206 ARG 206 225 225 ARG ARG A . n A 1 207 GLN 207 226 226 GLN GLN A . n A 1 208 PRO 208 227 227 PRO PRO A . n A 1 209 GLU 209 228 228 GLU GLU A . n A 1 210 ARG 210 229 229 ARG ARG A . n A 1 211 TYR 211 230 230 TYR TYR A . n A 1 212 ARG 212 231 231 ARG ARG A . n A 1 213 ARG 213 232 232 ARG ARG A . n A 1 214 ALA 214 233 233 ALA ALA A . n A 1 215 VAL 215 234 234 VAL VAL A . n A 1 216 GLU 216 235 235 GLU GLU A . n A 1 217 LEU 217 236 236 LEU LEU A . n A 1 218 TYR 218 237 237 TYR TYR A . n A 1 219 GLU 219 238 238 GLU GLU A . n A 1 220 ARG 220 239 239 ARG ARG A . n A 1 221 LEU 221 240 240 LEU LEU A . n A 1 222 LEU 222 241 241 LEU LEU A . n A 1 223 GLN 223 242 242 GLN GLN A . n A 1 224 ILE 224 243 243 ILE ILE A . n A 1 225 PHE 225 244 244 PHE PHE A . n A 1 226 PRO 226 245 245 PRO PRO A . n A 1 227 ASP 227 246 246 ASP ASP A . n A 1 228 SER 228 247 247 SER SER A . n A 1 229 PRO 229 248 248 PRO PRO A . n A 1 230 LEU 230 249 249 LEU LEU A . n A 1 231 LEU 231 250 250 LEU LEU A . n A 1 232 ARG 232 251 251 ARG ARG A . n A 1 233 THR 233 252 252 THR THR A . n A 1 234 ALA 234 253 253 ALA ALA A . n A 1 235 GLU 235 254 254 GLU GLU A . n A 1 236 GLU 236 255 255 GLU GLU A . n A 1 237 LEU 237 256 256 LEU LEU A . n A 1 238 TYR 238 257 257 TYR TYR A . n A 1 239 THR 239 258 258 THR THR A . n A 1 240 ARG 240 259 259 ARG ARG A . n A 1 241 ALA 241 260 260 ALA ALA A . n A 1 242 ARG 242 261 261 ARG ARG A . n A 1 243 GLN 243 262 262 GLN GLN A . n A 1 244 ARG 244 263 263 ARG ARG A . n A 1 245 LEU 245 264 264 LEU LEU A . n A 1 246 THR 246 265 265 THR THR A . n A 1 247 GLU 247 266 266 GLU GLU A . n A 1 248 LEU 248 267 267 LEU LEU A . n A 1 249 GLU 249 268 268 GLU GLU A . n A 1 250 GLY 250 269 269 GLY GLY A . n A 1 251 ASP 251 270 270 ASP ASP A . n A 1 252 ALA 252 271 271 ALA ALA A . n A 1 253 SER 253 272 272 SER SER A . n A 1 254 LEU 254 273 273 LEU LEU A . n A 1 255 ALA 255 274 274 ALA ALA A . n A 1 256 GLN 256 275 275 GLN GLN A . n A 1 257 GLY 257 276 276 GLY GLY A . n A 1 258 GLN 258 277 277 GLN GLN A . n A 1 259 ARG 259 278 278 ARG ARG A . n A 1 260 GLN 260 279 279 GLN GLN A . n A 1 261 ASN 261 280 280 ASN ASN 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 HOH 1 1 1 HOH HOH A . B 2 HOH 2 2 2 HOH HOH A . B 2 HOH 3 3 3 HOH HOH A . B 2 HOH 4 4 4 HOH HOH A . B 2 HOH 5 5 5 HOH HOH A . B 2 HOH 6 6 6 HOH HOH A . B 2 HOH 7 7 7 HOH HOH A . B 2 HOH 8 8 8 HOH HOH A . B 2 HOH 9 9 9 HOH HOH A . B 2 HOH 10 10 10 HOH HOH A . B 2 HOH 11 