data_3BJA # _entry.id 3BJA # _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 3BJA pdb_00003bja 10.2210/pdb3bja/pdb RCSB RCSB045589 ? ? WWPDB D_1000045589 ? ? # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id 376427 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.SG_entry Y _pdbx_database_status.entry_id 3BJA _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2007-12-03 _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _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 putative MarR-like transcription regulator (NP_978771.1) from Bacillus cereus ATCC 10987 at 2.38 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 3BJA _cell.length_a 71.321 _cell.length_b 71.321 _cell.length_c 65.720 _cell.angle_alpha 90.000 _cell.angle_beta 90.000 _cell.angle_gamma 90.000 _cell.pdbx_unique_axis ? _cell.Z_PDB 8 _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 3BJA _symmetry.Int_Tables_number 96 _symmetry.space_group_name_H-M 'P 43 21 2' _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 'Transcriptional regulator, MarR family, putative' 16556.967 1 ? ? ? ? 2 water nat water 18.015 13 ? ? ? ? # _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 ;G(MSE)NNRELYGNIRDVYHLLQKNLDKAIEQYDISYVQFGVIQVLAKSGKVS(MSE)SKLIEN(MSE)GCVPSN(MSE) TT(MSE)IQR(MSE)KRDGYV(MSE)TEKNPNDQRETLVYLTKKGEETKKQVDVQYSDFLKENCGCFTKEEEGILEDLLL KWKKHLN ; _entity_poly.pdbx_seq_one_letter_code_can ;GMNNRELYGNIRDVYHLLQKNLDKAIEQYDISYVQFGVIQVLAKSGKVSMSKLIENMGCVPSNMTTMIQRMKRDGYVMTE KNPNDQRETLVYLTKKGEETKKQVDVQYSDFLKENCGCFTKEEEGILEDLLLKWKKHLN ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier 376427 # 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 MSE n 1 3 ASN n 1 4 ASN n 1 5 ARG n 1 6 GLU n 1 7 LEU n 1 8 TYR n 1 9 GLY n 1 10 ASN n 1 11 ILE n 1 12 ARG n 1 13 ASP n 1 14 VAL n 1 15 TYR n 1 16 HIS n 1 17 LEU n 1 18 LEU n 1 19 GLN n 1 20 LYS n 1 21 ASN n 1 22 LEU n 1 23 ASP n 1 24 LYS n 1 25 ALA n 1 26 ILE n 1 27 GLU n 1 28 GLN n 1 29 TYR n 1 30 ASP n 1 31 ILE n 1 32 SER n 1 33 TYR n 1 34 VAL n 1 35 GLN n 1 36 PHE n 1 37 GLY n 1 38 VAL n 1 39 ILE n 1 40 GLN n 1 41 VAL n 1 42 LEU n 1 43 ALA n 1 44 LYS n 1 45 SER n 1 46 GLY n 1 47 LYS n 1 48 VAL n 1 49 SER n 1 50 MSE n 1 51 SER n 1 52 LYS n 1 53 LEU n 1 54 ILE n 1 55 GLU n 1 56 ASN n 1 57 MSE n 1 58 GLY n 1 59 CYS n 1 60 VAL n 1 61 PRO n 1 62 SER n 1 63 ASN n 1 64 MSE n 1 65 THR n 1 66 THR n 1 67 MSE n 1 68 ILE n 1 69 GLN n 1 70 ARG n 1 71 MSE n 1 72 LYS n 1 73 ARG n 1 74 ASP n 1 75 GLY n 1 76 TYR n 1 77 VAL n 1 78 MSE n 1 79 THR n 1 80 GLU n 1 81 LYS n 1 82 ASN n 1 83 PRO n 1 84 ASN n 1 85 ASP n 1 86 GLN n 1 87 ARG n 1 88 GLU n 1 89 THR n 1 90 LEU n 1 91 VAL n 1 92 TYR n 1 93 LEU n 1 94 THR n 1 95 LYS n 1 96 LYS n 1 97 GLY n 1 98 GLU n 1 99 GLU n 1 100 THR n 1 101 LYS n 1 102 LYS n 1 103 GLN n 1 104 VAL n 1 105 ASP n 1 106 VAL n 1 107 GLN n 1 108 TYR n 1 109 SER n 1 110 ASP n 1 111 PHE n 1 112 LEU n 1 113 LYS n 1 114 GLU n 1 115 ASN n 1 116 CYS n 1 117 GLY n 1 118 CYS n 1 119 PHE n 1 120 THR n 1 121 LYS n 1 122 GLU n 1 123 GLU n 1 124 GLU n 1 125 GLY n 1 126 ILE n 1 127 LEU n 1 128 GLU n 1 129 ASP n 1 130 LEU n 1 131 LEU n 1 132 LEU n 1 133 LYS n 1 134 TRP n 1 135 LYS n 1 136 LYS n 1 137 HIS n 1 138 LEU n 1 139 ASN n # _entity_src_gen.entity_id 1 _entity_src_gen.pdbx_src_id 1 _entity_src_gen.pdbx_alt_source_flag sample _entity_src_gen.pdbx_seq_type ? _entity_src_gen.pdbx_beg_seq_num ? _entity_src_gen.pdbx_end_seq_num ? _entity_src_gen.gene_src_common_name ? _entity_src_gen.gene_src_genus Bacillus _entity_src_gen.pdbx_gene_src_gene 'NP_978771.1, BCE_2462' _entity_src_gen.gene_src_species 'Bacillus cereus' _entity_src_gen.gene_src_strain 'ATCC 10987' _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 'Bacillus cereus' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 222523 _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 HK100 _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 Q738D3_BACC1 _struct_ref.pdbx_db_accession Q738D3 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;MNNRELYGNIRDVYHLLQKNLDKAIEQYDISYVQFGVIQVLAKSGKVSMSKLIENMGCVPSNMTTMIQRMKRDGYVMTEK NPNDQRETLVYLTKKGEETKKQVDVQYSDFLKENCGCFTKEEEGILEDLLLKWKKHLN ; _struct_ref.pdbx_align_begin 1 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 3BJA _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 139 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q738D3 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 138 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 138 # _struct_ref_seq_dif.align_id 1 _struct_ref_seq_dif.pdbx_pdb_id_code 3BJA _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 Q738D3 _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 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 3BJA # _exptl_crystal.id 1 _exptl_crystal.density_Matthews 2.52 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 51.26 _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 ? _exptl_crystal_grow.temp 277 _exptl_crystal_grow.pdbx_details 'NANODROP, 24.9% PEG 3350, 0.214M Potassium nitrate, 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 300 mm CCD' _diffrn_detector.details 'Adjustable focusing mirrors in K-B geometry' _diffrn_detector.pdbx_collection_date 2007-10-25 # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'Si(111) 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 0.94939 1.0 2 0.97953 1.0 3 0.97939 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.pdbx_synchrotron_beamline 23-ID-D _diffrn_source.type 'APS BEAMLINE 23-ID-D' _diffrn_source.pdbx_wavelength_list '0.94939, 0.97953, 0.97939' _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_site APS # _reflns.entry_id 3BJA _reflns.d_resolution_high 2.38 _reflns.d_resolution_low 48.337 _reflns.number_obs 7225 _reflns.pdbx_Rmerge_I_obs 0.061 _reflns.pdbx_netI_over_sigmaI 16.250 _reflns.percent_possible_obs 99.700 _reflns.B_iso_Wilson_estimate 68.524 _reflns.observed_criterion_sigma_I -3.00 _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 2.38 2.46 4601 ? 678 0.879 2.2 ? ? ? ? ? 100.00 1 1 2.46 2.56 5044 ? 703 0.730 2.9 ? ? ? ? ? 100.00 2 1 2.56 2.68 5101 ? 717 0.581 3.6 ? ? ? ? ? 100.00 3 1 2.68 2.82 5024 ? 710 0.415 5.1 ? ? ? ? ? 100.00 4 1 2.82 3.00 5101 ? 723 0.249 8.0 ? ? ? ? ? 100.00 5 1 3.00 3.23 5013 ? 708 0.143 13.0 ? ? ? ? ? 100.00 6 1 3.23 3.55 4926 ? 707 0.078 21.2 ? ? ? ? ? 100.00 7 1 3.55 4.06 4971 ? 725 0.049 28.8 ? ? ? ? ? 99.90 8 1 4.06 5.10 4973 ? 749 0.037 36.1 ? ? ? ? ? 100.00 9 1 5.10 48.337 4610 ? 804 0.034 36.9 ? ? ? ? ? 97.50 10 1 # _refine.entry_id 3BJA _refine.ls_d_res_high 2.380 _refine.ls_d_res_low 48.337 _refine.pdbx_ls_sigma_F 0.00 _refine.ls_percent_reflns_obs 99.760 _refine.ls_number_reflns_obs 7194 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_R_Free_selection_details RANDOM _refine.details ;1. HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. 2. ATOM RECORDS CONTAIN RESIDUAL B FACTORS ONLY. 3. 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. ; _refine.ls_R_factor_obs 0.234 _refine.ls_R_factor_R_work 0.233 _refine.ls_R_factor_R_free 0.253 _refine.ls_percent_reflns_R_free 4.700 _refine.ls_number_reflns_R_free 337 _refine.B_iso_mean 64.800 _refine.aniso_B[1][1] 0.660 _refine.aniso_B[2][2] 0.660 _refine.aniso_B[3][3] -1.320 _refine.aniso_B[1][2] 0.000 _refine.aniso_B[1][3] 0.000 _refine.aniso_B[2][3] 0.000 _refine.correlation_coeff_Fo_to_Fc 0.949 _refine.correlation_coeff_Fo_to_Fc_free 0.930 _refine.pdbx_overall_ESU_R 0.395 _refine.pdbx_overall_ESU_R_Free 0.249 _refine.overall_SU_ML 0.259 _refine.overall_SU_B 24.942 _refine.solvent_model_details 'BABINET MODEL WITH MASK' _refine.pdbx_solvent_vdw_probe_radii 1.200 _refine.pdbx_solvent_ion_probe_radii 0.800 _refine.pdbx_solvent_shrinkage_radii 0.800 _refine.pdbx_method_to_determine_struct MAD _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD WITH PHASES' _refine.pdbx_ls_sigma_I ? _refine.ls_number_reflns_all ? _refine.ls_R_factor_all ? _refine.ls_redundancy_reflns_obs ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_starting_model ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.pdbx_isotropic_thermal_model ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_data_cutoff_high_rms_absF ? _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 1109 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 13 _refine_hist.number_atoms_total 1122 _refine_hist.d_res_high 2.380 _refine_hist.d_res_low 48.337 # 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_refine_id _refine_ls_restr.pdbx_restraint_function r_bond_refined_d 1140 0.015 0.022 ? 'X-RAY DIFFRACTION' ? r_bond_other_d 776 0.002 0.020 ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1535 1.549 1.971 ? 'X-RAY DIFFRACTION' ? r_angle_other_deg 1910 1.262 3.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 142 2.977 5.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 56 32.113 25.893 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 226 13.418 15.000 ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 5 14.904 15.000 ? 'X-RAY DIFFRACTION' ? r_chiral_restr 170 0.086 0.200 ? 'X-RAY DIFFRACTION' ? r_gen_planes_refined 1262 0.005 0.020 ? 'X-RAY DIFFRACTION' ? r_gen_planes_other 210 0.002 0.020 ? 'X-RAY DIFFRACTION' ? r_nbd_refined 217 0.175 0.200 ? 'X-RAY DIFFRACTION' ? r_nbd_other 698 0.119 0.200 ? 'X-RAY DIFFRACTION' ? r_nbtor_refined 549 0.148 0.200 ? 'X-RAY DIFFRACTION' ? r_nbtor_other 528 0.075 0.200 ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 21 0.120 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined 11 0.113 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other 33 0.139 0.200 ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 3 0.160 0.200 ? 'X-RAY DIFFRACTION' ? r_mcbond_it 839 1.937 3.000 ? 'X-RAY DIFFRACTION' ? r_mcbond_other 286 0.271 3.000 ? 'X-RAY DIFFRACTION' ? r_mcangle_it 1120 2.726 5.000 ? 'X-RAY DIFFRACTION' ? r_scbond_it 503 5.211 8.000 ? 'X-RAY DIFFRACTION' ? r_scangle_it 413 7.107 11.000 ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.d_res_high 2.380 _refine_ls_shell.d_res_low 2.442 _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.percent_reflns_obs 100.000 _refine_ls_shell.number_reflns_R_work 483 _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_R_work 0.340 _refine_ls_shell.R_factor_R_free 0.341 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 28 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_all 511 _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 3BJA _struct.title 'Crystal structure of putative MarR-like transcription regulator (NP_978771.1) from Bacillus cereus ATCC 10987 at 2.38 A resolution' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.text ;NP_978771.1, Putative MarR-like Transcription Regulator, MarR family, Structural Genomics, Joint Center for Structural Genomics, JCSG, Protein Structure Initiative, PSI-2, DNA-binding, Transcription regulation, TRANSCRIPTION REGULATOR ; _struct_keywords.pdbx_keywords 'TRANSCRIPTION REGULATOR' _struct_keywords.entry_id 3BJA # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? # _struct_biol.id 1 _struct_biol.details ? # loop_ _struct_conf.conf_type_id _struct_conf.id _struct_conf.pdbx_PDB_helix_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_seq_id _struct_conf.pdbx_beg_PDB_ins_code _struct_conf.end_label_comp_id _struct_conf.end_label_asym_id _struct_conf.end_label_seq_id _struct_conf.pdbx_end_PDB_ins_code _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_seq_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.details _struct_conf.pdbx_PDB_helix_length HELX_P HELX_P1 1 GLY A 1 ? ILE A 26 ? GLY A 0 ILE A 25 1 ? 26 HELX_P HELX_P2 2 GLU A 27 ? ASP A 30 ? GLU A 26 ASP A 29 5 ? 4 HELX_P HELX_P3 3 SER A 32 ? SER A 45 ? SER A 31 SER A 44 1 ? 14 HELX_P HELX_P4 4 MSE A 50 ? MSE A 57 ? MSE A 49 MSE A 56 1 ? 8 HELX_P HELX_P5 5 ASN A 63 ? ASP A 74 ? ASN A 62 ASP A 73 1 ? 12 HELX_P HELX_P6 6 THR A 94 ? GLY A 117 ? THR A 93 GLY A 116 1 ? 24 HELX_P HELX_P7 7 THR A 120 ? ASN A 139 ? THR A 119 ASN A 138 1 ? 20 # _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 GLY 1 C ? ? ? 1_555 A MSE 2 N ? ? A GLY 0 A MSE 1 1_555 ? ? ? ? ? ? ? 1.336 ? ? covale2 covale both ? A MSE 2 C ? ? ? 1_555 A ASN 3 N ? ? A MSE 1 A ASN 2 1_555 ? ? ? ? ? ? ? 1.337 ? ? covale3 covale both ? A SER 49 C ? ? ? 1_555 A MSE 50 N ? ? A SER 48 A MSE 49 1_555 ? ? ? ? ? ? ? 1.331 ? ? covale4 covale both ? A MSE 50 C ? ? ? 1_555 A SER 51 N ? ? A MSE 49 A SER 50 1_555 ? ? ? ? ? ? ? 1.338 ? ? covale5 covale both ? A ASN 56 C ? ? ? 1_555 A MSE 57 N ? ? A ASN 55 A MSE 56 1_555 ? ? ? ? ? ? ? 1.341 ? ? covale6 covale both ? A MSE 57 C ? ? ? 1_555 A GLY 58 N ? ? A MSE 56 A GLY 57 1_555 ? ? ? ? ? ? ? 1.341 ? ? covale7 covale both ? A ASN 63 C ? ? ? 1_555 A MSE 64 N ? ? A ASN 62 A MSE 63 1_555 ? ? ? ? ? ? ? 1.342 ? ? covale8 covale both ? A MSE 64 C ? ? ? 1_555 A THR 65 N ? ? A MSE 63 A THR 64 1_555 ? ? ? ? ? ? ? 1.329 ? ? covale9 covale both ? A THR 66 C ? ? ? 1_555 A MSE 67 N ? ? A THR 65 A MSE 66 1_555 ? ? ? ? ? ? ? 1.327 ? ? covale10 covale both ? A MSE 67 C ? ? ? 1_555 A ILE 68 N ? ? A MSE 66 A ILE 67 1_555 ? ? ? ? ? ? ? 1.338 ? ? covale11 covale both ? A ARG 70 C ? ? ? 1_555 A MSE 71 N ? ? A ARG 69 A MSE 70 1_555 ? ? ? ? ? ? ? 1.336 ? ? covale12 covale both ? A MSE 71 C ? ? ? 1_555 A LYS 72 N ? ? A MSE 70 A LYS 71 1_555 ? ? ? ? ? ? ? 1.334 ? ? covale13 covale both ? A VAL 77 C ? ? ? 1_555 A MSE 78 N ? ? A VAL 76 A MSE 77 1_555 ? ? ? ? ? ? ? 1.336 ? ? covale14 covale both ? A MSE 78 C ? ? ? 1_555 A THR 79 N ? ? A MSE 77 A THR 78 1_555 ? ? ? ? ? ? ? 1.334 ? ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # _struct_sheet.id A _struct_sheet.type ? _struct_sheet.number_strands 3 _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 ? anti-parallel A 2 3 ? 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 VAL A 48 ? SER A 49 ? VAL A 47 SER A 48 A 2 THR A 89 ? LEU A 93 ? THR A 88 LEU A 92 A 3 VAL A 77 ? LYS A 81 ? VAL A 76 LYS A 80 # 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 VAL A 48 ? N VAL A 47 O VAL A 91 ? O VAL A 90 A 2 3 O LEU A 90 ? O LEU A 89 N GLU A 80 ? N GLU A 79 # _atom_sites.entry_id 3BJA _atom_sites.fract_transf_matrix[1][1] 0.014021 _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] 0.014021 _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] 0.015216 _atom_sites.fract_transf_vector[1] 0.000000 _atom_sites.fract_transf_vector[2] 0.000000 _atom_sites.fract_transf_vector[3] 0.000000 # loop_ _atom_type.symbol C 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 0 GLY GLY A . n A 1 2 MSE 2 1 1 MSE MSE A . n A 1 3 ASN 3 2 2 ASN ASN A . n A 1 4 ASN 4 3 3 ASN ASN A . n A 1 5 ARG 5 4 4 ARG ARG A . n A 1 6 GLU 6 5 5 GLU GLU A . n A 1 7 LEU 7 6 6 LEU LEU A . n A 1 8 TYR 8 7 7 TYR TYR A . n A 1 9 GLY 9 8 8 GLY GLY A . n A 1 10 ASN 10 9 9 ASN ASN A . n A 1 11 ILE 11 10 10 ILE ILE A . n A 1 12 ARG 12 11 11 ARG ARG A . n A 1 13 ASP 13 12 12 ASP ASP A . n A 1 14 VAL 14 13 13 VAL VAL A . n A 1 15 TYR 15 14 14 TYR TYR A . n A 1 16 HIS 16 15 15 HIS HIS A . n A 1 17 LEU 17 16 16 LEU LEU A . n A 1 18 LEU 18 17 17 LEU LEU A . n A 1 19 GLN 19 18 18 GLN GLN A . n A 1 20 LYS 20 19 19 LYS LYS A . n A 1 21 ASN 21 20 20 ASN ASN A . n A 1 22 LEU 22 21 21 LEU LEU A . n A 1 23 ASP 23 22 22 ASP ASP A . n A 1 24 LYS 24 23 23 LYS LYS A . n A 1 25 ALA 25 24 24 ALA ALA A . n A 1 26 ILE 26 25 25 ILE ILE A . n A 1 27 GLU 27 26 26 GLU GLU A . n A 1 28 GLN 28 27 27 GLN GLN A . n A 1 29 TYR 29 28 28 TYR TYR A . n A 1 30 ASP 30 29 29 ASP ASP A . n A 1 31 ILE 31 30 30 ILE ILE A . n A 1 32 SER 32 31 31 SER SER A . n A 1 33 TYR 33 32 32 TYR TYR A . n A 1 34 VAL 34 33 33 VAL VAL A . n A 1 35 GLN 35 34 34 GLN GLN A . n A 1 36 PHE 36 35 35 PHE PHE A . n A 1 37 GLY 37 36 36 GLY GLY A . n A 1 38 VAL 38 37 37 VAL VAL A . n A 1 39 ILE 39 38 38 ILE ILE A . n A 1 40 GLN 40 39 39 GLN GLN A . n A 1 41 VAL 41 40 40 VAL VAL A . n A 1 42 LEU 42 41 41 LEU LEU A . n A 1 43 ALA 43 42 42 ALA ALA A . n A 1 44 LYS 44 43 43 LYS LYS A . n A 1 45 SER 45 44 44 SER SER A . n A 1 46 GLY 46 45 45 GLY GLY A . n A 1 47 LYS 47 46 46 LYS LYS A . n A 1 48 VAL 48 47 47 VAL VAL A . n A 1 49 SER 49 48 48 SER SER A . n A 1 50 MSE 50 49 49 MSE MSE A . n A 1 51 SER 51 50 50 SER SER A . n A 1 52 LYS 52 51 51 LYS LYS A . n A 1 53 LEU 53 52 52 LEU LEU A . n A 1 54 ILE 54 53 53 ILE ILE A . n A 1 55 GLU 55 54 54 GLU GLU A . n A 1 56 ASN 56 55 55 ASN ASN A . n A 1 57 MSE 57 56 56 MSE MSE A . n A 1 58 GLY 58 57 57 GLY GLY A . n A 1 59 CYS 59 58 58 CYS CYS A . n A 1 60 VAL 60 59 59 VAL VAL A . n A 1 61 PRO 61 60 60 PRO PRO A . n A 1 62 SER 62 61 61 SER SER A . n A 1 63 ASN 63 62 62 ASN ASN A . n A 1 64 MSE 64 63 63 MSE MSE A . n A 1 65 THR 65 64 64 THR THR A . n A 1 66 THR 66 65 65 THR THR A . n A 1 67 MSE 67 66 66 MSE MSE A . n A 1 68 ILE 68 67 67 ILE ILE A . n A 1 69 GLN 69 68 68 GLN GLN A . n A 1 70 ARG 70 69 69 ARG ARG A . n A 1 71 MSE 71 70 70 MSE MSE A . n A 1 72 LYS 72 71 71 LYS LYS A . n A 1 73 ARG 73 72 72 ARG ARG A . n A 1 74 ASP 74 73 73 ASP ASP A . n A 1 75 GLY 75 74 74 GLY GLY A . n A 1 76 TYR 76 75 75 TYR TYR A . n A 1 77 VAL 77 76 76 VAL VAL A . n A 1 78 MSE 78 77 77 MSE MSE A . n A 1 79 THR 79 78 78 THR THR A . n A 1 80 GLU 80 79 79 GLU GLU A . n A 1 81 LYS 81 80 80 LYS LYS A . n A 1 82 ASN 82 81 81 ASN ASN A . n A 1 83 PRO 83 82 82 PRO PRO A . n A 1 84 ASN 84 83 83 ASN ASN A . n A 1 85 ASP 85 84 84 ASP ASP A . n A 1 86 GLN 86 85 85 GLN GLN A . n A 1 87 ARG 87 86 86 ARG ARG A . n A 1 88 GLU 88 87 87 GLU GLU A . n A 1 89 THR 89 88 88 THR THR A . n A 1 90 LEU 90 89 89 LEU LEU A . n A 1 91 VAL 91 90 90 VAL VAL A . n A 1 92 TYR 92 91 91 TYR TYR A . n A 1 93 LEU 93 92 92 LEU LEU A . n A 1 94 THR 94 93 93 THR THR A . n A 1 95 LYS 95 94 94 LYS LYS A . n A 1 96 LYS 96 95 95 LYS LYS A . n A 1 97 GLY 97 96 96 GLY GLY A . n A 1 98 GLU 98 97 97 GLU GLU A . n A 1 99 GLU 99 98 98 GLU GLU A . n A 1 100 THR 100 99 99 THR THR A . n A 1 101 LYS 101 100 100 LYS LYS A . n A 1 102 LYS 102 101 101 LYS LYS A . n A 1 103 GLN 103 102 102 GLN GLN A . n A 1 104 VAL 104 103 103 VAL VAL A . n A 1 105 ASP 105 104 104 ASP ASP A . n A 1 106 VAL 106 105 105 VAL VAL A . n A 1 107 GLN 107 106 106 GLN GLN A . n A 1 108 TYR 108 107 107 TYR TYR A . n A 1 109 SER 109 108 108 SER SER A . n A 1 110 ASP 110 109 109 ASP ASP A . n A 1 111 PHE 111 110 110 PHE PHE A . n A 1 112 LEU 112 111 111 LEU LEU A . n A 1 113 LYS 113 112 112 LYS LYS A . n A 1 114 GLU 114 113 113 GLU GLU A . n A 1 115 ASN 115 114 114 ASN ASN A . n A 1 116 CYS 116 115 115 CYS CYS A . n A 1 117 GLY 117 116 116 GLY GLY A . n A 1 118 CYS 118 117 117 CYS CYS A . n A 1 119 PHE 119 118 118 PHE PHE A . n A 1 120 THR 120 119 119 THR THR A . n A 1 121 LYS 121 120 120 LYS LYS A . n A 1 122 GLU 122 121 121 GLU GLU A . n A 1 123 GLU 123 122 122 GLU GLU A . n A 1 124 GLU 124 123 123 GLU GLU A . n A 1 125 GLY 125 124 124 GLY GLY A . n A 1 126 ILE 126 125 125 ILE ILE A . n A 1 127 LEU 127 126 126 LEU LEU A . n A 1 128 GLU 128 127 127 GLU GLU A . n A 1 129 ASP 129 128 128 ASP ASP A . n A 1 130 LEU 130 129 129 LEU LEU A . n A 1 131 LEU 131 130 130 LEU LEU A . n A 1 132 LEU 132 131 131 LEU LEU A . n A 1 133 LYS 133 132 132 LYS LYS A . n A 1 134 TRP 134 133 133 TRP TRP A . n A 1 135 LYS 135 134 134 LYS LYS A . n A 1 136 LYS 136 135 135 LYS LYS A . n A 1 137 HIS 137 136 136 HIS HIS A . n A 1 138 LEU 138 137 137 LEU LEU A . n A 1 139 ASN 139 138 138 ASN ASN A . n # _pdbx_SG_project.project_name 'PSI, Protein Structure Initiative' _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 HOH 1 139 1 HOH HOH A . B 2 HOH 2 140 2 HOH HOH A . B 2 HOH 3 141 3 HOH HOH A . B 2 HOH 4 142 4 HOH HOH A . B 2 HOH 5 143 5 HOH HOH A . B 2 HOH 6 144 6 HOH HOH A . B 2 HOH 7 145 7 HOH HOH A . B 2 HOH 8 146 8 HOH HOH A . B 2 HOH 9 147 9 HOH HOH A . B 2 HOH 10 148 10 HOH HOH A . B 2 HOH 11 149 11 HOH HOH A . B 2 HOH 12 150 12 HOH HOH A . B 2 HOH 13 151 13 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 2 A MSE 1 ? MET SELENOMETHIONINE 2 A MSE 50 A MSE 49 ? MET SELENOMETHIONINE 3 A MSE 57 A MSE 56 ? MET SELENOMETHIONINE 4 A MSE 64 A MSE 63 ? MET SELENOMETHIONINE 5 A MSE 67 A MSE 66 ? MET SELENOMETHIONINE 6 A MSE 71 A MSE 70 ? MET SELENOMETHIONINE 7 A MSE 78 A MSE 77 ? MET SELENOMETHIONINE # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 _pdbx_struct_assembly_gen.asym_id_list A,B # _pdbx_struct_assembly_prop.biol_id 1 _pdbx_struct_assembly_prop.type 'ABSA (A^2)' _pdbx_struct_assembly_prop.value 5070 _pdbx_struct_assembly_prop.details ? # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 2 'crystal symmetry operation' 7_555 y,x,-z 0.0000000000 1.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 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 2007-12-11 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2017-10-25 4 'Structure model' 1 3 2019-07-24 5 'Structure model' 1 4 2023-01-25 # _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' Advisory 2 2 'Structure model' 'Source and taxonomy' 3 2 'Structure model' 'Version format compliance' 4 3 'Structure model' 'Refinement description' 5 4 'Structure model' 'Data collection' 6 4 'Structure model' 'Derived calculations' 7 4 'Structure model' 'Refinement description' 8 5 'Structure model' 'Database references' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 3 'Structure model' software 2 4 'Structure model' software 3 4 'Structure model' struct_conn 4 5 'Structure model' database_2 5 5 'Structure model' struct_ref_seq_dif # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 3 'Structure model' '_software.classification' 2 3 'Structure model' '_software.name' 3 4 'Structure model' '_software.classification' 4 4 'Structure model' '_software.contact_author' 5 4 'Structure model' '_software.contact_author_email' 6 4 'Structure model' '_software.language' 7 4 'Structure model' '_software.location' 8 4 'Structure model' '_software.name' 9 4 'Structure model' '_software.type' 10 4 'Structure model' '_software.version' 11 4 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 12 5 'Structure model' '_database_2.pdbx_DOI' 13 5 'Structure model' '_database_2.pdbx_database_accession' 14 5 'Structure model' '_struct_ref_seq_dif.details' # _pdbx_refine_tls.id 1 _pdbx_refine_tls.details ? _pdbx_refine_tls.method refined _pdbx_refine_tls.origin_x 24.5820 _pdbx_refine_tls.origin_y 12.9790 _pdbx_refine_tls.origin_z -4.8030 _pdbx_refine_tls.T[1][1] -0.2395 _pdbx_refine_tls.T[2][2] -0.5060 _pdbx_refine_tls.T[3][3] -0.0134 _pdbx_refine_tls.T[1][2] 0.0605 _pdbx_refine_tls.T[1][3] -0.0220 _pdbx_refine_tls.T[2][3] -0.1297 _pdbx_refine_tls.L[1][1] 4.5110 _pdbx_refine_tls.L[2][2] 3.0350 _pdbx_refine_tls.L[3][3] 4.4881 _pdbx_refine_tls.L[1][2] 0.1984 _pdbx_refine_tls.L[1][3] -2.2242 _pdbx_refine_tls.L[2][3] -1.4237 _pdbx_refine_tls.S[1][1] 0.2144 _pdbx_refine_tls.S[2][2] -0.1713 _pdbx_refine_tls.S[3][3] -0.0431 _pdbx_refine_tls.S[1][2] -0.0540 _pdbx_refine_tls.S[1][3] 0.1871 _pdbx_refine_tls.S[2][3] -0.6033 _pdbx_refine_tls.S[2][1] -0.0149 _pdbx_refine_tls.S[3][1] -0.1143 _pdbx_refine_tls.S[3][2] 0.4227 _pdbx_refine_tls.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_label_asym_id A _pdbx_refine_tls_group.beg_label_seq_id 1 _pdbx_refine_tls_group.end_label_asym_id A _pdbx_refine_tls_group.end_label_seq_id 139 _pdbx_refine_tls_group.selection ? _pdbx_refine_tls_group.beg_auth_asym_id A _pdbx_refine_tls_group.beg_auth_seq_id 0 _pdbx_refine_tls_group.end_auth_asym_id A _pdbx_refine_tls_group.end_auth_seq_id 138 _pdbx_refine_tls_group.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls_group.selection_details ? # _phasing.method MAD # loop_ _software.name _software.version _software.date _software.type _software.contact_author _software.contact_author_email _software.classification _software.location _software.language _software.citation_id _software.pdbx_ordinal REFMAC 5.2.0019 ? program 'Murshudov, G.N.' ccp4@dl.ac.uk refinement http://www.ccp4.ac.uk/main.html Fortran_77 ? 1 PHENIX . ? package 'P.D. Adams' PDAdams@lbl.gov refinement http://www.phenix-online.org/ C++ ? 2 SHELX . ? package 'George Sheldrick' gsheldr@shelx.uni-ac.gwdg.de phasing http://shelx.uni-ac.gwdg.de/SHELX/ Fortran_77 ? 3 MolProbity 3beta29 ? package 'D.C. & J.S. Richardson lab' molprobity@kinemage.biochem.duke.edu 'model building' http://kinemage.biochem.duke.edu/molprobity/ ? ? 4 XSCALE . ? package 'Wolfgang Kabsch' ? 'data scaling' http://www.mpimf-heidelberg.mpg.de/~kabsch/xds/xscale_program.html ? ? 5 PDB_EXTRACT 3.000 'July 2, 2007' package PDB sw-help@rcsb.rutgers.edu 'data extraction' http://pdb.rutgers.edu/software/ C++ ? 6 MAR345 CCD ? ? ? ? 'data collection' ? ? ? 7 XDS . ? ? ? ? 'data reduction' ? ? ? 8 SHELXD . ? ? ? ? phasing ? ? ? 9 autoSHARP . ? ? ? ? phasing ? ? ? 10 # _pdbx_database_remark.id 999 _pdbx_database_remark.text ; SEQUENCE THE CONSTRUCT 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_validate_rmsd_angle.id 1 _pdbx_validate_rmsd_angle.PDB_model_num 1 _pdbx_validate_rmsd_angle.auth_atom_id_1 NE _pdbx_validate_rmsd_angle.auth_asym_id_1 A _pdbx_validate_rmsd_angle.auth_comp_id_1 ARG _pdbx_validate_rmsd_angle.auth_seq_id_1 72 _pdbx_validate_rmsd_angle.PDB_ins_code_1 ? _pdbx_validate_rmsd_angle.label_alt_id_1 ? _pdbx_validate_rmsd_angle.auth_atom_id_2 CZ _pdbx_validate_rmsd_angle.auth_asym_id_2 A _pdbx_validate_rmsd_angle.auth_comp_id_2 ARG _pdbx_validate_rmsd_angle.auth_seq_id_2 72 _pdbx_validate_rmsd_angle.PDB_ins_code_2 ? _pdbx_validate_rmsd_angle.label_alt_id_2 ? _pdbx_validate_rmsd_angle.auth_atom_id_3 NH1 _pdbx_validate_rmsd_angle.auth_asym_id_3 A _pdbx_validate_rmsd_angle.auth_comp_id_3 ARG _pdbx_validate_rmsd_angle.auth_seq_id_3 72 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 125.28 _pdbx_validate_rmsd_angle.angle_target_value 120.30 _pdbx_validate_rmsd_angle.angle_deviation 4.98 _pdbx_validate_rmsd_angle.angle_standard_deviation 0.50 _pdbx_validate_rmsd_angle.linker_flag N # _pdbx_validate_torsion.id 1 _pdbx_validate_torsion.PDB_model_num 1 _pdbx_validate_torsion.auth_comp_id ASN _pdbx_validate_torsion.auth_asym_id A _pdbx_validate_torsion.auth_seq_id 62 _pdbx_validate_torsion.PDB_ins_code ? _pdbx_validate_torsion.label_alt_id ? _pdbx_validate_torsion.phi -162.82 _pdbx_validate_torsion.psi 40.92 # 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 43 ? CD ? A LYS 44 CD 2 1 Y 1 A LYS 43 ? CE ? A LYS 44 CE 3 1 Y 1 A LYS 43 ? NZ ? A LYS 44 NZ 4 1 Y 1 A SER 61 ? OG ? A SER 62 OG 5 1 Y 1 A LYS 80 ? CG ? A LYS 81 CG 6 1 Y 1 A LYS 80 ? CD ? A LYS 81 CD 7 1 Y 1 A LYS 80 ? CE ? A LYS 81 CE 8 1 Y 1 A LYS 80 ? NZ ? A LYS 81 NZ 9 1 Y 1 A GLN 85 ? CG ? A GLN 86 CG 10 1 Y 1 A GLN 85 ? CD ? A GLN 86 CD 11 1 Y 1 A GLN 85 ? OE1 ? A GLN 86 OE1 12 1 Y 1 A GLN 85 ? NE2 ? A GLN 86 NE2 13 1 Y 1 A ARG 86 ? NE ? A ARG 87 NE 14 1 Y 1 A ARG 86 ? CZ ? A ARG 87 CZ 15 1 Y 1 A ARG 86 ? NH1 ? A ARG 87 NH1 16 1 Y 1 A ARG 86 ? NH2 ? A ARG 87 NH2 17 1 Y 1 A LYS 101 ? CG ? A LYS 102 CG 18 1 Y 1 A LYS 101 ? CD ? A LYS 102 CD 19 1 Y 1 A LYS 101 ? CE ? A LYS 102 CE 20 1 Y 1 A LYS 101 ? NZ ? A LYS 102 NZ 21 1 Y 1 A LYS 112 ? CD ? A LYS 113 CD 22 1 Y 1 A LYS 112 ? CE ? A LYS 113 CE 23 1 Y 1 A LYS 112 ? NZ ? A LYS 113 NZ # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH #