data_3PFU # _entry.id 3PFU # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.287 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 3PFU RCSB RCSB062325 WWPDB D_1000062325 # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 1L6P 'N-TERMINAL OF DSBD (RESIDUES 20-144) FROM E. COLI (OXIDISED FORM)' unspecified PDB 1JPE 'CRYSTAL STRUCTURE OF DSBD-ALPHA; THE N-TERMINAL DOMAIN OF DSBD (OXIDISED FORM)' unspecified PDB 1VRS ;Crystal structure of the disulfide-linked complex between the N-terminal and C-terminal domain of the electron transfer catalyst DsbD ; unspecified # _pdbx_database_status.entry_id 3PFU _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site PDBJ _pdbx_database_status.recvd_initial_deposition_date 2010-10-29 _pdbx_database_status.status_code REL _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.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Mavridou, D.A.I.' 1 'Saridakis, E.' 2 'Ferguson, S.J.' 3 'Redfield, C.' 4 # _citation.id primary _citation.title 'Oxidation state-dependent protein-protein interactions in disulfide cascades' _citation.journal_abbrev J.Biol.Chem. _citation.journal_volume 286 _citation.page_first 24943 _citation.page_last 24956 _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 21543317 _citation.pdbx_database_id_DOI 10.1074/jbc.M111.236141 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Mavridou, D.A.' 1 primary 'Saridakis, E.' 2 primary 'Kritsiligkou, P.' 3 primary 'Goddard, A.D.' 4 primary 'Stevens, J.M.' 5 primary 'Ferguson, S.J.' 6 primary 'Redfield, C.' 7 # _cell.entry_id 3PFU _cell.length_a 53.740 _cell.length_b 55.552 _cell.length_c 105.209 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3PFU _symmetry.space_group_name_H-M 'C 2 2 21' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 # 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 'Thiol:disulfide interchange protein dsbD' 15618.426 1 1.8.1.8 ? 'N-terminal domain (reduced form)' ? 2 non-polymer syn 2,3-DIHYDROXY-1,4-DITHIOBUTANE 154.251 2 ? ? ? ? 3 water nat water 18.015 201 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name ;C-type cytochrome biogenesis protein cycZ, Inner membrane copper tolerance protein, Protein-disulfide reductase, Disulfide reductase ; # _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 ;MDTLFDAPGRSQFVPADQAFAFDFQQNQHDLNLTWQIKDGYYLYRKQIRITPEHAKIADVQLPQGVWHEDEFYGKSEIYR DRLTLPVTINQASAGATLTVTYQGCADAGFCYPPETKTVPLSEVVANNAAPQPVGLVPR ; _entity_poly.pdbx_seq_one_letter_code_can ;MDTLFDAPGRSQFVPADQAFAFDFQQNQHDLNLTWQIKDGYYLYRKQIRITPEHAKIADVQLPQGVWHEDEFYGKSEIYR DRLTLPVTINQASAGATLTVTYQGCADAGFCYPPETKTVPLSEVVANNAAPQPVGLVPR ; _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 MET n 1 2 ASP n 1 3 THR n 1 4 LEU n 1 5 PHE n 1 6 ASP n 1 7 ALA n 1 8 PRO n 1 9 GLY n 1 10 ARG n 1 11 SER n 1 12 GLN n 1 13 PHE n 1 14 VAL n 1 15 PRO n 1 16 ALA n 1 17 ASP n 1 18 GLN n 1 19 ALA n 1 20 PHE n 1 21 ALA n 1 22 PHE n 1 23 ASP n 1 24 PHE n 1 25 GLN n 1 26 GLN n 1 27 ASN n 1 28 GLN n 1 29 HIS n 1 30 ASP n 1 31 LEU n 1 32 ASN n 1 33 LEU n 1 34 THR n 1 35 TRP n 1 36 GLN n 1 37 ILE n 1 38 LYS n 1 39 ASP n 1 40 GLY n 1 41 TYR n 1 42 TYR n 1 43 LEU n 1 44 TYR n 1 45 ARG n 1 46 LYS n 1 47 GLN n 1 48 ILE n 1 49 ARG n 1 50 ILE n 1 51 THR n 1 52 PRO n 1 53 GLU n 1 54 HIS n 1 55 ALA n 1 56 LYS n 1 57 ILE n 1 58 ALA n 1 59 ASP n 1 60 VAL n 1 61 GLN n 1 62 LEU n 1 63 PRO n 1 64 GLN n 1 65 GLY n 1 66 VAL n 1 67 TRP n 1 68 HIS n 1 69 GLU n 1 70 ASP n 1 71 GLU n 1 72 PHE n 1 73 TYR n 1 74 GLY n 1 75 LYS n 1 76 SER n 1 77 GLU n 1 78 ILE n 1 79 TYR n 1 80 ARG n 1 81 ASP n 1 82 ARG n 1 83 LEU n 1 84 THR n 1 85 LEU n 1 86 PRO n 1 87 VAL n 1 88 THR n 1 89 ILE n 1 90 ASN n 1 91 GLN n 1 92 ALA n 1 93 SER n 1 94 ALA n 1 95 GLY n 1 96 ALA n 1 97 THR n 1 98 LEU n 1 99 THR n 1 100 VAL n 1 101 THR n 1 102 TYR n 1 103 