11 11 HOH HOH A . B 2 HOH 12 12 12 HOH HOH A . B 2 HOH 13 13 13 HOH HOH A . B 2 HOH 14 14 14 HOH HOH A . B 2 HOH 15 15 15 HOH HOH A . B 2 HOH 16 16 16 HOH HOH A . B 2 HOH 17 17 17 HOH HOH A . B 2 HOH 18 18 18 HOH HOH A . B 2 HOH 19 19 19 HOH HOH A . B 2 HOH 20 281 20 HOH HOH A . B 2 HOH 21 282 21 HOH HOH A . B 2 HOH 22 283 22 HOH HOH A . B 2 HOH 23 284 23 HOH HOH A . B 2 HOH 24 285 24 HOH HOH A . B 2 HOH 25 286 25 HOH HOH A . B 2 HOH 26 287 26 HOH HOH A . B 2 HOH 27 288 27 HOH HOH A . B 2 HOH 28 289 28 HOH HOH A . B 2 HOH 29 290 29 HOH HOH A . B 2 HOH 30 291 30 HOH HOH A . B 2 HOH 31 292 31 HOH HOH A . B 2 HOH 32 293 32 HOH HOH A . B 2 HOH 33 294 33 HOH HOH A . B 2 HOH 34 295 34 HOH HOH A . B 2 HOH 35 296 35 HOH HOH A . B 2 HOH 36 297 36 HOH HOH A . B 2 HOH 37 298 37 HOH HOH A . B 2 HOH 38 299 38 HOH HOH A . B 2 HOH 39 300 39 HOH HOH A . B 2 HOH 40 301 40 HOH HOH A . B 2 HOH 41 302 41 HOH HOH A . B 2 HOH 42 303 42 HOH HOH A . B 2 HOH 43 304 43 HOH HOH A . B 2 HOH 44 305 44 HOH HOH A . B 2 HOH 45 306 45 HOH HOH A . B 2 HOH 46 307 46 HOH HOH A . B 2 HOH 47 308 47 HOH HOH A . B 2 HOH 48 309 48 HOH HOH A . B 2 HOH 49 310 49 HOH HOH A . B 2 HOH 50 311 50 HOH HOH A . B 2 HOH 51 312 51 HOH HOH A . B 2 HOH 52 313 52 HOH HOH A . B 2 HOH 53 314 53 HOH HOH A . B 2 HOH 54 315 54 HOH HOH A . B 2 HOH 55 316 55 HOH HOH A . B 2 HOH 56 317 56 HOH HOH A . B 2 HOH 57 318 57 HOH HOH A . B 2 HOH 58 319 58 HOH HOH A . B 2 HOH 59 320 59 HOH HOH A . B 2 HOH 60 321 60 HOH HOH A . B 2 HOH 61 322 61 HOH HOH A . B 2 HOH 62 323 62 HOH HOH A . B 2 HOH 63 324 63 HOH HOH A . B 2 HOH 64 325 64 HOH HOH A . B 2 HOH 65 326 65 HOH HOH A . B 2 HOH 66 327 66 HOH HOH A . B 2 HOH 67 328 67 HOH HOH A . B 2 HOH 68 329 68 HOH HOH A . B 2 HOH 69 330 69 HOH HOH A . B 2 HOH 70 331 70 HOH HOH A . B 2 HOH 71 332 71 HOH HOH A . B 2 HOH 72 333 72 HOH HOH A . B 2 HOH 73 334 73 HOH HOH A . B 2 HOH 74 335 74 HOH HOH A . B 2 HOH 75 336 75 HOH HOH A . B 2 HOH 76 337 76 HOH HOH A . B 2 HOH 77 338 77 HOH HOH A . B 2 HOH 78 339 78 HOH HOH A . B 2 HOH 79 340 79 HOH HOH A . B 2 HOH 80 341 80 HOH HOH A . B 2 HOH 81 342 81 HOH HOH A . B 2 HOH 82 343 82 HOH HOH A . B 2 HOH 83 344 83 HOH HOH A . B 2 HOH 84 345 84 HOH HOH A . B 2 HOH 85 346 85 HOH HOH A . B 2 HOH 86 347 86 HOH HOH A . B 2 HOH 87 348 87 HOH HOH A . B 2 HOH 88 349 88 HOH HOH A . B 2 HOH 89 350 89 HOH HOH A . B 2 HOH 90 351 90 HOH HOH A . B 2 HOH 91 352 91 HOH HOH A . B 2 HOH 92 353 92 HOH HOH A . B 2 HOH 93 354 93 HOH HOH A . B 2 HOH 94 355 94 HOH HOH A . B 2 HOH 95 356 95 HOH HOH A . B 2 HOH 96 357 96 HOH HOH A . B 2 HOH 97 358 97 HOH HOH A . B 2 HOH 98 359 98 HOH HOH A . B 2 HOH 99 360 99 HOH HOH A . B 2 HOH 100 361 100 HOH HOH A . B 2 HOH 101 362 101 HOH HOH A . B 2 HOH 102 363 102 HOH HOH A . B 2 HOH 103 364 103 HOH HOH A . B 2 HOH 104 365 104 HOH HOH A . B 2 HOH 105 366 105 HOH HOH A . B 2 HOH 106 367 106 HOH HOH A . B 2 HOH 107 368 107 HOH HOH A . B 2 HOH 108 369 108 HOH HOH A . B 2 HOH 109 370 109 HOH HOH A . B 2 HOH 110 371 110 HOH HOH A . B 2 HOH 111 372 111 HOH HOH A . B 2 HOH 112 373 112 HOH HOH A . B 2 HOH 113 374 113 HOH HOH A . B 2 HOH 114 375 114 HOH HOH A . B 2 HOH 115 376 115 HOH HOH A . B 2 HOH 116 377 116 HOH HOH A . B 2 HOH 117 378 117 HOH HOH A . B 2 HOH 118 379 118 HOH HOH A . B 2 HOH 119 380 119 HOH HOH A . B 2 HOH 120 381 120 HOH HOH A . B 2 HOH 121 382 121 HOH HOH A . B 2 HOH 122 383 122 HOH HOH A . B 2 HOH 123 384 123 HOH HOH A . B 2 HOH 124 385 124 HOH HOH A . B 2 HOH 125 386 125 HOH HOH A . B 2 HOH 126 387 126 HOH HOH A . B 2 HOH 127 388 127 HOH HOH A . B 2 HOH 128 389 128 HOH HOH A . B 2 HOH 129 390 129 HOH HOH A . B 2 HOH 130 391 130 HOH HOH A . B 2 HOH 131 392 131 HOH HOH A . B 2 HOH 132 393 132 HOH HOH A . B 2 HOH 133 394 133 HOH HOH A . B 2 HOH 134 395 134 HOH HOH A . B 2 HOH 135 396 135 HOH HOH A . B 2 HOH 136 397 136 HOH HOH A . B 2 HOH 137 398 137 HOH HOH A . B 2 HOH 138 399 138 HOH HOH A . B 2 HOH 139 400 139 HOH HOH A . B 2 HOH 140 401 140 HOH HOH A . B 2 HOH 141 402 141 HOH HOH A . B 2 HOH 142 403 142 HOH HOH A . B 2 HOH 143 404 143 HOH HOH A . B 2 HOH 144 405 144 HOH HOH A . B 2 HOH 145 406 145 HOH HOH A . B 2 HOH 146 407 146 HOH HOH A . B 2 HOH 147 408 147 HOH HOH A . B 2 HOH 148 409 148 HOH HOH A . B 2 HOH 149 410 149 HOH HOH A . B 2 HOH 150 411 150 HOH HOH A . B 2 HOH 151 412 151 HOH HOH A . B 2 HOH 152 413 152 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 # _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_struct_special_symmetry.id _pdbx_struct_special_symmetry.PDB_model_num _pdbx_struct_special_symmetry.auth_asym_id _pdbx_struct_special_symmetry.auth_comp_id _pdbx_struct_special_symmetry.auth_seq_id _pdbx_struct_special_symmetry.PDB_ins_code _pdbx_struct_special_symmetry.label_asym_id _pdbx_struct_special_symmetry.label_comp_id _pdbx_struct_special_symmetry.label_seq_id 1 1 A HOH 1 ? B HOH . 2 1 A HOH 316 ? B HOH . 3 1 A HOH 399 ? B HOH . # 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 2011-04-20 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2011-11-16 4 'Structure model' 1 3 2023-07-26 # _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' 'Version format compliance' 2 3 'Structure model' 'Atomic model' 3 4 'Structure model' 'Database references' # 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 4 'Structure model' citation 2 4 'Structure model' database_2 3 4 'Structure model' struct_ref_seq_dif # 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 4 'Structure model' '_citation.journal_volume' 2 4 'Structure model' '_citation.page_first' 3 4 'Structure model' '_citation.page_last' 4 4 'Structure model' '_citation.title' 5 4 'Structure model' '_database_2.pdbx_DOI' 6 4 'Structure model' '_database_2.pdbx_database_accession' 7 4 'Structure model' '_struct_ref_seq_dif.details' # 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 34.2869 18.1576 85.0399 0.6419 0.2390 0.3315 -0.0930 0.2136 0.0685 0.9605 0.7792 2.0597 0.8766 1.2584 1.0042 0.3079 -0.1858 -0.2895 0.8595 -0.1681 0.1606 0.8950 -0.0465 0.1288 'X-RAY DIFFRACTION' 2 ? refined 41.5367 22.7949 84.6454 0.6111 0.1606 0.2475 -0.0108 0.0997 0.0441 0.5727 1.2405 0.3081 0.6164 -0.2826 0.0089 -0.0486 -0.3196 -0.0111 1.2087 -0.0496 0.1119 0.1080 -0.1050 0.0622 'X-RAY DIFFRACTION' 3 ? refined 39.9497 35.1586 72.8282 0.2484 0.1613 0.2262 -0.0011 0.0690 0.0343 0.0276 2.9590 0.9228 0.1375 -0.1824 -0.4989 -0.0297 0.0602 -0.0807 0.5991 0.0740 0.2550 -0.0497 -0.0641 -0.0184 'X-RAY DIFFRACTION' 4 ? refined 44.8153 36.8895 61.7116 0.2029 0.2096 0.2402 -0.0338 -0.0186 0.0099 1.8989 1.5576 0.0693 -0.6827 -0.3250 -0.2502 0.1227 0.3771 0.1072 -0.3685 -0.0913 0.0615 -0.0552 0.0876 -0.0192 'X-RAY DIFFRACTION' 5 ? refined 32.6556 59.3436 55.3410 0.1888 0.2231 0.1967 -0.0018 -0.0406 0.0273 0.7112 1.6142 0.7887 -0.6264 -0.0556 -0.2685 0.2113 0.1077 -0.2280 -0.3618 -0.0468 0.1767 -0.0548 -0.0380 -0.1385 'X-RAY DIFFRACTION' 6 ? refined 35.8847 58.4481 48.5172 0.1667 0.1856 0.1143 -0.0134 -0.0192 0.0089 0.5548 1.2713 0.6916 0.3946 0.0386 0.0244 0.1134 0.0481 -0.0573 -0.2406 -0.0075 0.0631 -0.0603 -0.1122 -0.1026 'X-RAY DIFFRACTION' 7 ? refined 39.9272 71.6809 44.1786 0.2293 0.2183 0.1746 -0.0161 -0.0093 0.0093 0.8347 2.0167 1.1327 0.8711 0.0222 -1.1894 0.2708 0.0788 0.0602 0.1519 -0.2034 -0.3103 -0.2596 0.0511 0.0017 'X-RAY DIFFRACTION' 8 ? refined 39.2442 53.1445 39.2237 0.4183 0.2195 0.2836 -0.0063 -0.0482 -0.0426 2.1516 1.4519 1.2566 -0.0851 -0.4223 -0.9196 -0.2483 0.0021 -0.3860 -0.5185 0.3778 -0.3035 0.5495 0.2289 -0.0418 'X-RAY DIFFRACTION' 9 ? refined 38.6603 72.6269 35.7316 0.2582 0.2962 0.2137 0.0529 0.0014 0.0069 1.0814 0.7563 2.6577 -0.0884 -0.0714 -0.4034 -0.0555 -0.0153 0.3301 -0.1717 -0.0268 0.1575 -0.1843 -0.0659 0.0683 'X-RAY DIFFRACTION' 10 ? refined 48.2460 81.0927 47.0604 0.4630 0.4235 0.5709 0.1017 0.0711 0.1146 2.7208 4.6567 5.0159 -0.2039 -0.1995 2.6387 -0.3157 -0.0363 0.0127 -0.7645 0.1567 0.0305 -0.7282 0.7013 0.0731 # 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 ? ? ? ? ? ? ? ? ? '(chain A and resid 11:32)' 'X-RAY DIFFRACTION' 2 2 ? ? ? ? ? ? ? ? ? '(chain A and resid 33:61)' 'X-RAY DIFFRACTION' 3 3 ? ? ? ? ? ? ? ? ? '(chain A and resid 62:113)' 'X-RAY DIFFRACTION' 4 4 ? ? ? ? ? ? ? ? ? '(chain A and resid 114:143)' 'X-RAY DIFFRACTION' 5 5 ? ? ? ? ? ? ? ? ? '(chain A and resid 144:177)' 'X-RAY DIFFRACTION' 6 6 ? ? ? ? ? ? ? ? ? '(chain A and resid 178:199)' 'X-RAY DIFFRACTION' 7 7 ? ? ? ? ? ? ? ? ? '(chain A and resid 200:219)' 'X-RAY DIFFRACTION' 8 8 ? ? ? ? ? ? ? ? ? '(chain A and resid 220:234)' 'X-RAY DIFFRACTION' 9 9 ? ? ? ? ? ? ? ? ? '(chain A and resid 235:254)' 'X-RAY DIFFRACTION' 10 10 ? ? ? ? ? ? ? ? ? '(chain A and resid 255:261)' # _software.name PHENIX _software.classification refinement _software.version '(phenix.refine: 1.6.4_486)' _software.citation_id ? _software.pdbx_ordinal 1 # 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 OH A TYR 217 ? ? O A HOH 318 ? ? 1.92 2 1 O A HOH 402 ? ? O A HOH 412 ? ? 1.93 3 1 O A HOH 356 ? ? O A HOH 358 ? ? 2.01 4 1 O A HOH 309 ? ? O A HOH 359 ? ? 2.01 5 1 OD2 A ASP 131 ? ? O A HOH 296 ? ? 2.07 6 1 O A HOH 315 ? ? O A HOH 369 ? ? 2.12 7 1 OH A TYR 125 ? ? O A HOH 385 ? ? 2.13 8 1 OD1 A ASP 204 ? ? O A HOH 16 ? ? 2.15 9 1 OD1 A ASP 205 ? ? O A HOH 16 ? ? 2.16 10 1 SD A MET 211 ? ? O A HOH 306 ? ? 2.19 # 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 PHE A 244 ? ? -114.33 62.93 2 1 GLN A 275 ? ? 84.47 105.88 # 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 GLY 20 ? A GLY 1 2 1 Y 1 A HIS 21 ? A HIS 2 3 1 Y 1 A MET 22 ? A MET 3 4 1 Y 1 A ALA 23 ? A ALA 4 5 1 Y 1 A ALA 24 ? A ALA 5 6 1 Y 1 A GLY 25 ? A GLY 6 7 1 Y 1 A SER 26 ? A SER 7 8 1 Y 1 A GLY 27 ? A GLY 8 9 1 Y 1 A ARG 28 ? A ARG 9 10 1 Y 1 A LEU 29 ? A LEU 10 # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH #