data_3BEE # _entry.id 3BEE # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.279 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 3BEE RCSB RCSB045415 WWPDB D_1000045415 # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id APC91400.1 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3BEE _pdbx_database_status.recvd_initial_deposition_date 2007-11-16 _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 Y _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Chang, C.' 1 'Hatzos, C.' 2 'Abdullah, J.' 3 'Joachimiak, A.' 4 'Midwest Center for Structural Genomics (MCSG)' 5 # _citation.id primary _citation.title 'Crystal structure of putative YfrE protein from Vibrio parahaemolyticus.' _citation.journal_abbrev 'To be Published' _citation.journal_volume ? _citation.page_first ? _citation.page_last ? _citation.year ? _citation.journal_id_ASTM ? _citation.country ? _citation.journal_id_ISSN ? _citation.journal_id_CSD 0353 _citation.book_publisher ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_DOI ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Chang, C.' 1 primary 'Hatzos, C.' 2 primary 'Abdullah, J.' 3 primary 'Joachimiak, A.' 4 # _cell.entry_id 3BEE _cell.length_a 82.383 _cell.length_b 82.383 _cell.length_c 74.342 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 16 _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 3BEE _symmetry.space_group_name_H-M 'P 43 21 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _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 'Putative YfrE protein' 10568.690 2 ? ? 'Residues 146-235' ? 2 non-polymer syn 1,2-ETHANEDIOL 62.068 4 ? ? ? ? 3 water nat water 18.015 103 ? ? ? ? # _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 ;SNAVTATQLAAKATTLYYLHKQA(MSE)TDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDPN LDRVTIIESINKAKKL(MSE) ; _entity_poly.pdbx_seq_one_letter_code_can ;SNAVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDPNLDRV TIIESINKAKKLM ; _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier APC91400.1 # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 SER n 1 2 ASN n 1 3 ALA n 1 4 VAL n 1 5 THR n 1 6 ALA n 1 7 THR n 1 8 GLN n 1 9 LEU n 1 10 ALA n 1 11 ALA n 1 12 LYS n 1 13 ALA n 1 14 THR n 1 15 THR n 1 16 LEU n 1 17 TYR n 1 18 TYR n 1 19 LEU n 1 20 HIS n 1 21 LYS n 1 22 GLN n 1 23 ALA n 1 24 MSE n 1 25 THR n 1 26 ASP n 1 27 GLU n 1 28 VAL n 1 29 SER n 1 30 LEU n 1 31 LEU n 1 32 LEU n 1 33 GLU n 1 34 GLN n 1 35 ALA n 1 36 LEU n 1 37 GLN n 1 38 LEU n 1 39 GLU n 1 40 PRO n 1 41 TYR n 1 42 ASN n 1 43 GLU n 1 44 ALA n 1 45 ALA n 1 46 LEU n 1 47 SER n 1 48 LEU n 1 49 ILE n 1 50 ALA n 1 51 ASN n 1 52 ASP n 1 53 HIS n 1 54 PHE n 1 55 ILE n 1 56 SER n 1 57 PHE n 1 58 ARG n 1 59 PHE n 1 60 GLN n 1 61 GLU n 1 62 ALA n 1 63 ILE n 1 64 ASP n 1 65 THR n 1 66 TRP n 1 67 VAL n 1 68 LEU n 1 69 LEU n 1 70 LEU n 1 71 ASP n 1 72 SER n 1 73 ASN n 1 74 ASP n 1 75 PRO n 1 76 ASN n 1 77 LEU n 1 78 ASP n 1 79 ARG n 1 80 VAL n 1 81 THR n 1 82 ILE n 1 83 ILE n 1 84 GLU n 1 85 SER n 1 86 ILE n 1 87 ASN n 1 88 LYS n 1 89 ALA n 1 90 LYS n 1 91 LYS n 1 92 LEU n 1 93 MSE 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 Vibrio _entity_src_gen.pdbx_gene_src_gene VP1931 _entity_src_gen.gene_src_species 'Vibrio parahaemolyticus' _entity_src_gen.gene_src_strain 'RIMD 2210633 / Serotype O3:K6' _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 'Vibrio parahaemolyticus RIMD 2210633' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 223926 _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 Escherichia _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) derivative' _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 pMCSG7 _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code Q87ND7_VIBPA _struct_ref.pdbx_db_accession Q87ND7 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDPNLDRVTII ESINKAKKLM ; _struct_ref.pdbx_align_begin 146 _struct_ref.pdbx_db_isoform ? # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 3BEE A 4 ? 93 ? Q87ND7 146 ? 235 ? 146 235 2 1 3BEE B 4 ? 93 ? Q87ND7 146 ? 235 ? 146 235 # 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 3BEE SER A 1 ? UNP Q87ND7 ? ? 'EXPRESSION TAG' 143 1 1 3BEE ASN A 2 ? UNP Q87ND7 ? ? 'EXPRESSION TAG' 144 2 1 3BEE ALA A 3 ? UNP Q87ND7 ? ? 'EXPRESSION TAG' 145 3 2 3BEE SER B 1 ? UNP Q87ND7 ? ? 'EXPRESSION TAG' 143 4 2 3BEE ASN B 2 ? UNP Q87ND7 ? ? 'EXPRESSION TAG' 144 5 2 3BEE ALA B 3 ? UNP Q87ND7 ? ? 'EXPRESSION TAG' 145 6 # 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 EDO non-polymer . 1,2-ETHANEDIOL 'ETHYLENE GLYCOL' 'C2 H6 O2' 62.068 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 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.entry_id 3BEE _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.98 _exptl_crystal.density_percent_sol 58.78 _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.temp 289 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 9.0 _exptl_crystal_grow.pdbx_details '2.4 M Ammonium sulfate, 0.1 M Bicine, pH 9.0, VAPOR DIFFUSION, SITTING 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 CCD _diffrn_detector.type 'ADSC QUANTUM 315' _diffrn_detector.pdbx_collection_date 2007-10-04 _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 'Double crystal' _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.97857 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'APS BEAMLINE 19-ID' _diffrn_source.pdbx_synchrotron_site APS _diffrn_source.pdbx_synchrotron_beamline 19-ID _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.97857 # _reflns.entry_id 3BEE _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I -3 _reflns.d_resolution_high 2.15 _reflns.d_resolution_low 50 _reflns.number_all 14481 _reflns.number_obs 14459 _reflns.percent_possible_obs 99.9 _reflns.pdbx_Rmerge_I_obs 0.059 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 55.96 _reflns.B_iso_Wilson_estimate 39.7 _reflns.pdbx_redundancy 11.6 _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 # _reflns_shell.d_res_high 2.15 _reflns_shell.d_res_low 2.23 _reflns_shell.percent_possible_all 100 _reflns_shell.Rmerge_I_obs 0.416 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 7.11 _reflns_shell.pdbx_redundancy 11.9 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 1411 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 # _refine.entry_id 3BEE _refine.ls_number_reflns_obs 14417 _refine.ls_number_reflns_all 14417 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 41.20 _refine.ls_d_res_high 2.15 _refine.ls_percent_reflns_obs 99.83 _refine.ls_R_factor_obs 0.1921 _refine.ls_R_factor_all 0.1921 _refine.ls_R_factor_R_work 0.19093 _refine.ls_R_factor_R_free 0.21447 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.0 _refine.ls_number_reflns_R_free 726 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.954 _refine.correlation_coeff_Fo_to_Fc_free 0.945 _refine.B_iso_mean 39.329 _refine.aniso_B[1][1] 0.20 _refine.aniso_B[2][2] 0.20 _refine.aniso_B[3][3] -0.40 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] 0.00 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details MASK _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.20 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS' _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R 0.194 _refine.pdbx_overall_ESU_R_Free 0.160 _refine.overall_SU_ML 0.104 _refine.overall_SU_B 7.786 _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_Cruickshank_DPI ? _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_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_TLS_residual_ADP_flag 'LIKELY RESIDUAL' _refine.pdbx_diffrn_id 1 _refine.pdbx_overall_phase_error ? _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 1447 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 16 _refine_hist.number_atoms_solvent 103 _refine_hist.number_atoms_total 1566 _refine_hist.d_res_high 2.15 _refine_hist.d_res_low 41.20 # 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 0.015 0.022 ? 1498 'X-RAY DIFFRACTION' ? r_bond_other_d ? ? ? ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1.256 1.973 ? 2031 'X-RAY DIFFRACTION' ? r_angle_other_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 4.589 5.000 ? 185 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 39.529 26.119 ? 67 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 12.874 15.000 ? 269 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 6.879 15.000 ? 4 'X-RAY DIFFRACTION' ? r_chiral_restr 0.085 0.200 ? 248 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.005 0.020 ? 1086 'X-RAY DIFFRACTION' ? r_gen_planes_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbd_refined 0.195 0.200 ? 724 'X-RAY DIFFRACTION' ? r_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_refined 0.298 0.200 ? 1061 'X-RAY DIFFRACTION' ? r_nbtor_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 0.145 0.200 ? 77 '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 0.257 0.200 ? 36 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 0.282 0.200 ? 6 '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 0.860 1.500 ? 970 'X-RAY DIFFRACTION' ? r_mcbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcangle_it 1.249 2.000 ? 1494 'X-RAY DIFFRACTION' ? r_scbond_it 2.514 3.000 ? 614 'X-RAY DIFFRACTION' ? r_scangle_it 3.429 4.500 ? 536 '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.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 2.150 _refine_ls_shell.d_res_low 2.206 _refine_ls_shell.number_reflns_R_work 985 _refine_ls_shell.R_factor_R_work 0.178 _refine_ls_shell.percent_reflns_obs 99.71 _refine_ls_shell.R_factor_R_free 0.221 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 56 _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 'X-RAY DIFFRACTION' # _struct.entry_id 3BEE _struct.title 'Crystal structure of putative YfrE protein from Vibrio parahaemolyticus' _struct.pdbx_descriptor 'Putative YfrE protein' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3BEE _struct_keywords.pdbx_keywords 'STRUCTURAL GENOMICS, UNKNOWN FUNCTION' _struct_keywords.text ;putaive YfrE protein, Vibrio parahaemolyticus, Structural Genomics, PSI-2, Protein Structure Initiative, Midwest Center for Structural Genomics, MCSG, TPR repeat, UNKNOWN FUNCTION ; # 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 1 ? C N N 2 ? D N N 2 ? E N N 2 ? F N N 2 ? G N N 3 ? H 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 THR A 5 ? LEU A 19 ? THR A 147 LEU A 161 1 ? 15 HELX_P HELX_P2 2 THR A 25 ? GLU A 39 ? THR A 167 GLU A 181 1 ? 15 HELX_P HELX_P3 3 ASN A 42 ? SER A 56 ? ASN A 184 SER A 198 1 ? 15 HELX_P HELX_P4 4 ARG A 58 ? ASP A 71 ? ARG A 200 ASP A 213 1 ? 14 HELX_P HELX_P5 5 ASP A 78 ? MSE A 93 ? ASP A 220 MSE A 235 1 ? 16 HELX_P HELX_P6 6 THR B 5 ? HIS B 20 ? THR B 147 HIS B 162 1 ? 16 HELX_P HELX_P7 7 THR B 25 ? GLU B 39 ? THR B 167 GLU B 181 1 ? 15 HELX_P HELX_P8 8 ASN B 42 ? SER B 56 ? ASN B 184 SER B 198 1 ? 15 HELX_P HELX_P9 9 ARG B 58 ? LEU B 70 ? ARG B 200 LEU B 212 1 ? 13 HELX_P HELX_P10 10 ASP B 78 ? MSE B 93 ? ASP B 220 MSE B 235 1 ? 16 # _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 covale1 covale ? ? A ALA 23 C ? ? ? 1_555 A MSE 24 N ? ? A ALA 165 A MSE 166 1_555 ? ? ? ? ? ? ? 1.327 ? covale2 covale ? ? A MSE 24 C ? ? ? 1_555 A THR 25 N ? ? A MSE 166 A THR 167 1_555 ? ? ? ? ? ? ? 1.327 ? covale3 covale ? ? A LEU 92 C ? ? ? 1_555 A MSE 93 N ? ? A LEU 234 A MSE 235 1_555 ? ? ? ? ? ? ? 1.332 ? covale4 covale ? ? B ALA 23 C ? ? ? 1_555 B MSE 24 N ? ? B ALA 165 B MSE 166 1_555 ? ? ? ? ? ? ? 1.327 ? covale5 covale ? ? B MSE 24 C ? ? ? 1_555 B THR 25 N ? ? B MSE 166 B THR 167 1_555 ? ? ? ? ? ? ? 1.330 ? covale6 covale ? ? B LEU 92 C ? ? ? 1_555 B MSE 93 N ? ? B LEU 234 B MSE 235 1_555 ? ? ? ? ? ? ? 1.335 ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # 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 ? ? ? ? 4 'BINDING SITE FOR RESIDUE EDO A 301' AC2 Software ? ? ? ? 4 'BINDING SITE FOR RESIDUE EDO A 302' AC3 Software ? ? ? ? 4 'BINDING SITE FOR RESIDUE EDO B 303' AC4 Software ? ? ? ? 7 'BINDING SITE FOR RESIDUE EDO A 304' # 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 4 THR A 25 ? THR A 167 . ? 1_555 ? 2 AC1 4 ASP A 26 ? ASP A 168 . ? 1_555 ? 3 AC1 4 GLU A 27 ? GLU A 169 . ? 1_555 ? 4 AC1 4 LYS B 90 ? LYS B 232 . ? 5_555 ? 5 AC2 4 ASN A 51 ? ASN A 193 . ? 1_555 ? 6 AC2 4 TRP A 66 ? TRP A 208 . ? 1_555 ? 7 AC2 4 SER A 85 ? SER A 227 . ? 1_555 ? 8 AC2 4 GLN B 22 ? GLN B 164 . ? 1_555 ? 9 AC3 4 HOH G . ? HOH A 101 . ? 3_554 ? 10 AC3 4 TYR A 18 ? TYR A 160 . ? 1_555 ? 11 AC3 4 LEU A 70 ? LEU A 212 . ? 3_554 ? 12 AC3 4 ASP A 71 ? ASP A 213 . ? 3_554 ? 13 AC4 7 HOH G . ? HOH A 90 . ? 1_555 ? 14 AC4 7 ASP A 26 ? ASP A 168 . ? 1_555 ? 15 AC4 7 GLU A 27 ? GLU A 169 . ? 1_555 ? 16 AC4 7 LEU A 30 ? LEU A 172 . ? 1_555 ? 17 AC4 7 ILE B 83 ? ILE B 225 . ? 5_555 ? 18 AC4 7 ASN B 87 ? ASN B 229 . ? 5_555 ? 19 AC4 7 LYS B 90 ? LYS B 232 . ? 5_555 ? # _database_PDB_matrix.entry_id 3BEE _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 3BEE _atom_sites.fract_transf_matrix[1][1] 0.012138 _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] 0.012138 _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] 0.013451 _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 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 SER 1 143 ? ? ? A . n A 1 2 ASN 2 144 144 ASN ALA A . n A 1 3 ALA 3 145 145 ALA ALA A . n A 1 4 VAL 4 146 146 VAL VAL A . n A 1 5 THR 5 147 147 THR THR A . n A 1 6 ALA 6 148 148 ALA ALA A . n A 1 7 THR 7 149 149 THR THR A . n A 1 8 GLN 8 150 150 GLN GLN A . n A 1 9 LEU 9 151 151 LEU LEU A . n A 1 10 ALA 10 152 152 ALA ALA A . n A 1 11 ALA 11 153 153 ALA ALA A . n A 1 12 LYS 12 154 154 LYS LYS A . n A 1 13 ALA 13 155 155 ALA ALA A . n A 1 14 THR 14 156 156 THR THR A . n A 1 15 THR 15 157 157 THR THR A . n A 1 16 LEU 16 158 158 LEU LEU A . n A 1 17 TYR 17 159 159 TYR TYR A . n A 1 18 TYR 18 160 160 TYR TYR A . n A 1 19 LEU 19 161 161 LEU LEU A . n A 1 20 HIS 20 162 162 HIS HIS A . n A 1 21 LYS 21 163 163 LYS LYS A . n A 1 22 GLN 22 164 164 GLN GLN A . n A 1 23 ALA 23 165 165 ALA ALA A . n A 1 24 MSE 24 166 166 MSE MSE A . n A 1 25 THR 25 167 167 THR THR A . n A 1 26 ASP 26 168 168 ASP ASP A . n A 1 27 GLU 27 169 169 GLU GLU A . n A 1 28 VAL 28 170 170 VAL VAL A . n A 1 29 SER 29 171 171 SER SER A . n A 1 30 LEU 30 172 172 LEU LEU A . n A 1 31 LEU 31 173 173 LEU LEU A . n A 1 32 LEU 32 174 174 LEU LEU A . n A 1 33 GLU 33 175 175 GLU GLU A . n A 1 34 GLN 34 176 176 GLN GLN A . n A 1 35 ALA 35 177 177 ALA ALA A . n A 1 36 LEU 36 178 178 LEU LEU A . n A 1 37 GLN 37 179 179 GLN GLN A . n A 1 38 LEU 38 180 180 LEU LEU A . n A 1 39 GLU 39 181 181 GLU GLU A . n A 1 40 PRO 40 182 182 PRO PRO A . n A 1 41 TYR 41 183 183 TYR TYR A . n A 1 42 ASN 42 184 184 ASN ASN A . n A 1 43 GLU 43 185 185 GLU GLU A . n A 1 44 ALA 44 186 186 ALA ALA A . n A 1 45 ALA 45 187 187 ALA ALA A . n A 1 46 LEU 46 188 188 LEU LEU A . n A 1 47 SER 47 189 189 SER SER A . n A 1 48 LEU 48 190 190 LEU LEU A . n A 1 49 ILE 49 191 191 ILE ILE A . n A 1 50 ALA 50 192 192 ALA ALA A . n A 1 51 ASN 51 193 193 ASN ASN A . n A 1 52 ASP 52 194 194 ASP ASP A . n A 1 53 HIS 53 195 195 HIS HIS A . n A 1 54 PHE 54 196 196 PHE PHE A . n A 1 55 ILE 55 197 197 ILE ILE A . n A 1 56 SER 56 198 198 SER SER A . n A 1 57 PHE 57 199 199 PHE PHE A . n A 1 58 ARG 58 200 200 ARG ARG A . n A 1 59 PHE 59 201 201 PHE PHE A . n A 1 60 GLN 60 202 202 GLN GLN A . n A 1 61 GLU 61 203 203 GLU GLU A . n A 1 62 ALA 62 204 204 ALA ALA A . n A 1 63 ILE 63 205 205 ILE ILE A . n A 1 64 ASP 64 206 206 ASP ASP A . n A 1 65 THR 65 207 207 THR THR A . n A 1 66 TRP 66 208 208 TRP TRP A . n A 1 67 VAL 67 209 209 VAL VAL A . n A 1 68 LEU 68 210 210 LEU LEU A . n A 1 69 LEU 69 211 211 LEU LEU A . n A 1 70 LEU 70 212 212 LEU LEU A . n A 1 71 ASP 71 213 213 ASP ASP A . n A 1 72 SER 72 214 214 SER SER A . n A 1 73 ASN 73 215 215 ASN ASN A . n A 1 74 ASP 74 216 216 ASP ASP A . n A 1 75 PRO 75 217 217 PRO PRO A . n A 1 76 ASN 76 218 218 ASN ASN A . n A 1 77 LEU 77 219 219 LEU LEU A . n A 1 78 ASP 78 220 220 ASP ASP A . n A 1 79 ARG 79 221 221 ARG ARG A . n A 1 80 VAL 80 222 222 VAL VAL A . n A 1 81 THR 81 223 223 THR THR A . n A 1 82 ILE 82 224 224 ILE ILE A . n A 1 83 ILE 83 225 225 ILE ILE A . n A 1 84 GLU 84 226 226 GLU GLU A . n A 1 85 SER 85 227 227 SER SER A . n A 1 86 ILE 86 228 228 ILE ILE A . n A 1 87 ASN 87 229 229 ASN ASN A . n A 1 88 LYS 88 230 230 LYS LYS A . n A 1 89 ALA 89 231 231 ALA ALA A . n A 1 90 LYS 90 232 232 LYS LYS A . n A 1 91 LYS 91 233 233 LYS LYS A . n A 1 92 LEU 92 234 234 LEU LEU A . n A 1 93 MSE 93 235 235 MSE MSE A . n B 1 1 SER 1 143 ? ? ? B . n B 1 2 ASN 2 144 ? ? ? B . n B 1 3 ALA 3 145 145 ALA ALA B . n B 1 4 VAL 4 146 146 VAL ALA B . n B 1 5 THR 5 147 147 THR THR B . n B 1 6 ALA 6 148 148 ALA ALA B . n B 1 7 THR 7 149 149 THR THR B . n B 1 8 GLN 8 150 150 GLN GLN B . n B 1 9 LEU 9 151 151 LEU LEU B . n B 1 10 ALA 10 152 152 ALA ALA B . n B 1 11 ALA 11 153 153 ALA ALA B . n B 1 12 LYS 12 154 154 LYS LYS B . n B 1 13 ALA 13 155 155 ALA ALA B . n B 1 14 THR 14 156 156 THR THR B . n B 1 15 THR 15 157 157 THR THR B . n B 1 16 LEU 16 158 158 LEU LEU B . n B 1 17 TYR 17 159 159 TYR TYR B . n B 1 18 TYR 18 160 160 TYR TYR B . n B 1 19 LEU 19 161 161 LEU LEU B . n B 1 20 HIS 20 162 162 HIS HIS B . n B 1 21 LYS 21 163 163 LYS LYS B . n B 1 22 GLN 22 164 164 GLN GLN B . n B 1 23 ALA 23 165 165 ALA ALA B . n B 1 24 MSE 24 166 166 MSE MSE B . n B 1 25 THR 25 167 167 THR THR B . n B 1 26 ASP 26 168 168 ASP ASP B . n B 1 27 GLU 27 169 169 GLU GLU B . n B 1 28 VAL 28 170 170 VAL VAL B . n B 1 29 SER 29 171 171 SER SER B . n B 1 30 LEU 30 172 172 LEU LEU B . n B 1 31 LEU 31 173 173 LEU LEU B . n B 1 32 LEU 32 174 174 LEU LEU B . n B 1 33 GLU 33 175 175 GLU GLU B . n B 1 34 GLN 34 176 176 GLN GLN B . n B 1 35 ALA 35 177 177 ALA ALA B . n B 1 36 LEU 36 178 178 LEU LEU B . n B 1 37 GLN 37 179 179 GLN GLN B . n B 1 38 LEU 38 180 180 LEU LEU B . n B 1 39 GLU 39 181 181 GLU GLU B . n B 1 40 PRO 40 182 182 PRO PRO B . n B 1 41 TYR 41 183 183 TYR TYR B . n B 1 42 ASN 42 184 184 ASN ASN B . n B 1 43 GLU 43 185 185 GLU GLU B . n B 1 44 ALA 44 186 186 ALA ALA B . n B 1 45 ALA 45 187 187 ALA ALA B . n B 1 46 LEU 46 188 188 LEU LEU B . n B 1 47 SER 47 189 189 SER SER B . n B 1 48 LEU 48 190 190 LEU LEU B . n B 1 49 ILE 49 191 191 ILE ILE B . n B 1 50 ALA 50 192 192 ALA ALA B . n B 1 51 ASN 51 193 193 ASN ASN B . n B 1 52 ASP 52 194 194 ASP ASP B . n B 1 53 HIS 53 195 195 HIS HIS B . n B 1 54 PHE 54 196 196 PHE PHE B . n B 1 55 ILE 55 197 197 ILE ILE B . n B 1 56 SER 56 198 198 SER SER B . n B 1 57 PHE 57 199 199 PHE PHE B . n B 1 58 ARG 58 200 200 ARG ARG B . n B 1 59 PHE 59 201 201 PHE PHE B . n B 1 60 GLN 60 202 202 GLN GLN B . n B 1 61 GLU 61 203 203 GLU GLU B . n B 1 62 ALA 62 204 204 ALA ALA B . n B 1 63 ILE 63 205 205 ILE ILE B . n B 1 64 ASP 64 206 206 ASP ASP B . n B 1 65 THR 65 207 207 THR THR B . n B 1 66 TRP 66 208 208 TRP TRP B . n B 1 67 VAL 67 209 209 VAL VAL B . n B 1 68 LEU 68 210 210 LEU LEU B . n B 1 69 LEU 69 211 211 LEU LEU B . n B 1 70 LEU 70 212 212 LEU LEU B . n B 1 71 ASP 71 213 213 ASP ASP B . n B 1 72 SER 72 214 214 SER SER B . n B 1 73 ASN 73 215 215 ASN ASN B . n B 1 74 ASP 74 216 216 ASP ASP B . n B 1 75 PRO 75 217 217 PRO PRO B . n B 1 76 ASN 76 218 218 ASN ASN B . n B 1 77 LEU 77 219 219 LEU LEU B . n B 1 78 ASP 78 220 220 ASP ASP B . n B 1 79 ARG 79 221 221 ARG ARG B . n B 1 80 VAL 80 222 222 VAL VAL B . n B 1 81 THR 81 223 223 THR THR B . n B 1 82 ILE 82 224 224 ILE ILE B . n B 1 83 ILE 83 225 225 ILE ILE B . n B 1 84 GLU 84 226 226 GLU GLU B . n B 1 85 SER 85 227 227 SER SER B . n B 1 86 ILE 86 228 228 ILE ILE B . n B 1 87 ASN 87 229 229 ASN ASN B . n B 1 88 LYS 88 230 230 LYS LYS B . n B 1 89 ALA 89 231 231 ALA ALA B . n B 1 90 LYS 90 232 232 LYS LYS B . n B 1 91 LYS 91 233 233 LYS LYS B . n B 1 92 LEU 92 234 234 LEU LEU B . n B 1 93 MSE 93 235 235 MSE MSE B . n # _pdbx_SG_project.id 1 _pdbx_SG_project.project_name 'PSI, Protein Structure Initiative' _pdbx_SG_project.full_name_of_center 'Midwest Center for Structural Genomics' _pdbx_SG_project.initial_of_center MCSG # 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 C 2 EDO 1 301 301 EDO EDO A . D 2 EDO 1 302 302 EDO EDO A . E 2 EDO 1 304 304 EDO EDO A . F 2 EDO 1 303 303 EDO EDO B . G 3 HOH 1 3 3 HOH HOH A . G 3 HOH 2 5 5 HOH HOH A . G 3 HOH 3 7 7 HOH HOH A . G 3 HOH 4 9 9 HOH HOH A . G 3 HOH 5 12 12 HOH HOH A . G 3 HOH 6 13 13 HOH HOH A . G 3 HOH 7 14 14 HOH HOH A . G 3 HOH 8 15 15 HOH HOH A . G 3 HOH 9 25 25 HOH HOH A . G 3 HOH 10 28 28 HOH HOH A . G 3 HOH 11 30 30 HOH HOH A . G 3 HOH 12 31 31 HOH HOH A . G 3 HOH 13 33 33 HOH HOH A . G 3 HOH 14 35 35 HOH HOH A . G 3 HOH 15 41 41 HOH HOH A . G 3 HOH 16 42 42 HOH HOH A . G 3 HOH 17 44 44 HOH HOH A . G 3 HOH 18 46 46 HOH HOH A . G 3 HOH 19 48 48 HOH HOH A . G 3 HOH 20 49 49 HOH HOH A . G 3 HOH 21 50 50 HOH HOH A . G 3 HOH 22 56 56 HOH HOH A . G 3 HOH 23 59 59 HOH HOH A . G 3 HOH 24 60 60 HOH HOH A . G 3 HOH 25 66 66 HOH HOH A . G 3 HOH 26 67 67 HOH HOH A . G 3 HOH 27 70 70 HOH HOH A . G 3 HOH 28 71 71 HOH HOH A . G 3 HOH 29 73 73 HOH HOH A . G 3 HOH 30 75 75 HOH HOH A . G 3 HOH 31 77 77 HOH HOH A . G 3 HOH 32 79 79 HOH HOH A . G 3 HOH 33 80 80 HOH HOH A . G 3 HOH 34 81 81 HOH HOH A . G 3 HOH 35 82 82 HOH HOH A . G 3 HOH 36 86 86 HOH HOH A . G 3 HOH 37 87 87 HOH HOH A . G 3 HOH 38 90 90 HOH HOH A . G 3 HOH 39 91 91 HOH HOH A . G 3 HOH 40 92 92 HOH HOH A . G 3 HOH 41 93 93 HOH HOH A . G 3 HOH 42 96 96 HOH HOH A . G 3 HOH 43 97 97 HOH HOH A . G 3 HOH 44 98 98 HOH HOH A . G 3 HOH 45 99 99 HOH HOH A . G 3 HOH 46 101 101 HOH HOH A . G 3 HOH 47 103 103 HOH HOH A . H 3 HOH 1 1 1 HOH HOH B . H 3 HOH 2 2 2 HOH HOH B . H 3 HOH 3 4 4 HOH HOH B . H 3 HOH 4 6 6 HOH HOH B . H 3 HOH 5 8 8 HOH HOH B . H 3 HOH 6 10 10 HOH HOH B . H 3 HOH 7 11 11 HOH HOH B . H 3 HOH 8 16 16 HOH HOH B . H 3 HOH 9 17 17 HOH HOH B . H 3 HOH 10 18 18 HOH HOH B . H 3 HOH 11 19 19 HOH HOH B . H 3 HOH 12 20 20 HOH HOH B . H 3 HOH 13 21 21 HOH HOH B . H 3 HOH 14 22 22 HOH HOH B . H 3 HOH 15 23 23 HOH HOH B . H 3 HOH 16 24 24 HOH HOH B . H 3 HOH 17 26 26 HOH HOH B . H 3 HOH 18 27 27 HOH HOH B . H 3 HOH 19 29 29 HOH HOH B . H 3 HOH 20 32 32 HOH HOH B . H 3 HOH 21 34 34 HOH HOH B . H 3 HOH 22 36 36 HOH HOH B . H 3 HOH 23 37 37 HOH HOH B . H 3 HOH 24 38 38 HOH HOH B . H 3 HOH 25 39 39 HOH HOH B . H 3 HOH 26 40 40 HOH HOH B . H 3 HOH 27 43 43 HOH HOH B . H 3 HOH 28 45 45 HOH HOH B . H 3 HOH 29 47 47 HOH HOH B . H 3 HOH 30 51 51 HOH HOH B . H 3 HOH 31 52 52 HOH HOH B . H 3 HOH 32 53 53 HOH HOH B . H 3 HOH 33 54 54 HOH HOH B . H 3 HOH 34 55 55 HOH HOH B . H 3 HOH 35 57 57 HOH HOH B . H 3 HOH 36 58 58 HOH HOH B . H 3 HOH 37 61 61 HOH HOH B . H 3 HOH 38 62 62 HOH HOH B . H 3 HOH 39 63 63 HOH HOH B . H 3 HOH 40 64 64 HOH HOH B . H 3 HOH 41 65 65 HOH HOH B . H 3 HOH 42 68 68 HOH HOH B . H 3 HOH 43 69 69 HOH HOH B . H 3 HOH 44 72 72 HOH HOH B . H 3 HOH 45 74 74 HOH HOH B . H 3 HOH 46 76 76 HOH HOH B . H 3 HOH 47 78 78 HOH HOH B . H 3 HOH 48 83 83 HOH HOH B . H 3 HOH 49 84 84 HOH HOH B . H 3 HOH 50 85 85 HOH HOH B . H 3 HOH 51 88 88 HOH HOH B . H 3 HOH 52 89 89 HOH HOH B . H 3 HOH 53 94 94 HOH HOH B . H 3 HOH 54 95 95 HOH HOH B . H 3 HOH 55 100 100 HOH HOH B . H 3 HOH 56 102 102 HOH HOH B . # 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 24 A MSE 166 ? MET SELENOMETHIONINE 2 A MSE 93 A MSE 235 ? MET SELENOMETHIONINE 3 B MSE 24 B MSE 166 ? MET SELENOMETHIONINE 4 B MSE 93 B MSE 235 ? MET SELENOMETHIONINE # loop_ _pdbx_struct_assembly.id _pdbx_struct_assembly.details _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count 1 author_and_software_defined_assembly PISA monomeric 1 2 author_and_software_defined_assembly PISA monomeric 1 # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1 A,C,D,E,G 2 1 B,F,H # _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 2007-12-04 2 'Structure model' 1 1 2011-07-13 # _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' Advisory 2 2 'Structure model' 'Version format compliance' # loop_ _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] _pdbx_refine_tls.pdbx_refine_id 1 ? refined 14.4415 41.7123 25.0253 -0.0305 -0.0941 -0.0843 -0.0853 -0.0228 -0.0001 4.3436 10.7714 4.6088 -2.0700 -0.3590 3.6696 -0.0049 0.2091 0.2037 -0.2629 -0.3630 -0.0273 -0.3452 0.2851 0.3679 'X-RAY DIFFRACTION' 2 ? refined 2.8432 30.2731 27.2527 -0.0957 -0.0875 -0.0783 -0.0370 0.0281 -0.0450 6.3284 6.4069 3.8446 1.1827 0.0157 1.3246 -0.0375 -0.1628 0.4638 0.0242 -0.2209 0.5075 -0.0817 -0.1401 0.2584 'X-RAY DIFFRACTION' 3 ? refined 19.9125 25.6789 8.6960 -0.0087 -0.1289 -0.1700 0.0055 0.0273 0.0172 11.2478 8.6956 5.7662 -5.0760 -0.9073 0.3039 -0.0172 0.0647 0.3363 -0.1922 0.0177 -0.0048 -0.0173 0.3440 -0.0005 'X-RAY DIFFRACTION' 4 ? refined 19.4101 12.9811 19.6081 0.0848 -0.1698 -0.1578 0.0823 0.0281 0.0084 6.2788 3.5559 2.4488 -1.0633 -1.4030 -0.6648 -0.1876 -0.1895 -0.4069 0.1663 0.0248 0.1179 0.2758 0.1389 0.1629 'X-RAY DIFFRACTION' # loop_ _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.pdbx_refine_id _pdbx_refine_tls_group.selection_details 1 1 A 145 A 3 A 180 A 38 ? 'X-RAY DIFFRACTION' ? 2 2 A 181 A 39 A 235 A 93 ? 'X-RAY DIFFRACTION' ? 3 3 B 145 B 3 B 180 B 38 ? 'X-RAY DIFFRACTION' ? 4 4 B 181 B 39 B 235 B 93 ? 'X-RAY DIFFRACTION' ? # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal REFMAC refinement 5.2.0019 ? 1 SBC-Collect 'data collection' . ? 2 HKL-3000 'data reduction' . ? 3 HKL-3000 'data scaling' . ? 4 HKL-3000 phasing . ? 5 # _pdbx_validate_symm_contact.id 1 _pdbx_validate_symm_contact.PDB_model_num 1 _pdbx_validate_symm_contact.auth_atom_id_1 OD1 _pdbx_validate_symm_contact.auth_asym_id_1 A _pdbx_validate_symm_contact.auth_comp_id_1 ASN _pdbx_validate_symm_contact.auth_seq_id_1 215 _pdbx_validate_symm_contact.PDB_ins_code_1 ? _pdbx_validate_symm_contact.label_alt_id_1 ? _pdbx_validate_symm_contact.site_symmetry_1 1_555 _pdbx_validate_symm_contact.auth_atom_id_2 NZ _pdbx_validate_symm_contact.auth_asym_id_2 B _pdbx_validate_symm_contact.auth_comp_id_2 LYS _pdbx_validate_symm_contact.auth_seq_id_2 163 _pdbx_validate_symm_contact.PDB_ins_code_2 ? _pdbx_validate_symm_contact.label_alt_id_2 ? _pdbx_validate_symm_contact.site_symmetry_2 4_455 _pdbx_validate_symm_contact.dist 2.14 # 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 ASN 144 ? CG ? A ASN 2 CG 2 1 Y 1 A ASN 144 ? OD1 ? A ASN 2 OD1 3 1 Y 1 A ASN 144 ? ND2 ? A ASN 2 ND2 4 1 Y 1 B VAL 146 ? CG1 ? B VAL 4 CG1 5 1 Y 1 B VAL 146 ? CG2 ? B VAL 4 CG2 # 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 SER 143 ? A SER 1 2 1 Y 1 B SER 143 ? B SER 1 3 1 Y 1 B ASN 144 ? B ASN 2 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 1,2-ETHANEDIOL EDO 3 water HOH #