GLN n 1 104 GLY n 1 105 CYS n 1 106 ALA n 1 107 ASP n 1 108 ALA n 1 109 GLY n 1 110 PHE n 1 111 CYS n 1 112 TYR n 1 113 PRO n 1 114 PRO n 1 115 GLU n 1 116 THR n 1 117 LYS n 1 118 THR n 1 119 VAL n 1 120 PRO n 1 121 LEU n 1 122 SER n 1 123 GLU n 1 124 VAL n 1 125 VAL n 1 126 ALA n 1 127 ASN n 1 128 ASN n 1 129 ALA n 1 130 ALA n 1 131 PRO n 1 132 GLN n 1 133 PRO n 1 134 VAL n 1 135 GLY n 1 136 LEU n 1 137 VAL n 1 138 PRO n 1 139 ARG 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 'dsbD, cutA2, cycZ, dipZ, b4136, JW5734' _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 562 _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 ? _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 DSBD_ECOLI _struct_ref.pdbx_db_accession P36655 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;LFDAPGRSQFVPADQAFAFDFQQNQHDLNLTWQIKDGYYLYRKQIRITPEHAKIADVQLPQGVWHEDEFYGKSEIYRDRL TLPVTINQASAGATLTVTYQGCADAGFCYPPETKTVPLSEVVANNAAPQPV ; _struct_ref.pdbx_align_begin 21 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 3PFU _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 4 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 134 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession P36655 _struct_ref_seq.db_align_beg 21 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 151 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 2 _struct_ref_seq.pdbx_auth_seq_align_end 132 # 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 3PFU MET A 1 ? UNP P36655 ? ? 'EXPRESSION TAG' -1 1 1 3PFU ASP A 2 ? UNP P36655 ? ? 'EXPRESSION TAG' 0 2 1 3PFU THR A 3 ? UNP P36655 ? ? 'EXPRESSION TAG' 1 3 1 3PFU GLY A 135 ? UNP P36655 ? ? 'EXPRESSION TAG' 133 4 1 3PFU LEU A 136 ? UNP P36655 ? ? 'EXPRESSION TAG' 134 5 1 3PFU VAL A 137 ? UNP P36655 ? ? 'EXPRESSION TAG' 135 6 1 3PFU PRO A 138 ? UNP P36655 ? ? 'EXPRESSION TAG' 136 7 1 3PFU ARG A 139 ? UNP P36655 ? ? 'EXPRESSION TAG' 137 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 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 DTT non-polymer . 2,3-DIHYDROXY-1,4-DITHIOBUTANE 1,4-DITHIOTHREITOL 'C4 H10 O2 S2' 154.251 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.crystals_number 1 _exptl.entry_id 3PFU _exptl.method 'X-RAY DIFFRACTION' # _exptl_crystal.id 1 _exptl_crystal.pdbx_mosaicity 0.389 _exptl_crystal.pdbx_mosaicity_esd ? _exptl_crystal.density_Matthews 2.51 _exptl_crystal.density_diffrn ? _exptl_crystal.density_meas ? _exptl_crystal.density_meas_temp ? _exptl_crystal.density_percent_sol 51.07 _exptl_crystal.size_max ? _exptl_crystal.size_mid ? _exptl_crystal.size_min ? _exptl_crystal.size_rad ? _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.pH 5.0 _exptl_crystal_grow.temp 289 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pdbx_details ;28% PEG 4000, 0.1M ammonium sulphate, 0.1M sodium acetate pH 5.0, 10mM dithiothreitol , VAPOR DIFFUSION, HANGING DROP, temperature 289K ; _exptl_crystal_grow.pdbx_pH_range . # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector 'IMAGE PLATE' _diffrn_detector.type 'RIGAKU RAXIS IV' _diffrn_detector.pdbx_collection_date 2010-02-19 _diffrn_detector.details mirrors # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.monochromator 'Ni FILTER' _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.5418 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source 'ROTATING ANODE' _diffrn_source.type RIGAKU _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 1.5418 _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? # _reflns.entry_id 3PFU _reflns.d_resolution_high 1.800 _reflns.d_resolution_low 100.000 _reflns.number_obs 14176 _reflns.pdbx_Rmerge_I_obs 0.072 _reflns.pdbx_netI_over_sigmaI 10.700 _reflns.pdbx_chi_squared 1.011 _reflns.pdbx_redundancy 4.100 _reflns.percent_possible_obs 94.400 _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I -3.0 _reflns.number_all 15011 _reflns.pdbx_Rsym_value ? _reflns.B_iso_Wilson_estimate ? _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_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # loop_ _reflns_shell.d_res_high _reflns_shell.d_res_low _reflns_shell.number_measured_obs _reflns_shell.number_measured_all _reflns_shell.number_unique_obs _reflns_shell.pdbx_rejects _reflns_shell.Rmerge_I_obs _reflns_shell.meanI_over_sigI_obs _reflns_shell.pdbx_Rsym_value _reflns_shell.pdbx_chi_squared _reflns_shell.pdbx_redundancy _reflns_shell.percent_possible_obs _reflns_shell.pdbx_netI_over_sigmaI_obs _reflns_shell.number_possible _reflns_shell.number_unique_all _reflns_shell.Rmerge_F_all _reflns_shell.Rmerge_F_obs _reflns_shell.Rmerge_I_all _reflns_shell.meanI_over_sigI_all _reflns_shell.percent_possible_all _reflns_shell.pdbx_Rrim_I_all _reflns_shell.pdbx_Rpim_I_all _reflns_shell.pdbx_ordinal _reflns_shell.pdbx_diffrn_id 1.800 1.860 ? ? ? ? 0.366 ? ? 0.802 2.300 ? ? ? 1070 ? ? ? ? 72.000 ? ? 1 1 1.860 1.940 ? ? ? ? 0.315 ? ? 0.869 3.000 ? ? ? 1344 ? ? ? ? 91.100 ? ? 2 1 1.940 2.030 ? ? ? ? 0.247 ? ? 0.950 3.600 ? ? ? 1424 ? ? ? ? 96.300 ? ? 3 1 2.030 2.130 ? ? ? ? 0.206 ? ? 0.902 4.100 ? ? ? 1463 ? ? ? ? 98.600 ? ? 4 1 2.130 2.270 ? ? ? ? 0.163 ? ? 1.012 4.400 ? ? ? 1457 ? ? ? ? 99.100 ? ? 5 1 2.270 2.440 ? ? ? ? 0.132 ? ? 0.953 4.500 ? ? ? 1479 ? ? ? ? 98.900 ? ? 6 1 2.440 2.690 ? ? ? ? 0.099 ? ? 1.070 4.500 ? ? ? 1472 ? ? ? ? 99.500 ? ? 7 1 2.690 3.080 ? ? ? ? 0.070 ? ? 1.186 4.500 ? ? ? 1486 ? ? ? ? 98.800 ? ? 8 1 3.080 3.880 ? ? ? ? 0.049 ? ? 1.123 4.600 ? ? ? 1501 ? ? ? ? 97.700 ? ? 9 1 3.880 100.000 ? ? ? ? 0.037 ? ? 0.987 4.600 ? ? ? 1480 ? ? ? ? 92.400 ? ? 10 1 # _refine.entry_id 3PFU _refine.ls_d_res_high 1.8000 _refine.ls_d_res_low 31.1300 _refine.pdbx_ls_sigma_F 0.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_percent_reflns_obs 94.5500 _refine.ls_number_reflns_obs 13445 _refine.ls_number_reflns_all ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_R_Free_selection_details RANDOM _refine.details ? _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.18632 _refine.ls_R_factor_R_work 0.18386 _refine.ls_wR_factor_R_work 0.1721 _refine.ls_R_factor_R_free 0.23343 _refine.ls_wR_factor_R_free 0.2235 _refine.ls_percent_reflns_R_free 5.1000 _refine.ls_number_reflns_R_free 717 _refine.ls_R_factor_R_free_error ? _refine.B_iso_mean 22.921 _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_isotropic_thermal_model ? _refine.aniso_B[1][1] 0.00 _refine.aniso_B[2][2] 0.01 _refine.aniso_B[3][3] 0.00 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] 0.00 _refine.aniso_B[2][3] 0.00 _refine.correlation_coeff_Fo_to_Fc 0.953 _refine.correlation_coeff_Fo_to_Fc_free 0.925 _refine.overall_SU_R_Cruickshank_DPI 0.1263 _refine.overall_SU_R_free 0.130 _refine.pdbx_overall_ESU_R_Free 0.1330 _refine.overall_SU_ML 0.084 _refine.overall_SU_B 2.699 _refine.solvent_model_details MASK _refine.pdbx_solvent_vdw_probe_radii 1.4000 _refine.pdbx_solvent_ion_probe_radii 0.8000 _refine.pdbx_solvent_shrinkage_radii 0.8000 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.pdbx_starting_model 1L6P _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.overall_FOM_work_R_set 0.8454 _refine.B_iso_max 79.210 _refine.B_iso_min 8.630 _refine.occupancy_max 1.000 _refine.occupancy_min 0.500 _refine.pdbx_ls_sigma_I ? _refine.ls_redundancy_reflns_obs ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.overall_FOM_free_R_set ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_ESU_R 0.128 _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 950 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 16 _refine_hist.number_atoms_solvent 201 _refine_hist.number_atoms_total 1167 _refine_hist.d_res_high 1.8000 _refine_hist.d_res_low 31.1300 # 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 0.023 0.022 ? 1025 'X-RAY DIFFRACTION' ? r_bond_other_d ? ? ? ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1.899 1.947 ? 1393 'X-RAY DIFFRACTION' ? r_angle_other_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 6.448 5.000 ? 118 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 33.591 25.088 ? 57 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 15.295 15.000 ? 165 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 12.143 15.000 ? 5 'X-RAY DIFFRACTION' ? r_chiral_restr 0.169 0.200 ? 151 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.010 0.021 ? 797 'X-RAY DIFFRACTION' ? r_gen_planes_other ? ? ? ? '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 1.306 1.500 ? 597 'X-RAY DIFFRACTION' ? r_mcbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcangle_it 2.226 2.000 ? 975 'X-RAY DIFFRACTION' ? r_scbond_it 3.396 3.000 ? 428 'X-RAY DIFFRACTION' ? r_scangle_it 5.520 4.500 ? 418 'X-RAY DIFFRACTION' ? r_rigid_bond_restr ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_free ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_bonded ? ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.d_res_high 1.800 _refine_ls_shell.d_res_low 1.847 _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.percent_reflns_obs 69.75 _refine_ls_shell.number_reflns_R_work 729 _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_R_work 0.327 _refine_ls_shell.R_factor_R_free 0.444 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 41 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.redundancy_reflns_obs ? # _struct.entry_id 3PFU _struct.title 'N-terminal domain of Thiol:disulfide interchange protein DsbD in its reduced form' _struct.pdbx_descriptor 'Thiol:disulfide interchange protein dsbD (E.C.1.8.1.8)' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3PFU _struct_keywords.pdbx_keywords 'ELECTRON TRANSPORT' _struct_keywords.text ;immunoglobulin-like fold, thiol disulfide oxidoreductase, periplasmic domain of transmembrane protein, OXIDOREDUCTASE, ELECTRON TRANSPORT ; # 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 _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 15 ? ALA A 19 ? PRO A 13 ALA A 17 1 ? 5 HELX_P HELX_P2 2 LYS A 46 ? ILE A 48 ? LYS A 44 ILE A 46 5 ? 3 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 4 ? B ? 4 ? C ? 4 ? # 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 A 1 2 ? anti-parallel A 2 3 ? anti-parallel A 3 4 ? anti-parallel B 1 2 ? anti-parallel B 2 3 ? anti-parallel B 3 4 ? anti-parallel C 1 2 ? anti-parallel C 2 3 ? anti-parallel C 3 4 ? 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 A 1 PHE A 20 ? ASN A 27 ? PHE A 18 ASN A 25 A 2 ASP A 30 ? ILE A 37 ? ASP A 28 ILE A 35 A 3 ASP A 81 ? TYR A 102 ? ASP A 79 TYR A 100 A 4 ARG A 49 ? ILE A 57 ? ARG A 47 ILE A 55 B 1 PHE A 20 ? ASN A 27 ? PHE A 18 ASN A 25 B 2 ASP A 30 ? ILE A 37 ? ASP A 28 ILE A 35 B 3 ASP A 81 ? TYR A 102 ? ASP A 79 TYR A 100 B 4 GLU A 115 ? PRO A 120 ? GLU A 113 PRO A 118 C 1 VAL A 66 ? ASP A 70 ? VAL A 64 ASP A 68 C 2 GLY A 74 ? TYR A 79 ? GLY A 72 TYR A 77 C 3 TYR A 41 ? TYR A 44 ? TYR A 39 TYR A 42 C 4 GLY A 104 ? ALA A 106 ? GLY A 102 ALA A 104 # 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 A 1 2 N ASN A 27 ? N ASN A 25 O ASP A 30 ? O ASP A 28 A 2 3 N LEU A 33 ? N LEU A 31 O LEU A 85 ? O LEU A 83 A 3 4 O GLN A 91 ? O GLN A 89 N LYS A 56 ? N LYS A 54 B 1 2 N ASN A 27 ? N ASN A 25 O ASP A 30 ? O ASP A 28 B 2 3 N LEU A 33 ? N LEU A 31 O LEU A 85 ? O LEU A 83 B 3 4 N VAL A 100 ? N VAL A 98 O LYS A 117 ? O LYS A 115 C 1 2 N VAL A 66 ? N VAL A 64 O ILE A 78 ? O ILE A 76 C 2 3 O TYR A 79 ? O TYR A 77 N LEU A 43 ? N LEU A 41 C 3 4 N TYR A 42 ? N TYR A 40 O CYS A 105 ? O CYS A 103 # 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 ? ? ? ? 3 'BINDING SITE FOR RESIDUE DTT A 138' AC2 Software ? ? ? ? 5 'BINDING SITE FOR RESIDUE DTT A 139' # 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 3 PHE A 72 ? PHE A 70 . ? 3_554 ? 2 AC1 3 HOH D . ? HOH A 330 . ? 1_555 ? 3 AC1 3 HOH D . ? HOH A 334 . ? 1_555 ? 4 AC2 5 ARG A 49 ? ARG A 47 . ? 1_555 ? 5 AC2 5 ILE A 50 ? ILE A 48 . ? 1_555 ? 6 AC2 5 VAL A 60 ? VAL A 58 . ? 1_555 ? 7 AC2 5 GLN A 61 ? GLN A 59 . ? 1_555 ? 8 AC2 5 LEU A 62 ? LEU A 60 . ? 1_555 ? # _atom_sites.entry_id 3PFU _atom_sites.fract_transf_matrix[1][1] 0.018608 _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] 0.018001 _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] 0.009505 _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 MET 1 -1 ? ? ? A . n A 1 2 ASP 2 0 ? ? ? A . n A 1 3 THR 3 1 ? ? ? A . n A 1 4 LEU 4 2 ? ? ? A . n A 1 5 PHE 5 3 ? ? ? A . n A 1 6 ASP 6 4 ? ? ? A . n A 1 7 ALA 7 5 ? ? ? A . n A 1 8 PRO 8 6 ? ? ? A . n A 1 9 GLY 9 7 7 GLY GLY A . n A 1 10 ARG 10 8 8 ARG ARG A . n A 1 11 SER 11 9 9 SER SER A . n A 1 12 GLN 12 10 10 GLN GLN A . n A 1 13 PHE 13 11 11 PHE PHE A . n A 1 14 VAL 14 12 12 VAL VAL A . n A 1 15 PRO 15 13 13 PRO PRO A . n A 1 16 ALA 16 14 14 ALA ALA A . n A 1 17 ASP 17 15 15 ASP ASP A . n A 1 18 GLN 18 16 16 GLN GLN A . n A 1 19 ALA 19 17 17 ALA ALA A . n A 1 20 PHE 20 18 18 PHE PHE A . n A 1 21 ALA 21 19 19 ALA ALA A . n A 1 22 PHE 22 20 20 PHE PHE A . n A 1 23 ASP 23 21 21 ASP ASP A . n A 1 24 PHE 24 22 22 PHE PHE A . n A 1 25 GLN 25 23 23 GLN GLN A . n A 1 26 GLN 26 24 24 GLN GLN A . n A 1 27 ASN 27 25 25 ASN ASN A . n A 1 28 GLN 28 26 26 GLN GLN A . n A 1 29 HIS 29 27 27 HIS HIS A . n A 1 30 ASP 30 28 28 ASP ASP A . n A 1 31 LEU 31 29 29 LEU LEU A . n A 1 32 ASN 32 30 30 ASN ASN A . n A 1 33 LEU 33 31 31 LEU LEU A . n A 1 34 THR 34 32 32 THR THR A . n A 1 35 TRP 35 33 33 TRP TRP A . n A 1 36 GLN 36 34 34 GLN GLN A . n A 1 37 ILE 37 35 35 ILE ILE A . n A 1 38 LYS 38 36 36 LYS LYS A . n A 1 39 ASP 39 37 37 ASP ASP A . n A 1 40 GLY 40 38 38 GLY GLY A . n A 1 41 TYR 41 39 39 TYR TYR A . n A 1 42 TYR 42 40 40 TYR TYR A . n A 1 43 LEU 43 41 41 LEU LEU A . n A 1 44 TYR 44 42 42 TYR TYR A . n A 1 45 ARG 45 43 43 ARG ARG A . n A 1 46 LYS 46 44 44 LYS LYS A . n A 1 47 GLN 47 45 45 GLN GLN A . n A 1 48 ILE 48 46 46 ILE ILE A . n A 1 49 ARG 49 47 47 ARG ARG A . n A 1 50 ILE 50 48 48 ILE ILE A . n A 1 51 THR 51 49 49 THR THR A . n A 1 52 PRO 52 50 50 PRO PRO A . n A 1 53 GLU 53 51 51 GLU GLU A . n A 1 54 HIS 54 52 52 HIS HIS A . n A 1 55 ALA 55 53 53 ALA ALA A . n A 1 56 LYS 56 54 54 LYS LYS A . n A 1 57 ILE 57 55 55 ILE ILE A . n A 1 58 ALA 58 56 56 ALA ALA A . n A 1 59 ASP 59 57 57 ASP ASP A . n A 1 60 VAL 60 58 58 VAL VAL A . n A 1 61 GLN 61 59 59 GLN GLN A . n A 1 62 LEU 62 60 60 LEU LEU A . n A 1 63 PRO 63 61 61 PRO PRO A . n A 1 64 GLN 64 62 62 GLN GLN A . n A 1 65 GLY 65 63 63 GLY GLY A . n A 1 66 VAL 66 64 64 VAL VAL A . n A 1 67 TRP 67 65 65 TRP TRP A . n A 1 68 HIS 68 66 66 HIS HIS A . n A 1 69 GLU 69 67 67 GLU GLU A . n A 1 70 ASP 70 68 68 ASP ASP A . n A 1 71 GLU 71 69 69 GLU GLU A . n A 1 72 PHE 72 70 70 PHE PHE A . n A 1 73 TYR 73 71 71 TYR TYR A . n A 1 74 GLY 74 72 72 GLY GLY A . n A 1 75 LYS 75 73 73 LYS LYS A . n A 1 76 SER 76 74 74 SER SER A . n A 1 77 GLU 77 75 75 GLU GLU A . n A 1 78 ILE 78 76 76 ILE ILE A . n A 1 79 TYR 79 77 77 TYR TYR A . n A 1 80 ARG 80 78 78 ARG ARG A . n A 1 81 ASP 81 79 79 ASP ASP A . n A 1 82 ARG 82 80 80 ARG ARG A . n A 1 83 LEU 83 81 81 LEU LEU A . n A 1 84 THR 84 82 82 THR THR A . n A 1 85 LEU 85 83 83 LEU LEU A . n A 1 86 PRO 86 84 84 PRO PRO A . n A 1 87 VAL 87 85 85 VAL VAL A . n A 1 88 THR 88 86 86 THR THR A . n A 1 89 ILE 89 87 87 ILE ILE A . n A 1 90 ASN 90 88 88 ASN ASN A . n A 1 91 GLN 91 89 89 GLN GLN A . n A 1 92 ALA 92 90 90 ALA ALA A . n A 1 93 SER 93 91 91 SER SER A . n A 1 94 ALA 94 92 92 ALA ALA A . n A 1 95 GLY 95 93 93 GLY GLY A . n A 1 96 ALA 96 94 94 ALA ALA A . n A 1 97 THR 97 95 95 THR THR A . n A 1 98 LEU 98 96 96 LEU LEU A . n A 1 99 THR 99 97 97 THR THR A . n A 1 100 VAL 100 98 98 VAL VAL A . n A 1 101 THR 101 99 99 THR THR A . n A 1 102 TYR 102 100 100 TYR TYR A . n A 1 103 GLN 103 101 101 GLN GLN A . n A 1 104 GLY 104 102 102 GLY GLY A . n A 1 105 CYS 105 103 103 CYS CYS A . n A 1 106 ALA 106 104 104 ALA ALA A . n A 1 107 ASP 107 105 105 ASP ASP A . n A 1 108 ALA 108 106 106 ALA ALA A . n A 1 109 GLY 109 107 107 GLY GLY A . n A 1 110 PHE 110 108 108 PHE PHE A . n A 1 111 CYS 111 109 109 CYS CYS A . n A 1 112 TYR 112 110 110 TYR TYR A . n A 1 113 PRO 113 111 111 PRO PRO A . n A 1 114 PRO 114 112 112 PRO PRO A . n A 1 115 GLU 115 113 113 GLU GLU A . n A 1 116 THR 116 114 114 THR THR A . n A 1 117 LYS 117 115 115 LYS LYS A . n A 1 118 THR 118 116 116 THR THR A . n A 1 119 VAL 119 117 117 VAL VAL A . n A 1 120 PRO 120 118 118 PRO PRO A . n A 1 121 LEU 121 119 119 LEU LEU A . n A 1 122 SER 122 120 120 SER SER A . n A 1 123 GLU 123 121 121 GLU GLU A . n A 1 124 VAL 124 122 122 VAL VAL A . n A 1 125 VAL 125 123 123 VAL VAL A . n A 1 126 ALA 126 124 124 ALA ALA A . n A 1 127 ASN 127 125 125 ASN ASN A . n A 1 128 ASN 128 126 ? ? ? A . n A 1 129 ALA 129 127 ? ? ? A . n A 1 130 ALA 130 128 ? ? ? A . n A 1 131 PRO 131 129 ? ? ? A . n A 1 132 GLN 132 130 ? ? ? A . n A 1 133 PRO 133 131 ? ? ? A . n A 1 134 VAL 134 132 ? ? ? A . n A 1 135 GLY 135 133 ? ? ? A . n A 1 136 LEU 136 134 ? ? ? A . n A 1 137 VAL 137 135 ? ? ? A . n A 1 138 PRO 138 136 ? ? ? A . n A 1 139 ARG 139 137 ? ? ? 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 DTT 1 138 1 DTT DTT A . C 2 DTT 1 139 2 DTT DTT A . D 3 HOH 1 140 1 HOH HOH A . D 3 HOH 2 141 2 HOH HOH A . D 3 HOH 3 142 142 HOH HOH A . D 3 HOH 4 143 3 HOH HOH A . D 3 HOH 5 144 4 HOH HOH A . D 3 HOH 6 145 5 HOH HOH A . D 3 HOH 7 146 6 HOH HOH A . D 3 HOH 8 147 147 HOH HOH A . D 3 HOH 9 148 148 HOH HOH A . D 3 HOH 10 149 7 HOH HOH A . D 3 HOH 11 150 150 HOH HOH A . D 3 HOH 12 151 151 HOH HOH A . D 3 HOH 13 152 152 HOH HOH A . D 3 HOH 14 153 8 HOH HOH A . D 3 HOH 15 154 154 HOH HOH A . D 3 HOH 16 155 9 HOH HOH A . D 3 HOH 17 156 10 HOH HOH A . D 3 HOH 18 157 11 HOH HOH A . D 3 HOH 19 158 12 HOH HOH A . D 3 HOH 20 159 13 HOH HOH A . D 3 HOH 21 160 14 HOH HOH A . D 3 HOH 22 161 161 HOH HOH A . D 3 HOH 23 162 162 HOH HOH A . D 3 HOH 24 163 163 HOH HOH A . D 3 HOH 25 164 164 HOH HOH A . D 3 HOH 26 165 165 HOH HOH A . D 3 HOH 27 166 166 HOH HOH A . D 3 HOH 28 167 15 HOH HOH A . D 3 HOH 29 168 168 HOH HOH A . D 3 HOH 30 169 16 HOH HOH A . D 3 HOH 31 170 17 HOH HOH A . D 3 HOH 32 171 18 HOH HOH A . D 3 HOH 33 172 172 HOH HOH A . D 3 HOH 34 173 19 HOH HOH A . D 3 HOH 35 174 20 HOH HOH A . D 3 HOH 36 175 175 HOH HOH A . D 3 HOH 37 176 21 HOH HOH A . D 3 HOH 38 177 22 HOH HOH A . D 3 HOH 39 178 23 HOH HOH A . D 3 HOH 40 179 24 HOH HOH A . D 3 HOH 41 180 25 HOH HOH A . D 3 HOH 42 181 26 HOH HOH A . D 3 HOH 43 182 27 HOH HOH A . D 3 HOH 44 183 28 HOH HOH A . D 3 HOH 45 184 29 HOH HOH A . D 3 HOH 46 185 30 HOH HOH A . D 3 HOH 47 186 31 HOH HOH A . D 3 HOH 48 187 32 HOH HOH A . D 3 HOH 49 188 33 HOH HOH A . D 3 HOH 50 189 34 HOH HOH A . D 3 HOH 51 190 37 HOH HOH A . D 3 HOH 52 191 38 HOH HOH A . D 3 HOH 53 192 39 HOH HOH A . D 3 HOH 54 193 40 HOH HOH A . D 3 HOH 55 194 41 HOH HOH A . D 3 HOH 56 195 42 HOH HOH A . D 3 HOH 57 196 43 HOH HOH A . D 3 HOH 58 197 44 HOH HOH A . D 3 HOH 59 198 45 HOH HOH A . D 3 HOH 60 199 46 HOH HOH A . D 3 HOH 61 200 47 HOH HOH A . D 3 HOH 62 201 48 HOH HOH A . D 3 HOH 63 202 49 HOH HOH A . D 3 HOH 64 203 50 HOH HOH A . D 3 HOH 65 204 52 HOH HOH A . D 3 HOH 66 205 53 HOH HOH A . D 3 HOH 67 206 54 HOH HOH A . D 3 HOH 68 207 55 HOH HOH A . D 3 HOH 69 208 56 HOH HOH A . D 3 HOH 70 209 57 HOH HOH A . D 3 HOH 71 210 58 HOH HOH A . D 3 HOH 72 211 59 HOH HOH A . D 3 HOH 73 212 60 HOH HOH A . D 3 HOH 74 213 61 HOH HOH A . D 3 HOH 75 214 63 HOH HOH A . D 3 HOH 76 215 64 HOH HOH A . D 3 HOH 77 216 65 HOH HOH A . D 3 HOH 78 217 68 HOH HOH A . D 3 HOH 79 218 69 HOH HOH A . D 3 HOH 80 219 70 HOH HOH A . D 3 HOH 81 220 72 HOH HOH A . D 3 HOH 82 221 74 HOH HOH A . D 3 HOH 83 222 76 HOH HOH A . D 3 HOH 84 223 77 HOH HOH A . D 3 HOH 85 224 78 HOH HOH A . D 3 HOH 86 225 79 HOH HOH A . D 3 HOH 87 226 81 HOH HOH A . D 3 HOH 88 227 82 HOH HOH A . D 3 HOH 89 228 83 HOH HOH A . D 3 HOH 90 229 85 HOH HOH A . D 3 HOH 91 230 86 HOH HOH A . D 3 HOH 92 231 87 HOH HOH A . D 3 HOH 93 232 88 HOH HOH A . D 3 HOH 94 233 89 HOH HOH A . D 3 HOH 95 234 90 HOH HOH A . D 3 HOH 96 235 92 HOH HOH A . D 3 HOH 97 236 93 HOH HOH A . D 3 HOH 98 237 96 HOH HOH A . D 3 HOH 99 238 97 HOH HOH A . D 3 HOH 100 239 98 HOH HOH A . D 3 HOH 101 240 99 HOH HOH A . D 3 HOH 102 241 100 HOH HOH A . D 3 HOH 103 242 101 HOH HOH A . D 3 HOH 104 243 102 HOH HOH A . D 3 HOH 105 244 104 HOH HOH A . D 3 HOH 106 245 105 HOH HOH A . D 3 HOH 107 246 107 HOH HOH A . D 3 HOH 108 247 109 HOH HOH A . D 3 HOH 109 248 112 HOH HOH A . D 3 HOH 110 249 113 HOH HOH A . D 3 HOH 111 250 115 HOH HOH A . D 3 HOH 112 251 119 HOH HOH A . D 3 HOH 113 252 120 HOH HOH A . D 3 HOH 114 253 123 HOH HOH A . D 3 HOH 115 254 126 HOH HOH A . D 3 HOH 116 255 127 HOH HOH A . D 3 HOH 117 256 129 HOH HOH A . D 3 HOH 118 257 130 HOH HOH A . D 3 HOH 119 258 136 HOH HOH A . D 3 HOH 120 259 1 HOH HOH A . D 3 HOH 121 260 4 HOH HOH A . D 3 HOH 122 261 6 HOH HOH A . D 3 HOH 123 262 9 HOH HOH A . D 3 HOH 124 263 11 HOH HOH A . D 3 HOH 125 264 13 HOH HOH A . D 3 HOH 126 265 16 HOH HOH A . D 3 HOH 127 266 20 HOH HOH A . D 3 HOH 128 267 26 HOH HOH A . D 3 HOH 129 268 28 HOH HOH A . D 3 HOH 130 269 42 HOH HOH A . D 3 HOH 131 270 58 HOH HOH A . D 3 HOH 132 271 59 HOH HOH A . D 3 HOH 133 272 60 HOH HOH A . D 3 HOH 134 273 62 HOH HOH A . D 3 HOH 135 274 69 HOH HOH A . D 3 HOH 136 275 77 HOH HOH A . D 3 HOH 137 276 2 HOH HOH A . D 3 HOH 138 277 3 HOH HOH A . D 3 HOH 139 278 9 HOH HOH A . D 3 HOH 140 279 10 HOH HOH A . D 3 HOH 141 280 50 HOH HOH A . D 3 HOH 142 281 51 HOH HOH A . D 3 HOH 143 282 1 HOH HOH A . D 3 HOH 144 283 7 HOH HOH A . D 3 HOH 145 284 8 HOH HOH A . D 3 HOH 146 285 11 HOH HOH A . D 3 HOH 147 286 57 HOH HOH A . D 3 HOH 148 287 58 HOH HOH A . D 3 HOH 149 288 60 HOH HOH A . D 3 HOH 150 289 1 HOH HOH A . D 3 HOH 151 290 5 HOH HOH A . D 3 HOH 152 291 12 HOH HOH A . D 3 HOH 153 292 24 HOH HOH A . D 3 HOH 154 293 2 HOH HOH A . D 3 HOH 155 294 6 HOH HOH A . D 3 HOH 156 295 8 HOH HOH A . D 3 HOH 157 296 56 HOH HOH A . D 3 HOH 158 297 1 HOH HOH A . D 3 HOH 159 298 3 HOH HOH A . D 3 HOH 160 299 4 HOH HOH A . D 3 HOH 161 300 5 HOH HOH A . D 3 HOH 162 301 1 HOH HOH A . D 3 HOH 163 302 2 HOH HOH A . D 3 HOH 164 303 3 HOH HOH A . D 3 HOH 165 304 5 HOH HOH A . D 3 HOH 166 305 7 HOH HOH A . D 3 HOH 167 306 9 HOH HOH A . D 3 HOH 168 307 29 HOH HOH A . D 3 HOH 169 308 64 HOH HOH A . D 3 HOH 170 309 1 HOH HOH A . D 3 HOH 171 310 2 HOH HOH A . D 3 HOH 172 311 3 HOH HOH A . D 3 HOH 173 312 8 HOH HOH A . D 3 HOH 174 313 9 HOH HOH A . D 3 HOH 175 314 2 HOH HOH A . D 3 HOH 176 315 68 HOH HOH A . D 3 HOH 177 316 80 HOH HOH A . D 3 HOH 178 317 5 HOH HOH A . D 3 HOH 179 318 7 HOH HOH A . D 3 HOH 180 319 11 HOH HOH A . D 3 HOH 181 320 71 HOH HOH A . D 3 HOH 182 321 72 HOH HOH A . D 3 HOH 183 322 73 HOH HOH A . D 3 HOH 184 323 74 HOH HOH A . D 3 HOH 185 324 76 HOH HOH A . D 3 HOH 186 325 82 HOH HOH A . D 3 HOH 187 326 1 HOH HOH A . D 3 HOH 188 327 1 HOH HOH A . D 3 HOH 189 328 2 HOH HOH A . D 3 HOH 190 329 3 HOH HOH A . D 3 HOH 191 330 1 HOH HOH A . D 3 HOH 192 331 6 HOH HOH A . D 3 HOH 193 332 7 HOH HOH A . D 3 HOH 194 333 15 HOH HOH A . D 3 HOH 195 334 20 HOH HOH A . D 3 HOH 196 335 62 HOH HOH A . D 3 HOH 197 336 64 HOH HOH A . D 3 HOH 198 337 16 HOH HOH A . D 3 HOH 199 338 32 HOH HOH A . D 3 HOH 200 339 66 HOH HOH A . D 3 HOH 201 340 69 HOH HOH A . # _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,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 2011-05-04 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2013-05-15 4 'Structure model' 1 3 2017-11-08 # _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' 'Version format compliance' 2 3 'Structure model' 'Database references' 3 4 'Structure model' 'Refinement description' # _pdbx_audit_revision_category.ordinal 1 _pdbx_audit_revision_category.revision_ordinal 4 _pdbx_audit_revision_category.data_content_type 'Structure model' _pdbx_audit_revision_category.category software # _pdbx_phasing_MR.entry_id 3PFU _pdbx_phasing_MR.method_rotation ? _pdbx_phasing_MR.method_translation ? _pdbx_phasing_MR.model_details ? _pdbx_phasing_MR.R_factor ? _pdbx_phasing_MR.R_rigid_body ? _pdbx_phasing_MR.correlation_coeff_Fo_to_Fc ? _pdbx_phasing_MR.correlation_coeff_Io_to_Ic ? _pdbx_phasing_MR.d_res_high_rotation 2.060 _pdbx_phasing_MR.d_res_low_rotation 38.630 _pdbx_phasing_MR.d_res_high_translation 2.060 _pdbx_phasing_MR.d_res_low_translation 38.630 _pdbx_phasing_MR.packing ? _pdbx_phasing_MR.reflns_percent_rotation ? _pdbx_phasing_MR.reflns_percent_translation ? _pdbx_phasing_MR.sigma_F_rotation ? _pdbx_phasing_MR.sigma_F_translation ? _pdbx_phasing_MR.sigma_I_rotation ? _pdbx_phasing_MR.sigma_I_translation ? # _phasing.method MR # loop_ _software.pdbx_ordinal _software.name _software.version _software.date _software.type _software.contact_author _software.contact_author_email _software.classification _software.location _software.language _software.citation_id 1 DENZO . ? program 'Zbyszek Otwinowski' hkl@hkl-xray.com 'data reduction' http://www.hkl-xray.com/ ? ? 2 SCALEPACK . ? program 'Zbyszek Otwinowski' hkl@hkl-xray.com 'data scaling' http://www.hkl-xray.com/ ? ? 3 MOLREP . ? program 'Alexei Vaguine' alexei@ysbl.york.ac.uk phasing http://www.ccp4.ac.uk/dist/html/molrep.html Fortran_77 ? 4 REFMAC . ? program 'Garib N. Murshudov' garib@ysbl.york.ac.uk refinement http://www.ccp4.ac.uk/dist/html/refmac5.html Fortran_77 ? 5 PDB_EXTRACT 3.10 'June 10, 2010' package PDB deposit@deposit.rcsb.org 'data extraction' http://sw-tools.pdb.org/apps/PDB_EXTRACT/ C++ ? # 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 C2 A DTT 138 ? ? O A HOH 334 ? ? 1.91 2 1 OE2 A GLU 51 ? A O A HOH 333 ? ? 2.17 3 1 NE2 A GLN 23 ? ? O A HOH 165 ? ? 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 GLN A 10 ? ? -44.72 -13.77 2 1 GLN A 26 ? ? 55.34 -115.99 3 1 ASP A 79 ? ? 71.51 -63.39 # 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 1 A ARG 8 ? CG ? A ARG 10 CG 2 1 Y 1 A ARG 8 ? CD ? A ARG 10 CD 3 1 Y 1 A ARG 8 ? NE ? A ARG 10 NE 4 1 Y 1 A ARG 8 ? CZ ? A ARG 10 CZ 5 1 Y 1 A ARG 8 ? NH1 ? A ARG 10 NH1 6 1 Y 1 A ARG 8 ? NH2 ? A ARG 10 NH2 # 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 MET -1 ? A MET 1 2 1 Y 1 A ASP 0 ? A ASP 2 3 1 Y 1 A THR 1 ? A THR 3 4 1 Y 1 A LEU 2 ? A LEU 4 5 1 Y 1 A PHE 3 ? A PHE 5 6 1 Y 1 A ASP 4 ? A ASP 6 7 1 Y 1 A ALA 5 ? A ALA 7 8 1 Y 1 A PRO 6 ? A PRO 8 9 1 Y 1 A ASN 126 ? A ASN 128 10 1 Y 1 A ALA 127 ? A ALA 129 11 1 Y 1 A ALA 128 ? A ALA 130 12 1 Y 1 A PRO 129 ? A PRO 131 13 1 Y 1 A GLN 130 ? A GLN 132 14 1 Y 1 A PRO 131 ? A PRO 133 15 1 Y 1 A VAL 132 ? A VAL 134 16 1 Y 1 A GLY 133 ? A GLY 135 17 1 Y 1 A LEU 134 ? A LEU 136 18 1 Y 1 A VAL 135 ? A VAL 137 19 1 Y 1 A PRO 136 ? A PRO 138 20 1 Y 1 A ARG 137 ? A ARG 139 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 2,3-DIHYDROXY-1,4-DITHIOBUTANE DTT 3 water HOH #