data_4FO5 # _entry.id 4FO5 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.365 _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 4FO5 pdb_00004fo5 10.2210/pdb4fo5/pdb RCSB RCSB073143 ? ? WWPDB D_1000073143 ? ? # _pdbx_database_related.db_name TargetTrack _pdbx_database_related.db_id JCSG-419068 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.SG_entry Y _pdbx_database_status.entry_id 4FO5 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2012-06-20 _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? # _audit_author.name 'Joint Center for Structural Genomics (JCSG)' _audit_author.pdbx_ordinal 1 # _citation.id primary _citation.title 'Crystal structure of a thioredoxin-like protein (BDI_1100) from Parabacteroides distasonis ATCC 8503 at 2.02 A resolution' _citation.journal_abbrev 'To be published' _citation.journal_volume ? _citation.page_first ? _citation.page_last ? _citation.year ? _citation.journal_id_ASTM ? _citation.country ? _citation.journal_id_ISSN ? _citation.journal_id_CSD 0353 _citation.book_publisher ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_DOI ? # _citation_author.citation_id primary _citation_author.name 'Joint Center for Structural Genomics (JCSG)' _citation_author.ordinal 1 _citation_author.identifier_ORCID ? # _cell.entry_id 4FO5 _cell.length_a 33.164 _cell.length_b 49.343 _cell.length_c 40.523 _cell.angle_alpha 90.000 _cell.angle_beta 112.180 _cell.angle_gamma 90.000 _cell.pdbx_unique_axis ? _cell.Z_PDB 2 _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 4FO5 _symmetry.Int_Tables_number 4 _symmetry.space_group_name_H-M 'P 1 21 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _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 'thioredoxin-like protein' 16157.021 1 ? ? ? ? 2 non-polymer syn 'CHLORIDE ION' 35.453 1 ? ? ? ? 3 water nat water 18.015 53 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code ;GKLTEGVNPGDLAPRIEFLGNDAKASFHNQLGRYTLLNFWAAYDAESRARNVQLANEVNKFGPDKIA(MSE)CSIS (MSE)DEKESIFTETVKIDKLDLSTQFHEGLGKESELYKKYDLRKGFKNFLINDEGVIIAANVTPEKLTEILKAI ; _entity_poly.pdbx_seq_one_letter_code_can ;GKLTEGVNPGDLAPRIEFLGNDAKASFHNQLGRYTLLNFWAAYDAESRARNVQLANEVNKFGPDKIAMCSISMDEKESIF TETVKIDKLDLSTQFHEGLGKESELYKKYDLRKGFKNFLINDEGVIIAANVTPEKLTEILKAI ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier JCSG-419068 # 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 LYS n 1 3 LEU n 1 4 THR n 1 5 GLU n 1 6 GLY n 1 7 VAL n 1 8 ASN n 1 9 PRO n 1 10 GLY n 1 11 ASP n 1 12 LEU n 1 13 ALA n 1 14 PRO n 1 15 ARG n 1 16 ILE n 1 17 GLU n 1 18 PHE n 1 19 LEU n 1 20 GLY n 1 21 ASN n 1 22 ASP n 1 23 ALA n 1 24 LYS n 1 25 ALA n 1 26 SER n 1 27 PHE n 1 28 HIS n 1 29 ASN n 1 30 GLN n 1 31 LEU n 1 32 GLY n 1 33 ARG n 1 34 TYR n 1 35 THR n 1 36 LEU n 1 37 LEU n 1 38 ASN n 1 39 PHE n 1 40 TRP n 1 41 ALA n 1 42 ALA n 1 43 TYR n 1 44 ASP n 1 45 ALA n 1 46 GLU n 1 47 SER n 1 48 ARG n 1 49 ALA n 1 50 ARG n 1 51 ASN n 1 52 VAL n 1 53 GLN n 1 54 LEU n 1 55 ALA n 1 56 ASN n 1 57 GLU n 1 58 VAL n 1 59 ASN n 1 60 LYS n 1 61 PHE n 1 62 GLY n 1 63 PRO n 1 64 ASP n 1 65 LYS n 1 66 ILE n 1 67 ALA n 1 68 MSE n 1 69 CYS n 1 70 SER n 1 71 ILE n 1 72 SER n 1 73 MSE n 1 74 ASP n 1 75 GLU n 1 76 LYS n 1 77 GLU n 1 78 SER n 1 79 ILE n 1 80 PHE n 1 81 THR n 1 82 GLU n 1 83 THR n 1 84 VAL n 1 85 LYS n 1 86 ILE n 1 87 ASP n 1 88 LYS n 1 89 LEU n 1 90 ASP n 1 91 LEU n 1 92 SER n 1 93 THR n 1 94 GLN n 1 95 PHE n 1 96 HIS n 1 97 GLU n 1 98 GLY n 1 99 LEU n 1 100 GLY n 1 101 LYS n 1 102 GLU n 1 103 SER n 1 104 GLU n 1 105 LEU n 1 106 TYR n 1 107 LYS n 1 108 LYS n 1 109 TYR n 1 110 ASP n 1 111 LEU n 1 112 ARG n 1 113 LYS n 1 114 GLY n 1 115 PHE n 1 116 LYS n 1 117 ASN n 1 118 PHE n 1 119 LEU n 1 120 ILE n 1 121 ASN n 1 122 ASP n 1 123 GLU n 1 124 GLY n 1 125 VAL n 1 126 ILE n 1 127 ILE n 1 128 ALA n 1 129 ALA n 1 130 ASN n 1 131 VAL n 1 132 THR n 1 133 PRO n 1 134 GLU n 1 135 LYS n 1 136 LEU n 1 137 THR n 1 138 GLU n 1 139 ILE n 1 140 LEU n 1 141 LYS n 1 142 ALA n 1 143 ILE 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 BDI_1100 _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain 'ATCC 8503' _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 'Parabacteroides distasonis' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 435591 _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 PB1 _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 ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name SpeedET _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code A6LAZ9_PARD8 _struct_ref.pdbx_db_accession A6LAZ9 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;KLTEGVNPGDLAPRIEFLGNDAKASFHNQLGRYTLLNFWAAYDAESRARNVQLANEVNKFGPDKIAMCSISMDEKESIFT ETVKIDKLDLSTQFHEGLGKESELYKKYDLRKGFKNFLINDEGVIIAANVTPEKLTEILKAI ; _struct_ref.pdbx_align_begin 25 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 4FO5 _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 2 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 143 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession A6LAZ9 _struct_ref_seq.db_align_beg 25 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 166 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 25 _struct_ref_seq.pdbx_auth_seq_align_end 166 # _struct_ref_seq_dif.align_id 1 _struct_ref_seq_dif.pdbx_pdb_id_code 4FO5 _struct_ref_seq_dif.mon_id GLY _struct_ref_seq_dif.pdbx_pdb_strand_id A _struct_ref_seq_dif.seq_num 1 _struct_ref_seq_dif.pdbx_pdb_ins_code ? _struct_ref_seq_dif.pdbx_seq_db_name UNP _struct_ref_seq_dif.pdbx_seq_db_accession_code A6LAZ9 _struct_ref_seq_dif.db_mon_id ? _struct_ref_seq_dif.pdbx_seq_db_seq_num ? _struct_ref_seq_dif.details 'expression tag' _struct_ref_seq_dif.pdbx_auth_seq_num 0 _struct_ref_seq_dif.pdbx_ordinal 1 # 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 CL non-polymer . 'CHLORIDE ION' ? 'Cl -1' 35.453 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 MSE 'L-peptide linking' n SELENOMETHIONINE ? 'C5 H11 N O2 Se' 196.106 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.method 'X-RAY DIFFRACTION' _exptl.entry_id 4FO5 # _exptl_crystal.id 1 _exptl_crystal.density_Matthews 1.90 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 35.27 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.pH 8.5 _exptl_crystal_grow.temp 277 _exptl_crystal_grow.pdbx_details ;0.2M sodium acetate, 30.0% polyethylene glycol 4000, 0.1M tris hydrochloride pH 8.5, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K ; _exptl_crystal_grow.temp_details ? _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 CCD _diffrn_detector.type 'MARMOSAIC 325 mm CCD' _diffrn_detector.details 'double crystal monochromator' _diffrn_detector.pdbx_collection_date 2012-05-03 # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'double crystal' _diffrn_radiation.pdbx_diffrn_protocol MAD _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_scattering_type x-ray # loop_ _diffrn_radiation_wavelength.id _diffrn_radiation_wavelength.wavelength _diffrn_radiation_wavelength.wt 1 0.91162 1.0 2 0.97922 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.pdbx_synchrotron_beamline BL9-2 _diffrn_source.type 'SSRL BEAMLINE BL9-2' _diffrn_source.pdbx_wavelength_list 0.91162,0.97922 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_site SSRL # _reflns.entry_id 4FO5 _reflns.d_resolution_high 2.02 _reflns.d_resolution_low 29.869 _reflns.number_obs 8038 _reflns.pdbx_Rmerge_I_obs 0.065 _reflns.pdbx_netI_over_sigmaI 15.580 _reflns.percent_possible_obs 98.900 _reflns.B_iso_Wilson_estimate 36.337 _reflns.observed_criterion_sigma_I -3.000 _reflns.observed_criterion_sigma_F ? _reflns.number_all ? _reflns.pdbx_Rsym_value ? _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_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.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.number_unique_all _reflns_shell.percent_possible_all _reflns_shell.pdbx_ordinal _reflns_shell.pdbx_diffrn_id 2.020 2.090 2596 ? 1516 0.439 2.4 ? ? ? ? ? 97.400 1 1 2.090 2.180 2792 ? 1620 0.314 3.1 ? ? ? ? ? 98.500 2 1 2.180 2.270 2762 ? 1393 0.420 4.2 ? ? ? ? ? 97.800 3 1 2.270 2.390 5092 ? 1580 0.477 5.5 ? ? ? ? ? 98.900 4 1 2.390 2.540 6212 ? 1564 0.430 6.9 ? ? ? ? ? 99.400 5 1 2.540 2.740 8380 ? 1607 0.294 9.9 ? ? ? ? ? 99.300 6 1 2.740 3.020 9117 ? 1572 0.154 15.9 ? ? ? ? ? 99.400 7 1 3.020 3.450 8919 ? 1539 0.077 25.7 ? ? ? ? ? 100.0 8 1 3.450 4.340 8983 ? 1551 0.043 36.3 ? ? ? ? ? 99.200 9 1 4.340 ? 9074 ? 1583 0.030 44.9 ? ? ? ? ? 99.100 10 1 # _refine.entry_id 4FO5 _refine.ls_d_res_high 2.0200 _refine.ls_d_res_low 29.869 _refine.pdbx_ls_sigma_F 0.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_percent_reflns_obs 99.7500 _refine.ls_number_reflns_obs 8027 _refine.ls_number_reflns_all ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_R_Free_selection_details RANDOM _refine.details ;1.A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET INCORPORATION. 2.ATOM RECORD CONTAINS SUM OF TLS AND RESIDUAL B FACTORS. ANISOU RECORD CONTAINS SUM OF TLS AND RESIDUAL U FACTORS. 3.CHLORIDE (CL) MODELED IN THE SOLVENT STRUCTURE IS PRESENT IN THE CRYSTALLIZATION CONDITION. 4.EXPERIMENTAL PHASES FROM MAD PHASING WERE USED AS RESTRAINTS DURING CRYSTALLOGRAPHIC REFINEMENT. ; _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.1772 _refine.ls_R_factor_R_work 0.1757 _refine.ls_wR_factor_R_work ? _refine.ls_R_factor_R_free 0.2084 _refine.ls_wR_factor_R_free ? _refine.ls_percent_reflns_R_free 4.6300 _refine.ls_number_reflns_R_free 372 _refine.ls_R_factor_R_free_error ? _refine.B_iso_mean 47.6271 _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_isotropic_thermal_model ? _refine.aniso_B[1][1] 6.6013 _refine.aniso_B[2][2] 2.7786 _refine.aniso_B[3][3] -9.3799 _refine.aniso_B[1][2] 0.0000 _refine.aniso_B[1][3] -0.2322 _refine.aniso_B[2][3] 0.0000 _refine.correlation_coeff_Fo_to_Fc 0.9599 _refine.correlation_coeff_Fo_to_Fc_free 0.9504 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.solvent_model_details ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct MAD _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.overall_FOM_work_R_set ? _refine.B_iso_max 108.300 _refine.B_iso_min 23.490 _refine.pdbx_overall_phase_error ? _refine.occupancy_max 1.000 _refine.occupancy_min 0.400 _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_diffrn_id 1 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _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_analyze.entry_id 4FO5 _refine_analyze.Luzzati_coordinate_error_obs 0.305 _refine_analyze.Luzzati_sigma_a_obs ? _refine_analyze.Luzzati_d_res_low_obs ? _refine_analyze.Luzzati_coordinate_error_free ? _refine_analyze.Luzzati_sigma_a_free ? _refine_analyze.Luzzati_d_res_low_free ? _refine_analyze.number_disordered_residues ? _refine_analyze.occupancy_sum_non_hydrogen ? _refine_analyze.occupancy_sum_hydrogen ? _refine_analyze.pdbx_Luzzati_d_res_high_obs ? _refine_analyze.pdbx_refine_id 'X-RAY DIFFRACTION' # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 1043 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 1 _refine_hist.number_atoms_solvent 53 _refine_hist.number_atoms_total 1097 _refine_hist.d_res_high 2.0200 _refine_hist.d_res_low 29.869 # loop_ _refine_ls_restr.type _refine_ls_restr.number _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function _refine_ls_restr.pdbx_refine_id t_dihedral_angle_d 508 ? ? 2.000 SINUSOIDAL 'X-RAY DIFFRACTION' t_trig_c_planes 29 ? ? 2.000 HARMONIC 'X-RAY DIFFRACTION' t_gen_planes 162 ? ? 5.000 HARMONIC 'X-RAY DIFFRACTION' t_it 1080 ? ? 20.000 HARMONIC 'X-RAY DIFFRACTION' t_nbd ? ? ? ? ? 'X-RAY DIFFRACTION' t_improper_torsion ? ? ? ? ? 'X-RAY DIFFRACTION' t_pseud_angle ? ? ? ? ? 'X-RAY DIFFRACTION' t_chiral_improper_torsion 148 ? ? 5.000 SEMIHARMONIC 'X-RAY DIFFRACTION' t_sum_occupancies ? ? ? ? ? 'X-RAY DIFFRACTION' t_utility_distance ? ? ? ? ? 'X-RAY DIFFRACTION' t_utility_angle ? ? ? ? ? 'X-RAY DIFFRACTION' t_utility_torsion ? ? ? ? ? 'X-RAY DIFFRACTION' t_ideal_dist_contact 1281 ? ? 4.000 SEMIHARMONIC 'X-RAY DIFFRACTION' t_bond_d 1080 0.010 ? 2.000 HARMONIC 'X-RAY DIFFRACTION' t_angle_deg 1468 0.990 ? 2.000 HARMONIC 'X-RAY DIFFRACTION' t_omega_torsion ? 2.950 ? ? ? 'X-RAY DIFFRACTION' t_other_torsion ? 2.860 ? ? ? 'X-RAY DIFFRACTION' # _refine_ls_shell.d_res_high 2.0200 _refine_ls_shell.d_res_low 2.2600 _refine_ls_shell.pdbx_total_number_of_bins_used 5 _refine_ls_shell.percent_reflns_obs 99.7500 _refine_ls_shell.number_reflns_R_work 2165 _refine_ls_shell.R_factor_all 0.2060 _refine_ls_shell.R_factor_R_work 0.2041 _refine_ls_shell.R_factor_R_free 0.2479 _refine_ls_shell.percent_reflns_R_free 4.5800 _refine_ls_shell.number_reflns_R_free 104 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_all 2269 _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 4FO5 _struct.title 'Crystal structure of a thioredoxin-like protein (BDI_1100) from Parabacteroides distasonis ATCC 8503 at 2.02 A resolution' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag Y _struct.pdbx_model_type_details ? # _struct_keywords.text ;AhpC/TSA family protein, Structural Genomics, Joint Center for Structural Genomics, JCSG, Protein Structure Initiative, PSI-BIOLOGY, OXIDOREDUCTASE ; _struct_keywords.pdbx_keywords OXIDOREDUCTASE _struct_keywords.entry_id 4FO5 # 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 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 ASP A 44 ? ASN A 59 ? ASP A 67 ASN A 82 1 ? 16 HELX_P HELX_P2 2 LYS A 76 ? LYS A 88 ? LYS A 99 LYS A 111 1 ? 13 HELX_P HELX_P3 3 ASP A 90 ? SER A 92 ? ASP A 113 SER A 115 5 ? 3 HELX_P HELX_P4 4 LEU A 99 ? GLU A 102 ? LEU A 122 GLU A 125 5 ? 4 HELX_P HELX_P5 5 SER A 103 ? TYR A 109 ? SER A 126 TYR A 132 1 ? 7 HELX_P HELX_P6 6 ASP A 110 ? GLY A 114 ? ASP A 133 GLY A 137 5 ? 5 HELX_P HELX_P7 7 THR A 132 ? LYS A 141 ? THR A 155 LYS A 164 1 ? 10 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? A ALA 67 C ? ? ? 1_555 A MSE 68 N ? ? A ALA 90 A MSE 91 1_555 ? ? ? ? ? ? ? 1.306 ? ? covale2 covale both ? A MSE 68 C ? ? ? 1_555 A CYS 69 N ? ? A MSE 91 A CYS 92 1_555 ? ? ? ? ? ? ? 1.310 ? ? covale3 covale both ? A SER 72 C ? ? ? 1_555 A MSE 73 N ? ? A SER 95 A MSE 96 1_555 ? ? ? ? ? ? ? 1.344 ? ? covale4 covale both ? A MSE 73 C ? ? ? 1_555 A ASP 74 N ? ? A MSE 96 A ASP 97 1_555 ? ? ? ? ? ? ? 1.347 ? ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # _struct_sheet.id A _struct_sheet.type ? _struct_sheet.number_strands 5 _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 A 1 2 ? parallel A 2 3 ? parallel A 3 4 ? anti-parallel A 4 5 ? 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 GLN A 94 ? HIS A 96 ? GLN A 117 HIS A 119 A 2 ILE A 66 ? SER A 72 ? ILE A 89 SER A 95 A 3 TYR A 34 ? TRP A 40 ? TYR A 57 TRP A 63 A 4 ASN A 117 ? ILE A 120 ? ASN A 140 ILE A 143 A 5 ILE A 126 ? ALA A 129 ? ILE A 149 ALA A 152 # 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 O PHE A 95 ? O PHE A 118 N SER A 70 ? N SER A 93 A 2 3 O ILE A 71 ? O ILE A 94 N ASN A 38 ? N ASN A 61 A 3 4 N THR A 35 ? N THR A 58 O ILE A 120 ? O ILE A 143 A 4 5 N LEU A 119 ? N LEU A 142 O ILE A 127 ? O ILE A 150 # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _struct_site.pdbx_auth_asym_id A _struct_site.pdbx_auth_comp_id CL _struct_site.pdbx_auth_seq_id 200 _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 3 _struct_site.details 'BINDING SITE FOR RESIDUE CL A 200' # 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 ARG A 15 ? ARG A 38 . ? 1_555 ? 2 AC1 3 ILE A 16 ? ILE A 39 . ? 1_555 ? 3 AC1 3 PHE A 27 ? PHE A 50 . ? 1_555 ? # _atom_sites.entry_id 4FO5 _atom_sites.fract_transf_matrix[1][1] 0.030153 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.012293 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.020266 _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] 0.026649 _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 CL N O S SE # 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 0 ? ? ? A . n A 1 2 LYS 2 25 25 LYS LYS A . n A 1 3 LEU 3 26 26 LEU LEU A . n A 1 4 THR 4 27 27 THR THR A . n A 1 5 GLU 5 28 28 GLU GLU A . n A 1 6 GLY 6 29 29 GLY GLY A . n A 1 7 VAL 7 30 30 VAL VAL A . n A 1 8 ASN 8 31 31 ASN ASN A . n A 1 9 PRO 9 32 32 PRO PRO A . n A 1 10 GLY 10 33 33 GLY GLY A . n A 1 11 ASP 11 34 34 ASP ASP A . n A 1 12 LEU 12 35 35 LEU LEU A . n A 1 13 ALA 13 36 36 ALA ALA A . n A 1 14 PRO 14 37 37 PRO PRO A . n A 1 15 ARG 15 38 38 ARG ARG A . n A 1 16 ILE 16 39 39 ILE ILE A . n A 1 17 GLU 17 40 40 GLU GLU A . n A 1 18 PHE 18 41 41 PHE PHE A . n A 1 19 LEU 19 42 ? ? ? A . n A 1 20 GLY 20 43 ? ? ? A . n A 1 21 ASN 21 44 ? ? ? A . n A 1 22 ASP 22 45 ? ? ? A . n A 1 23 ALA 23 46 ? ? ? A . n A 1 24 LYS 24 47 47 LYS LYS A . n A 1 25 ALA 25 48 48 ALA ALA A . n A 1 26 SER 26 49 49 SER SER A . n A 1 27 PHE 27 50 50 PHE PHE A . n A 1 28 HIS 28 51 51 HIS HIS A . n A 1 29 ASN 29 52 52 ASN ASN A . n A 1 30 GLN 30 53 53 GLN GLN A . n A 1 31 LEU 31 54 54 LEU LEU A . n A 1 32 GLY 32 55 55 GLY GLY A . n A 1 33 ARG 33 56 56 ARG ARG A . n A 1 34 TYR 34 57 57 TYR TYR A . n A 1 35 THR 35 58 58 THR THR A . n A 1 36 LEU 36 59 59 LEU LEU A . n A 1 37 LEU 37 60 60 LEU LEU A . n A 1 38 ASN 38 61 61 ASN ASN A . n A 1 39 PHE 39 62 62 PHE PHE A . n A 1 40 TRP 40 63 63 TRP TRP A . n A 1 41 ALA 41 64 64 ALA ALA A . n A 1 42 ALA 42 65 65 ALA ALA A . n A 1 43 TYR 43 66 66 TYR TYR A . n A 1 44 ASP 44 67 67 ASP ASP A . n A 1 45 ALA 45 68 68 ALA ALA A . n A 1 46 GLU 46 69 69 GLU GLU A . n A 1 47 SER 47 70 70 SER SER A . n A 1 48 ARG 48 71 71 ARG ARG A . n A 1 49 ALA 49 72 72 ALA ALA A . n A 1 50 ARG 50 73 73 ARG ARG A . n A 1 51 ASN 51 74 74 ASN ASN A . n A 1 52 VAL 52 75 75 VAL VAL A . n A 1 53 GLN 53 76 76 GLN GLN A . n A 1 54 LEU 54 77 77 LEU LEU A . n A 1 55 ALA 55 78 78 ALA ALA A . n A 1 56 ASN 56 79 79 ASN ASN A . n A 1 57 GLU 57 80 80 GLU GLU A . n A 1 58 VAL 58 81 81 VAL VAL A . n A 1 59 ASN 59 82 82 ASN ASN A . n A 1 60 LYS 60 83 83 LYS LYS A . n A 1 61 PHE 61 84 84 PHE PHE A . n A 1 62 GLY 62 85 85 GLY GLY A . n A 1 63 PRO 63 86 86 PRO PRO A . n A 1 64 ASP 64 87 87 ASP ASP A . n A 1 65 LYS 65 88 88 LYS LYS A . n A 1 66 ILE 66 89 89 ILE ILE A . n A 1 67 ALA 67 90 90 ALA ALA A . n A 1 68 MSE 68 91 91 MSE MSE A . n A 1 69 CYS 69 92 92 CYS CYS A . n A 1 70 SER 70 93 93 SER SER A . n A 1 71 ILE 71 94 94 ILE ILE A . n A 1 72 SER 72 95 95 SER SER A . n A 1 73 MSE 73 96 96 MSE MSE A . n A 1 74 ASP 74 97 97 ASP ASP A . n A 1 75 GLU 75 98 98 GLU GLU A . n A 1 76 LYS 76 99 99 LYS LYS A . n A 1 77 GLU 77 100 100 GLU GLU A . n A 1 78 SER 78 101 101 SER SER A . n A 1 79 ILE 79 102 102 ILE ILE A . n A 1 80 PHE 80 103 103 PHE PHE A . n A 1 81 THR 81 104 104 THR THR A . n A 1 82 GLU 82 105 105 GLU GLU A . n A 1 83 THR 83 106 106 THR THR A . n A 1 84 VAL 84 107 107 VAL VAL A . n A 1 85 LYS 85 108 108 LYS LYS A . n A 1 86 ILE 86 109 109 ILE ILE A . n A 1 87 ASP 87 110 110 ASP ASP A . n A 1 88 LYS 88 111 111 LYS LYS A . n A 1 89 LEU 89 112 112 LEU LEU A . n A 1 90 ASP 90 113 113 ASP ASP A . n A 1 91 LEU 91 114 114 LEU LEU A . n A 1 92 SER 92 115 115 SER SER A . n A 1 93 THR 93 116 116 THR THR A . n A 1 94 GLN 94 117 117 GLN GLN A . n A 1 95 PHE 95 118 118 PHE PHE A . n A 1 96 HIS 96 119 119 HIS HIS A . n A 1 97 GLU 97 120 120 GLU GLU A . n A 1 98 GLY 98 121 121 GLY GLY A . n A 1 99 LEU 99 122 122 LEU LEU A . n A 1 100 GLY 100 123 123 GLY GLY A . n A 1 101 LYS 101 124 124 LYS LYS A . n A 1 102 GLU 102 125 125 GLU GLU A . n A 1 103 SER 103 126 126 SER SER A . n A 1 104 GLU 104 127 127 GLU GLU A . n A 1 105 LEU 105 128 128 LEU LEU A . n A 1 106 TYR 106 129 129 TYR TYR A . n A 1 107 LYS 107 130 130 LYS LYS A . n A 1 108 LYS 108 131 131 LYS LYS A . n A 1 109 TYR 109 132 132 TYR TYR A . n A 1 110 ASP 110 133 133 ASP ASP A . n A 1 111 LEU 111 134 134 LEU LEU A . n A 1 112 ARG 112 135 135 ARG ARG A . n A 1 113 LYS 113 136 136 LYS LYS A . n A 1 114 GLY 114 137 137 GLY GLY A . n A 1 115 PHE 115 138 138 PHE PHE A . n A 1 116 LYS 116 139 139 LYS LYS A . n A 1 117 ASN 117 140 140 ASN ASN A . n A 1 118 PHE 118 141 141 PHE PHE A . n A 1 119 LEU 119 142 142 LEU LEU A . n A 1 120 ILE 120 143 143 ILE ILE A . n A 1 121 ASN 121 144 144 ASN ASN A . n A 1 122 ASP 122 145 145 ASP ASP A . n A 1 123 GLU 123 146 146 GLU GLU A . n A 1 124 GLY 124 147 147 GLY GLY A . n A 1 125 VAL 125 148 148 VAL VAL A . n A 1 126 ILE 126 149 149 ILE ILE A . n A 1 127 ILE 127 150 150 ILE ILE A . n A 1 128 ALA 128 151 151 ALA ALA A . n A 1 129 ALA 129 152 152 ALA ALA A . n A 1 130 ASN 130 153 153 ASN ASN A . n A 1 131 VAL 131 154 154 VAL VAL A . n A 1 132 THR 132 155 155 THR THR A . n A 1 133 PRO 133 156 156 PRO PRO A . n A 1 134 GLU 134 157 157 GLU GLU A . n A 1 135 LYS 135 158 158 LYS LYS A . n A 1 136 LEU 136 159 159 LEU LEU A . n A 1 137 THR 137 160 160 THR THR A . n A 1 138 GLU 138 161 161 GLU GLU A . n A 1 139 ILE 139 162 162 ILE ILE A . n A 1 140 LEU 140 163 163 LEU LEU A . n A 1 141 LYS 141 164 164 LYS LYS A . n A 1 142 ALA 142 165 165 ALA ALA A . n A 1 143 ILE 143 166 ? ? ? A . n # _pdbx_SG_project.project_name PSI:Biology _pdbx_SG_project.full_name_of_center 'Joint Center for Structural Genomics' _pdbx_SG_project.id 1 _pdbx_SG_project.initial_of_center JCSG # 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 CL 1 200 200 CL CL A . C 3 HOH 1 301 201 HOH HOH A . C 3 HOH 2 302 202 HOH HOH A . C 3 HOH 3 303 203 HOH HOH A . C 3 HOH 4 304 204 HOH HOH A . C 3 HOH 5 305 205 HOH HOH A . C 3 HOH 6 306 206 HOH HOH A . C 3 HOH 7 307 207 HOH HOH A . C 3 HOH 8 308 208 HOH HOH A . C 3 HOH 9 309 209 HOH HOH A . C 3 HOH 10 310 210 HOH HOH A . C 3 HOH 11 311 211 HOH HOH A . C 3 HOH 12 312 212 HOH HOH A . C 3 HOH 13 313 213 HOH HOH A . C 3 HOH 14 314 214 HOH HOH A . C 3 HOH 15 315 215 HOH HOH A . C 3 HOH 16 316 216 HOH HOH A . C 3 HOH 17 317 217 HOH HOH A . C 3 HOH 18 318 218 HOH HOH A . C 3 HOH 19 319 219 HOH HOH A . C 3 HOH 20 320 220 HOH HOH A . C 3 HOH 21 321 221 HOH HOH A . C 3 HOH 22 322 222 HOH HOH A . C 3 HOH 23 323 223 HOH HOH A . C 3 HOH 24 324 224 HOH HOH A . C 3 HOH 25 325 225 HOH HOH A . C 3 HOH 26 326 226 HOH HOH A . C 3 HOH 27 327 227 HOH HOH A . C 3 HOH 28 328 228 HOH HOH A . C 3 HOH 29 329 229 HOH HOH A . C 3 HOH 30 330 230 HOH HOH A . C 3 HOH 31 331 231 HOH HOH A . C 3 HOH 32 332 232 HOH HOH A . C 3 HOH 33 333 233 HOH HOH A . C 3 HOH 34 334 234 HOH HOH A . C 3 HOH 35 335 235 HOH HOH A . C 3 HOH 36 336 236 HOH HOH A . C 3 HOH 37 337 237 HOH HOH A . C 3 HOH 38 338 238 HOH HOH A . C 3 HOH 39 339 239 HOH HOH A . C 3 HOH 40 340 240 HOH HOH A . C 3 HOH 41 341 241 HOH HOH A . C 3 HOH 42 342 242 HOH HOH A . C 3 HOH 43 343 243 HOH HOH A . C 3 HOH 44 344 244 HOH HOH A . C 3 HOH 45 345 245 HOH HOH A . C 3 HOH 46 346 246 HOH HOH A . C 3 HOH 47 347 247 HOH HOH A . C 3 HOH 48 348 248 HOH HOH A . C 3 HOH 49 349 249 HOH HOH A . C 3 HOH 50 350 250 HOH HOH A . C 3 HOH 51 351 251 HOH HOH A . C 3 HOH 52 352 252 HOH HOH A . C 3 HOH 53 353 253 HOH HOH A . # loop_ _pdbx_struct_mod_residue.id _pdbx_struct_mod_residue.label_asym_id _pdbx_struct_mod_residue.label_comp_id _pdbx_struct_mod_residue.label_seq_id _pdbx_struct_mod_residue.auth_asym_id _pdbx_struct_mod_residue.auth_comp_id _pdbx_struct_mod_residue.auth_seq_id _pdbx_struct_mod_residue.PDB_ins_code _pdbx_struct_mod_residue.parent_comp_id _pdbx_struct_mod_residue.details 1 A MSE 68 A MSE 91 ? MET SELENOMETHIONINE 2 A MSE 73 A MSE 96 ? MET SELENOMETHIONINE # _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 # _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 2012-07-04 2 'Structure model' 1 1 2017-10-11 3 'Structure model' 1 2 2018-01-24 4 'Structure model' 1 3 2023-02-01 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Data collection' 2 2 'Structure model' 'Refinement description' 3 3 'Structure model' 'Database references' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Derived calculations' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 2 'Structure model' reflns_shell 2 2 'Structure model' software 3 3 'Structure model' citation_author 4 4 'Structure model' database_2 5 4 'Structure model' struct_conn 6 4 'Structure model' struct_ref_seq_dif 7 4 'Structure model' struct_site # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 2 'Structure model' '_reflns_shell.percent_possible_all' 2 3 'Structure model' '_citation_author.name' 3 4 'Structure model' '_database_2.pdbx_DOI' 4 4 'Structure model' '_database_2.pdbx_database_accession' 5 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 6 4 'Structure model' '_struct_ref_seq_dif.details' 7 4 'Structure model' '_struct_site.pdbx_auth_asym_id' 8 4 'Structure model' '_struct_site.pdbx_auth_comp_id' 9 4 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_refine_tls.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls.id 1 _pdbx_refine_tls.details ? _pdbx_refine_tls.method refined _pdbx_refine_tls.origin_x 9.7594 _pdbx_refine_tls.origin_y 24.0955 _pdbx_refine_tls.origin_z 13.2980 _pdbx_refine_tls.T[1][1] -0.1469 _pdbx_refine_tls.T[2][2] -0.1395 _pdbx_refine_tls.T[3][3] -0.0511 _pdbx_refine_tls.T[1][2] -0.0420 _pdbx_refine_tls.T[1][3] 0.0199 _pdbx_refine_tls.T[2][3] -0.0230 _pdbx_refine_tls.L[1][1] 6.0303 _pdbx_refine_tls.L[2][2] 3.9827 _pdbx_refine_tls.L[3][3] 1.9246 _pdbx_refine_tls.L[1][2] -0.7254 _pdbx_refine_tls.L[1][3] -0.3700 _pdbx_refine_tls.L[2][3] -0.1490 _pdbx_refine_tls.S[1][1] 0.0007 _pdbx_refine_tls.S[2][2] 0.0218 _pdbx_refine_tls.S[3][3] -0.0225 _pdbx_refine_tls.S[1][2] 0.2467 _pdbx_refine_tls.S[1][3] 0.0835 _pdbx_refine_tls.S[2][3] 0.0087 _pdbx_refine_tls.S[2][1] -0.1321 _pdbx_refine_tls.S[3][1] -0.0071 _pdbx_refine_tls.S[3][2] -0.1158 # _pdbx_refine_tls_group.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls_group.id 1 _pdbx_refine_tls_group.refine_tls_id 1 _pdbx_refine_tls_group.beg_auth_asym_id A _pdbx_refine_tls_group.beg_auth_seq_id 25 _pdbx_refine_tls_group.end_auth_asym_id A _pdbx_refine_tls_group.end_auth_seq_id 165 _pdbx_refine_tls_group.selection_details '{ A|25 - 165 }' _pdbx_refine_tls_group.beg_label_asym_id ? _pdbx_refine_tls_group.beg_label_seq_id ? _pdbx_refine_tls_group.end_label_asym_id ? _pdbx_refine_tls_group.end_label_seq_id ? _pdbx_refine_tls_group.selection ? # _phasing.method MAD # 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 MolProbity 3beta29 ? package 'D.C. & J.S. Richardson lab' molprobity@kinemage.biochem.duke.edu 'model building' http://kinemage.biochem.duke.edu/molprobity/ ? ? 2 PDB_EXTRACT 3.10 'June 10, 2010' package PDB deposit@deposit.rcsb.org 'data extraction' http://sw-tools.pdb.org/apps/PDB_EXTRACT/ C++ ? 3 SOLVE . ? program 'Tom Terwilliger' terwilliger@LANL.gov phasing http://www.solve.lanl.gov/ ? ? 4 XSCALE 'December 29, 2011' ? package 'Wolfgang Kabsch' ? 'data scaling' http://www.mpimf-heidelberg.mpg.de/~kabsch/xds/html_doc/xscale_program.html ? ? 5 BUSTER-TNT 2.10.0 ? program 'Gerard Bricogne' buster-develop@GlobalPhasing.com refinement http://www.globalphasing.com/buster/ ? ? 6 XDS . ? ? ? ? 'data reduction' ? ? ? 7 BUSTER 2.10.0 ? ? ? ? refinement ? ? ? # _pdbx_entry_details.entry_id 4FO5 _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ;THIS CONSTRUCT (RESIDUES 25-166) WAS EXPRESSED WITH A PURIFICATION TAG MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE LEAVING ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. ; _pdbx_entry_details.has_ligand_of_interest ? # 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 LYS 25 ? CG ? A LYS 2 CG 2 1 Y 1 A LYS 25 ? CD ? A LYS 2 CD 3 1 Y 1 A LYS 25 ? CE ? A LYS 2 CE 4 1 Y 1 A LYS 25 ? NZ ? A LYS 2 NZ 5 1 Y 1 A GLU 40 ? CG ? A GLU 17 CG 6 1 Y 1 A GLU 40 ? CD ? A GLU 17 CD 7 1 Y 1 A GLU 40 ? OE1 ? A GLU 17 OE1 8 1 Y 1 A GLU 40 ? OE2 ? A GLU 17 OE2 9 1 Y 1 A LYS 47 ? CD ? A LYS 24 CD 10 1 Y 1 A LYS 47 ? CE ? A LYS 24 CE 11 1 Y 1 A LYS 47 ? NZ ? A LYS 24 NZ 12 1 Y 1 A LYS 88 ? CG ? A LYS 65 CG 13 1 Y 1 A LYS 88 ? CD ? A LYS 65 CD 14 1 Y 1 A LYS 88 ? CE ? A LYS 65 CE 15 1 Y 1 A LYS 88 ? NZ ? A LYS 65 NZ 16 1 Y 1 A GLU 98 ? CG ? A GLU 75 CG 17 1 Y 1 A GLU 98 ? CD ? A GLU 75 CD 18 1 Y 1 A GLU 98 ? OE1 ? A GLU 75 OE1 19 1 Y 1 A GLU 98 ? OE2 ? A GLU 75 OE2 20 1 Y 1 A LYS 99 ? CE ? A LYS 76 CE 21 1 Y 1 A LYS 99 ? NZ ? A LYS 76 NZ 22 1 Y 1 A LYS 108 ? CD ? A LYS 85 CD 23 1 Y 1 A LYS 108 ? CE ? A LYS 85 CE 24 1 Y 1 A LYS 108 ? NZ ? A LYS 85 NZ 25 1 Y 1 A GLU 125 ? CG ? A GLU 102 CG 26 1 Y 1 A GLU 125 ? CD ? A GLU 102 CD 27 1 Y 1 A GLU 125 ? OE1 ? A GLU 102 OE1 28 1 Y 1 A GLU 125 ? OE2 ? A GLU 102 OE2 29 1 Y 1 A GLU 127 ? CG ? A GLU 104 CG 30 1 Y 1 A GLU 127 ? CD ? A GLU 104 CD 31 1 Y 1 A GLU 127 ? OE1 ? A GLU 104 OE1 32 1 Y 1 A GLU 127 ? OE2 ? A GLU 104 OE2 33 1 Y 1 A LYS 130 ? CG ? A LYS 107 CG 34 1 Y 1 A LYS 130 ? CD ? A LYS 107 CD 35 1 Y 1 A LYS 130 ? CE ? A LYS 107 CE 36 1 Y 1 A LYS 130 ? NZ ? A LYS 107 NZ 37 1 Y 1 A LYS 131 ? CE ? A LYS 108 CE 38 1 Y 1 A LYS 131 ? NZ ? A LYS 108 NZ 39 1 Y 1 A GLU 161 ? CG ? A GLU 138 CG 40 1 Y 1 A GLU 161 ? CD ? A GLU 138 CD 41 1 Y 1 A GLU 161 ? OE1 ? A GLU 138 OE1 42 1 Y 1 A GLU 161 ? OE2 ? A GLU 138 OE2 # 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 0 ? A GLY 1 2 1 Y 1 A LEU 42 ? A LEU 19 3 1 Y 1 A GLY 43 ? A GLY 20 4 1 Y 1 A ASN 44 ? A ASN 21 5 1 Y 1 A ASP 45 ? A ASP 22 6 1 Y 1 A ALA 46 ? A ALA 23 7 1 Y 1 A ILE 166 ? A ILE 143 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'CHLORIDE ION' CL 3 water HOH #