data_3DBW # _entry.id 3DBW # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.280 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 3DBW RCSB RCSB047844 WWPDB D_1000047844 # _pdbx_database_PDB_obs_spr.id OBSLTE _pdbx_database_PDB_obs_spr.date 2009-02-10 _pdbx_database_PDB_obs_spr.pdb_id 3FMS _pdbx_database_PDB_obs_spr.replace_pdb_id 3DBW _pdbx_database_PDB_obs_spr.details ? # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id ISFI335 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code OBS _pdbx_database_status.entry_id 3DBW _pdbx_database_status.recvd_initial_deposition_date 2008-06-02 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf OBS _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Zheng, M.' 1 'Cooper, D.R.' 2 'Yu, M.' 3 'Derewenda, U.' 4 'Hung, L.' 5 'Derewenda, Z.' 6 'Integrated Center for Structure and Function Innovation (ISFI)' 7 # _citation.id primary _citation.title 'Crystal structure of TM0439, a GntR transcriptional regulator.' _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 'Zheng, M.' 1 primary 'Cooper, D.R.' 2 primary 'Yu, M.' 3 primary 'Hung, L.W.' 4 primary 'Cieslik, M.' 5 primary 'Derewenda, U.' 6 primary 'Derewenda, Z.' 7 # _cell.entry_id 3DBW _cell.length_a 85.188 _cell.length_b 71.718 _cell.length_c 43.323 _cell.angle_alpha 90.00 _cell.angle_beta 104.59 _cell.angle_gamma 90.00 _cell.Z_PDB 4 _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 3DBW _symmetry.space_group_name_H-M 'C 1 2 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _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, GntR family' 26700.959 1 ? 'E118A, K119A, K122A' ? ? 2 non-polymer syn 'ZINC ION' 65.409 1 ? ? ? ? 3 non-polymer syn 'ACETATE ION' 59.044 2 ? ? ? ? 4 water nat water 18.015 81 ? ? ? ? # _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 ;(MSE)GSDKIHHHHHH(MSE)KKIEVDLVRTKVYNLLKE(MSE)ILNHELKLGEKLNVRELSEKLGISFTPVRDALLQLA TEGLVKVVPRVGFFVTDVDEKFIRETIETRI(MSE)(MSE)EVFCLENYFDKIAGSEELLEIKGEIDDVAASAAREIFDD SDERLHKLFIRASGNELIISLYEKIWDRIDLVRHLNERYVVSNREHKELIERIISGDKEGAIEKLKEHLKNVEAETIKNL YTYERS ; _entity_poly.pdbx_seq_one_letter_code_can ;MGSDKIHHHHHHMKKIEVDLVRTKVYNLLKEMILNHELKLGEKLNVRELSEKLGISFTPVRDALLQLATEGLVKVVPRVG FFVTDVDEKFIRETIETRIMMEVFCLENYFDKIAGSEELLEIKGEIDDVAASAAREIFDDSDERLHKLFIRASGNELIIS LYEKIWDRIDLVRHLNERYVVSNREHKELIERIISGDKEGAIEKLKEHLKNVEAETIKNLYTYERS ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ISFI335 # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 MSE n 1 2 GLY n 1 3 SER n 1 4 ASP n 1 5 LYS n 1 6 ILE n 1 7 HIS n 1 8 HIS n 1 9 HIS n 1 10 HIS n 1 11 HIS n 1 12 HIS n 1 13 MSE n 1 14 LYS n 1 15 LYS n 1 16 ILE n 1 17 GLU n 1 18 VAL n 1 19 ASP n 1 20 LEU n 1 21 VAL n 1 22 ARG n 1 23 THR n 1 24 LYS n 1 25 VAL n 1 26 TYR n 1 27 ASN n 1 28 LEU n 1 29 LEU n 1 30 LYS n 1 31 GLU n 1 32 MSE n 1 33 ILE n 1 34 LEU n 1 35 ASN n 1 36 HIS n 1 37 GLU n 1 38 LEU n 1 39 LYS n 1 40 LEU n 1 41 GLY n 1 42 GLU n 1 43 LYS n 1 44 LEU n 1 45 ASN n 1 46 VAL n 1 47 ARG n 1 48 GLU n 1 49 LEU n 1 50 SER n 1 51 GLU n 1 52 LYS n 1 53 LEU n 1 54 GLY n 1 55 ILE n 1 56 SER n 1 57 PHE n 1 58 THR n 1 59 PRO n 1 60 VAL n 1 61 ARG n 1 62 ASP n 1 63 ALA n 1 64 LEU n 1 65 LEU n 1 66 GLN n 1 67 LEU n 1 68 ALA n 1 69 THR n 1 70 GLU n 1 71 GLY n 1 72 LEU n 1 73 VAL n 1 74 LYS n 1 75 VAL n 1 76 VAL n 1 77 PRO n 1 78 ARG n 1 79 VAL n 1 80 GLY n 1 81 PHE n 1 82 PHE n 1 83 VAL n 1 84 THR n 1 85 ASP n 1 86 VAL n 1 87 ASP n 1 88 GLU n 1 89 LYS n 1 90 PHE n 1 91 ILE n 1 92 ARG n 1 93 GLU n 1 94 THR n 1 95 ILE n 1 96 GLU n 1 97 THR n 1 98 ARG n 1 99 ILE n 1 100 MSE n 1 101 MSE n 1 102 GLU n 1 103 VAL n 1 104 PHE n 1 105 CYS n 1 106 LEU n 1 107 GLU n 1 108 ASN n 1 109 TYR n 1 110 PHE n 1 111 ASP n 1 112 LYS n 1 113 ILE n 1 114 ALA n 1 115 GLY n 1 116 SER n 1 117 GLU n 1 118 GLU n 1 119 LEU n 1 120 LEU n 1 121 GLU n 1 122 ILE n 1 123 LYS n 1 124 GLY n 1 125 GLU n 1 126 ILE n 1 127 ASP n 1 128 ASP n 1 129 VAL n 1 130 ALA n 1 131 ALA n 1 132 SER n 1 133 ALA n 1 134 ALA n 1 135 ARG n 1 136 GLU n 1 137 ILE n 1 138 PHE n 1 139 ASP n 1 140 ASP n 1 141 SER n 1 142 ASP n 1 143 GLU n 1 144 ARG n 1 145 LEU n 1 146 HIS n 1 147 LYS n 1 148 LEU n 1 149 PHE n 1 150 ILE n 1 151 ARG n 1 152 ALA n 1 153 SER n 1 154 GLY n 1 155 ASN n 1 156 GLU n 1 157 LEU n 1 158 ILE n 1 159 ILE n 1 160 SER n 1 161 LEU n 1 162 TYR n 1 163 GLU n 1 164 LYS n 1 165 ILE n 1 166 TRP n 1 167 ASP n 1 168 ARG n 1 169 ILE n 1 170 ASP n 1 171 LEU n 1 172 VAL n 1 173 ARG n 1 174 HIS n 1 175 LEU n 1 176 ASN n 1 177 GLU n 1 178 ARG n 1 179 TYR n 1 180 VAL n 1 181 VAL n 1 182 SER n 1 183 ASN n 1 184 ARG n 1 185 GLU n 1 186 HIS n 1 187 LYS n 1 188 GLU n 1 189 LEU n 1 190 ILE n 1 191 GLU n 1 192 ARG n 1 193 ILE n 1 194 ILE n 1 195 SER n 1 196 GLY n 1 197 ASP n 1 198 LYS n 1 199 GLU n 1 200 GLY n 1 201 ALA n 1 202 ILE n 1 203 GLU n 1 204 LYS n 1 205 LEU n 1 206 LYS n 1 207 GLU n 1 208 HIS n 1 209 LEU n 1 210 LYS n 1 211 ASN n 1 212 VAL n 1 213 GLU n 1 214 ALA n 1 215 GLU n 1 216 THR n 1 217 ILE n 1 218 LYS n 1 219 ASN n 1 220 LEU n 1 221 TYR n 1 222 THR n 1 223 TYR n 1 224 GLU n 1 225 ARG n 1 226 SER 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 TM_0439 _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain 'MSB8 / DSM 3109 / JCM 10099' _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 'Thermotoga maritima MSB8' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 243274 _entity_src_gen.pdbx_gene_src_variant ? _entity_src_gen.pdbx_gene_src_cell_line ? _entity_src_gen.pdbx_gene_src_atcc 43589 _entity_src_gen.pdbx_gene_src_organ ? _entity_src_gen.pdbx_gene_src_organelle ? _entity_src_gen.pdbx_gene_src_cell ? _entity_src_gen.pdbx_gene_src_cellular_location ? _entity_src_gen.host_org_common_name ? _entity_src_gen.pdbx_host_org_scientific_name 'Escherichia coli' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 562 _entity_src_gen.host_org_genus ? _entity_src_gen.pdbx_host_org_gene ? _entity_src_gen.pdbx_host_org_organ ? _entity_src_gen.host_org_species ? _entity_src_gen.pdbx_host_org_tissue ? _entity_src_gen.pdbx_host_org_tissue_fraction ? _entity_src_gen.pdbx_host_org_strain BL21 _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 ? _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code Q9WYS0_THEMA _struct_ref.pdbx_db_accession Q9WYS0 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;MKKIEVDLVRTKVYNLLKEMILNHELKLGEKLNVRELSEKLGISFTPVRDALLQLATEGLVKVVPRVGFFVTDVDEKFIR ETIETRIMMEVFCLENYFDKIAGSEELLEIKGEIDDVEKSAKREIFDDSDERLHKLFIRASGNELIISLYEKIWDRIDLV RHLNERYVVSNREHKELIERIISGDKEGAIEKLKEHLKNVEAETIKNLYTYERS ; _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 3DBW _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 13 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 226 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q9WYS0 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 214 _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 214 # 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 3DBW MSE A 1 ? UNP Q9WYS0 ? ? 'EXPRESSION TAG' -11 1 1 3DBW GLY A 2 ? UNP Q9WYS0 ? ? 'EXPRESSION TAG' -10 2 1 3DBW SER A 3 ? UNP Q9WYS0 ? ? 'EXPRESSION TAG' -9 3 1 3DBW ASP A 4 ? UNP Q9WYS0 ? ? 'EXPRESSION TAG' -8 4 1 3DBW LYS A 5 ? UNP Q9WYS0 ? ? 'EXPRESSION TAG' -7 5 1 3DBW ILE A 6 ? UNP Q9WYS0 ? ? 'EXPRESSION TAG' -6 6 1 3DBW HIS A 7 ? UNP Q9WYS0 ? ? 'EXPRESSION TAG' -5 7 1 3DBW HIS A 8 ? UNP Q9WYS0 ? ? 'EXPRESSION TAG' -4 8 1 3DBW HIS A 9 ? UNP Q9WYS0 ? ? 'EXPRESSION TAG' -3 9 1 3DBW HIS A 10 ? UNP Q9WYS0 ? ? 'EXPRESSION TAG' -2 10 1 3DBW HIS A 11 ? UNP Q9WYS0 ? ? 'EXPRESSION TAG' -1 11 1 3DBW HIS A 12 ? UNP Q9WYS0 ? ? 'EXPRESSION TAG' 0 12 1 3DBW ALA A 130 ? UNP Q9WYS0 GLU 118 ENGINEERED 118 13 1 3DBW ALA A 131 ? UNP Q9WYS0 LYS 119 ENGINEERED 119 14 1 3DBW ALA A 134 ? UNP Q9WYS0 LYS 122 ENGINEERED 122 15 # 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 ACT non-polymer . 'ACETATE ION' ? 'C2 H3 O2 -1' 59.044 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 ZN non-polymer . 'ZINC ION' ? 'Zn 2' 65.409 # _exptl.entry_id 3DBW _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.40 _exptl_crystal.density_percent_sol 48.71 _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 293 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 4.5 _exptl_crystal_grow.pdbx_details '35% 2-methyl-2,4-pentanediol, 0.1 M Acetate pH 4.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K' _exptl_crystal_grow.pdbx_pH_range . # _diffrn.id 1 _diffrn.ambient_temp 198.0 _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 2007-08-10 _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 'KOHZU: Double crystal Si(111)' _diffrn_radiation.pdbx_diffrn_protocol MAD _diffrn_radiation.pdbx_scattering_type x-ray # loop_ _diffrn_radiation_wavelength.id _diffrn_radiation_wavelength.wavelength _diffrn_radiation_wavelength.wt 1 0.97961 1.0 2 0.95369 1.0 3 0.979769 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'ALS BEAMLINE 8.2.1' _diffrn_source.pdbx_synchrotron_site ALS _diffrn_source.pdbx_synchrotron_beamline 8.2.1 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list '0.97961, 0.95369, 0.979769' # _reflns.entry_id 3DBW _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.d_resolution_high 2.20 _reflns.d_resolution_low 40.0 _reflns.number_all ? _reflns.number_obs 12695 _reflns.percent_possible_obs 98.4 _reflns.pdbx_Rmerge_I_obs 0.051 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 46.3 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 7.0 _reflns.R_free_details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 2.20 _reflns_shell.d_res_low 2.28 _reflns_shell.percent_possible_all 88.3 _reflns_shell.Rmerge_I_obs 0.228 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 5.1 _reflns_shell.pdbx_redundancy 5.1 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 3DBW _refine.ls_number_reflns_obs 12586 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 40.0 _refine.ls_d_res_high 2.20 _refine.ls_percent_reflns_obs 97.61 _refine.ls_R_factor_obs 0.1701 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.1671 _refine.ls_R_factor_R_free 0.2312 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 4.93 _refine.ls_number_reflns_R_free 620 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean ? _refine.aniso_B[1][1] -3.0667 _refine.aniso_B[2][2] 0.6224 _refine.aniso_B[3][3] 2.4443 _refine.aniso_B[1][2] -0.0000 _refine.aniso_B[1][3] 3.6881 _refine.aniso_B[2][3] -0.0000 _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.solvent_model_param_ksol 0.343 _refine.solvent_model_param_bsol 81.300 _refine.pdbx_solvent_vdw_probe_radii 1.11 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.90 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct MAD _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 ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML 0.31 _refine.overall_SU_B ? _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_overall_phase_error 22.32 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 1713 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 9 _refine_hist.number_atoms_solvent 81 _refine_hist.number_atoms_total 1803 _refine_hist.d_res_high 2.20 _refine_hist.d_res_low 40.0 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function f_bond_d 0.007 ? ? 1741 'X-RAY DIFFRACTION' ? f_angle_d 0.941 ? ? 2338 'X-RAY DIFFRACTION' ? f_dihedral_angle_d 15.291 ? ? 666 'X-RAY DIFFRACTION' ? f_chiral_restr 0.058 ? ? 270 'X-RAY DIFFRACTION' ? f_plane_restr 0.003 ? ? 299 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 4 _refine_ls_shell.d_res_high 2.20 _refine_ls_shell.d_res_low 2.42 _refine_ls_shell.number_reflns_R_work 2764 _refine_ls_shell.R_factor_R_work 0.1871 _refine_ls_shell.percent_reflns_obs 91.0 _refine_ls_shell.R_factor_R_free 0.2688 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 146 _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 3DBW _struct.title 'Crystal structure of TM0439, a GntR transcriptional regulator' _struct.pdbx_descriptor 'Transcriptional regulator, GntR family' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3DBW _struct_keywords.pdbx_keywords 'TRANSCRIPTION REGULATOR' _struct_keywords.text ;GntR Family, Transcriptional regulator, structural genomics, surface entropy reduction, PSI-2, Protein Structure Initiative, Integrated Center for Structure and Function Innovation, ISFI, DNA-binding, Transcription regulation, TRANSCRIPTION REGULATOR ; # 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 ? D N N 3 ? E N N 4 ? # _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 VAL A 18 ? ASN A 35 ? VAL A 6 ASN A 23 1 ? 18 HELX_P HELX_P2 2 ASN A 45 ? GLY A 54 ? ASN A 33 GLY A 42 1 ? 10 HELX_P HELX_P3 3 SER A 56 ? GLU A 70 ? SER A 44 GLU A 58 1 ? 15 HELX_P HELX_P4 4 ASP A 87 ? TYR A 109 ? ASP A 75 TYR A 97 1 ? 23 HELX_P HELX_P5 5 TYR A 109 ? GLY A 115 ? TYR A 97 GLY A 103 1 ? 7 HELX_P HELX_P6 6 SER A 116 ? ALA A 133 ? SER A 104 ALA A 121 1 ? 18 HELX_P HELX_P7 7 ALA A 134 ? ALA A 152 ? ALA A 122 ALA A 140 1 ? 19 HELX_P HELX_P8 8 ASN A 155 ? ILE A 165 ? ASN A 143 ILE A 153 1 ? 11 HELX_P HELX_P9 9 ILE A 165 ? HIS A 174 ? ILE A 153 HIS A 162 1 ? 10 HELX_P HELX_P10 10 ARG A 178 ? SER A 195 ? ARG A 166 SER A 183 1 ? 18 HELX_P HELX_P11 11 ASP A 197 ? LEU A 220 ? ASP A 185 LEU A 208 1 ? 24 HELX_P HELX_P12 12 TYR A 221 ? TYR A 223 ? TYR A 209 TYR A 211 5 ? 3 # _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 GLU 31 C ? ? ? 1_555 A MSE 32 N ? ? A GLU 19 A MSE 20 1_555 ? ? ? ? ? ? ? 1.330 ? covale2 covale ? ? A MSE 32 C ? ? ? 1_555 A ILE 33 N ? ? A MSE 20 A ILE 21 1_555 ? ? ? ? ? ? ? 1.328 ? covale3 covale ? ? A ILE 99 C ? ? ? 1_555 A MSE 100 N ? ? A ILE 87 A MSE 88 1_555 ? ? ? ? ? ? ? 1.323 ? covale4 covale ? ? A MSE 100 C ? ? ? 1_555 A MSE 101 N ? ? A MSE 88 A MSE 89 1_555 ? ? ? ? ? ? ? 1.325 ? covale5 covale ? ? A MSE 101 C ? ? ? 1_555 A GLU 102 N ? ? A MSE 89 A GLU 90 1_555 ? ? ? ? ? ? ? 1.326 ? metalc1 metalc ? ? A HIS 146 NE2 ? ? ? 1_555 B ZN . ZN ? ? A HIS 134 A ZN 301 1_555 ? ? ? ? ? ? ? 2.127 ? metalc2 metalc ? ? A HIS 186 NE2 ? ? ? 1_555 B ZN . ZN ? ? A HIS 174 A ZN 301 1_555 ? ? ? ? ? ? ? 2.201 ? metalc3 metalc ? ? A HIS 208 NE2 ? ? ? 1_555 B ZN . ZN ? ? A HIS 196 A ZN 301 1_555 ? ? ? ? ? ? ? 2.166 ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference covale ? ? metalc ? ? # _struct_sheet.id A _struct_sheet.type ? _struct_sheet.number_strands 2 _struct_sheet.details ? # _struct_sheet_order.sheet_id A _struct_sheet_order.range_id_1 1 _struct_sheet_order.range_id_2 2 _struct_sheet_order.offset ? _struct_sheet_order.sense 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 73 ? VAL A 76 ? VAL A 61 VAL A 64 A 2 GLY A 80 ? VAL A 83 ? GLY A 68 VAL A 71 # _pdbx_struct_sheet_hbond.sheet_id A _pdbx_struct_sheet_hbond.range_id_1 1 _pdbx_struct_sheet_hbond.range_id_2 2 _pdbx_struct_sheet_hbond.range_1_label_atom_id N _pdbx_struct_sheet_hbond.range_1_label_comp_id VAL _pdbx_struct_sheet_hbond.range_1_label_asym_id A _pdbx_struct_sheet_hbond.range_1_label_seq_id 76 _pdbx_struct_sheet_hbond.range_1_PDB_ins_code ? _pdbx_struct_sheet_hbond.range_1_auth_atom_id N _pdbx_struct_sheet_hbond.range_1_auth_comp_id VAL _pdbx_struct_sheet_hbond.range_1_auth_asym_id A _pdbx_struct_sheet_hbond.range_1_auth_seq_id 64 _pdbx_struct_sheet_hbond.range_2_label_atom_id O _pdbx_struct_sheet_hbond.range_2_label_comp_id GLY _pdbx_struct_sheet_hbond.range_2_label_asym_id A _pdbx_struct_sheet_hbond.range_2_label_seq_id 80 _pdbx_struct_sheet_hbond.range_2_PDB_ins_code ? _pdbx_struct_sheet_hbond.range_2_auth_atom_id O _pdbx_struct_sheet_hbond.range_2_auth_comp_id GLY _pdbx_struct_sheet_hbond.range_2_auth_asym_id A _pdbx_struct_sheet_hbond.range_2_auth_seq_id 68 # 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 ZN A 301' AC2 Software ? ? ? ? 7 'BINDING SITE FOR RESIDUE ACT A 302' AC3 Software ? ? ? ? 2 'BINDING SITE FOR RESIDUE ACT A 303' # 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 ASP A 142 ? ASP A 130 . ? 1_555 ? 2 AC1 4 HIS A 146 ? HIS A 134 . ? 1_555 ? 3 AC1 4 HIS A 186 ? HIS A 174 . ? 1_555 ? 4 AC1 4 HIS A 208 ? HIS A 196 . ? 1_555 ? 5 AC2 7 ARG A 98 ? ARG A 86 . ? 1_555 ? 6 AC2 7 ASP A 142 ? ASP A 130 . ? 1_555 ? 7 AC2 7 HIS A 146 ? HIS A 134 . ? 1_555 ? 8 AC2 7 ARG A 173 ? ARG A 161 . ? 1_555 ? 9 AC2 7 HIS A 208 ? HIS A 196 . ? 1_555 ? 10 AC2 7 HOH E . ? HOH A 324 . ? 1_555 ? 11 AC2 7 HOH E . ? HOH A 337 . ? 1_555 ? 12 AC3 2 PRO A 77 ? PRO A 65 . ? 1_555 ? 13 AC3 2 ARG A 78 ? ARG A 66 . ? 1_555 ? # _database_PDB_matrix.entry_id 3DBW _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 3DBW _atom_sites.fract_transf_matrix[1][1] 0.011739 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.003056 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.013944 _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] 0.023852 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C N O S SE ZN # 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 MSE 1 -11 ? ? ? A . n A 1 2 GLY 2 -10 ? ? ? A . n A 1 3 SER 3 -9 ? ? ? A . n A 1 4 ASP 4 -8 ? ? ? A . n A 1 5 LYS 5 -7 ? ? ? A . n A 1 6 ILE 6 -6 ? ? ? A . n A 1 7 HIS 7 -5 ? ? ? A . n A 1 8 HIS 8 -4 ? ? ? A . n A 1 9 HIS 9 -3 ? ? ? A . n A 1 10 HIS 10 -2 ? ? ? A . n A 1 11 HIS 11 -1 ? ? ? A . n A 1 12 HIS 12 0 ? ? ? A . n A 1 13 MSE 13 1 ? ? ? A . n A 1 14 LYS 14 2 ? ? ? A . n A 1 15 LYS 15 3 ? ? ? A . n A 1 16 ILE 16 4 ? ? ? A . n A 1 17 GLU 17 5 ? ? ? A . n A 1 18 VAL 18 6 6 VAL VAL A . n A 1 19 ASP 19 7 7 ASP ASP A . n A 1 20 LEU 20 8 8 LEU LEU A . n A 1 21 VAL 21 9 9 VAL VAL A . n A 1 22 ARG 22 10 10 ARG ARG A . n A 1 23 THR 23 11 11 THR THR A . n A 1 24 LYS 24 12 12 LYS LYS A . n A 1 25 VAL 25 13 13 VAL VAL A . n A 1 26 TYR 26 14 14 TYR TYR A . n A 1 27 ASN 27 15 15 ASN ASN A . n A 1 28 LEU 28 16 16 LEU LEU A . n A 1 29 LEU 29 17 17 LEU LEU A . n A 1 30 LYS 30 18 18 LYS LYS A . n A 1 31 GLU 31 19 19 GLU GLU A . n A 1 32 MSE 32 20 20 MSE MSE A . n A 1 33 ILE 33 21 21 ILE ILE A . n A 1 34 LEU 34 22 22 LEU LEU A . n A 1 35 ASN 35 23 23 ASN ASN A . n A 1 36 HIS 36 24 24 HIS HIS A . n A 1 37 GLU 37 25 25 GLU GLU A . n A 1 38 LEU 38 26 26 LEU LEU A . n A 1 39 LYS 39 27 27 LYS LYS A . n A 1 40 LEU 40 28 28 LEU LEU A . n A 1 41 GLY 41 29 29 GLY GLY A . n A 1 42 GLU 42 30 30 GLU GLU A . n A 1 43 LYS 43 31 31 LYS LYS A . n A 1 44 LEU 44 32 32 LEU LEU A . n A 1 45 ASN 45 33 33 ASN ASN A . n A 1 46 VAL 46 34 34 VAL VAL A . n A 1 47 ARG 47 35 35 ARG ARG A . n A 1 48 GLU 48 36 36 GLU GLU A . n A 1 49 LEU 49 37 37 LEU LEU A . n A 1 50 SER 50 38 38 SER SER A . n A 1 51 GLU 51 39 39 GLU GLU A . n A 1 52 LYS 52 40 40 LYS LYS A . n A 1 53 LEU 53 41 41 LEU LEU A . n A 1 54 GLY 54 42 42 GLY GLY A . n A 1 55 ILE 55 43 43 ILE ILE A . n A 1 56 SER 56 44 44 SER SER A . n A 1 57 PHE 57 45 45 PHE PHE A . n A 1 58 THR 58 46 46 THR THR A . n A 1 59 PRO 59 47 47 PRO PRO A . n A 1 60 VAL 60 48 48 VAL VAL A . n A 1 61 ARG 61 49 49 ARG ARG A . n A 1 62 ASP 62 50 50 ASP ASP A . n A 1 63 ALA 63 51 51 ALA ALA A . n A 1 64 LEU 64 52 52 LEU LEU A . n A 1 65 LEU 65 53 53 LEU LEU A . n A 1 66 GLN 66 54 54 GLN GLN A . n A 1 67 LEU 67 55 55 LEU LEU A . n A 1 68 ALA 68 56 56 ALA ALA A . n A 1 69 THR 69 57 57 THR THR A . n A 1 70 GLU 70 58 58 GLU GLU A . n A 1 71 GLY 71 59 59 GLY GLY A . n A 1 72 LEU 72 60 60 LEU LEU A . n A 1 73 VAL 73 61 61 VAL VAL A . n A 1 74 LYS 74 62 62 LYS LYS A . n A 1 75 VAL 75 63 63 VAL VAL A . n A 1 76 VAL 76 64 64 VAL VAL A . n A 1 77 PRO 77 65 65 PRO PRO A . n A 1 78 ARG 78 66 66 ARG ARG A . n A 1 79 VAL 79 67 67 VAL VAL A . n A 1 80 GLY 80 68 68 GLY GLY A . n A 1 81 PHE 81 69 69 PHE PHE A . n A 1 82 PHE 82 70 70 PHE PHE A . n A 1 83 VAL 83 71 71 VAL VAL A . n A 1 84 THR 84 72 72 THR THR A . n A 1 85 ASP 85 73 73 ASP ASP A . n A 1 86 VAL 86 74 74 VAL VAL A . n A 1 87 ASP 87 75 75 ASP ASP A . n A 1 88 GLU 88 76 76 GLU GLU A . n A 1 89 LYS 89 77 77 LYS LYS A . n A 1 90 PHE 90 78 78 PHE PHE A . n A 1 91 ILE 91 79 79 ILE ILE A . n A 1 92 ARG 92 80 80 ARG ARG A . n A 1 93 GLU 93 81 81 GLU GLU A . n A 1 94 THR 94 82 82 THR THR A . n A 1 95 ILE 95 83 83 ILE ILE A . n A 1 96 GLU 96 84 84 GLU GLU A . n A 1 97 THR 97 85 85 THR THR A . n A 1 98 ARG 98 86 86 ARG ARG A . n A 1 99 ILE 99 87 87 ILE ILE A . n A 1 100 MSE 100 88 88 MSE MSE A . n A 1 101 MSE 101 89 89 MSE MSE A . n A 1 102 GLU 102 90 90 GLU GLU A . n A 1 103 VAL 103 91 91 VAL VAL A . n A 1 104 PHE 104 92 92 PHE PHE A . n A 1 105 CYS 105 93 93 CYS CYS A . n A 1 106 LEU 106 94 94 LEU LEU A . n A 1 107 GLU 107 95 95 GLU GLU A . n A 1 108 ASN 108 96 96 ASN ASN A . n A 1 109 TYR 109 97 97 TYR TYR A . n A 1 110 PHE 110 98 98 PHE PHE A . n A 1 111 ASP 111 99 99 ASP ASP A . n A 1 112 LYS 112 100 100 LYS LYS A . n A 1 113 ILE 113 101 101 ILE ILE A . n A 1 114 ALA 114 102 102 ALA ALA A . n A 1 115 GLY 115 103 103 GLY GLY A . n A 1 116 SER 116 104 104 SER SER A . n A 1 117 GLU 117 105 105 GLU GLU A . n A 1 118 GLU 118 106 106 GLU GLU A . n A 1 119 LEU 119 107 107 LEU LEU A . n A 1 120 LEU 120 108 108 LEU LEU A . n A 1 121 GLU 121 109 109 GLU GLU A . n A 1 122 ILE 122 110 110 ILE ILE A . n A 1 123 LYS 123 111 111 LYS LYS A . n A 1 124 GLY 124 112 112 GLY GLY A . n A 1 125 GLU 125 113 113 GLU GLU A . n A 1 126 ILE 126 114 114 ILE ILE A . n A 1 127 ASP 127 115 115 ASP ASP A . n A 1 128 ASP 128 116 116 ASP ASP A . n A 1 129 VAL 129 117 117 VAL VAL A . n A 1 130 ALA 130 118 118 ALA ALA A . n A 1 131 ALA 131 119 119 ALA ALA A . n A 1 132 SER 132 120 120 SER SER A . n A 1 133 ALA 133 121 121 ALA ALA A . n A 1 134 ALA 134 122 122 ALA ALA A . n A 1 135 ARG 135 123 123 ARG ARG A . n A 1 136 GLU 136 124 124 GLU GLU A . n A 1 137 ILE 137 125 125 ILE ILE A . n A 1 138 PHE 138 126 126 PHE PHE A . n A 1 139 ASP 139 127 127 ASP ASP A . n A 1 140 ASP 140 128 128 ASP ASP A . n A 1 141 SER 141 129 129 SER SER A . n A 1 142 ASP 142 130 130 ASP ASP A . n A 1 143 GLU 143 131 131 GLU GLU A . n A 1 144 ARG 144 132 132 ARG ARG A . n A 1 145 LEU 145 133 133 LEU LEU A . n A 1 146 HIS 146 134 134 HIS HIS A . n A 1 147 LYS 147 135 135 LYS LYS A . n A 1 148 LEU 148 136 136 LEU LEU A . n A 1 149 PHE 149 137 137 PHE PHE A . n A 1 150 ILE 150 138 138 ILE ILE A . n A 1 151 ARG 151 139 139 ARG ARG A . n A 1 152 ALA 152 140 140 ALA ALA A . n A 1 153 SER 153 141 141 SER SER A . n A 1 154 GLY 154 142 142 GLY GLY A . n A 1 155 ASN 155 143 143 ASN ASN A . n A 1 156 GLU 156 144 144 GLU GLU A . n A 1 157 LEU 157 145 145 LEU LEU A . n A 1 158 ILE 158 146 146 ILE ILE A . n A 1 159 ILE 159 147 147 ILE ILE A . n A 1 160 SER 160 148 148 SER SER A . n A 1 161 LEU 161 149 149 LEU LEU A . n A 1 162 TYR 162 150 150 TYR TYR A . n A 1 163 GLU 163 151 151 GLU GLU A . n A 1 164 LYS 164 152 152 LYS LYS A . n A 1 165 ILE 165 153 153 ILE ILE A . n A 1 166 TRP 166 154 154 TRP TRP A . n A 1 167 ASP 167 155 155 ASP ASP A . n A 1 168 ARG 168 156 156 ARG ARG A . n A 1 169 ILE 169 157 157 ILE ILE A . n A 1 170 ASP 170 158 158 ASP ASP A . n A 1 171 LEU 171 159 159 LEU LEU A . n A 1 172 VAL 172 160 160 VAL VAL A . n A 1 173 ARG 173 161 161 ARG ARG A . n A 1 174 HIS 174 162 162 HIS HIS A . n A 1 175 LEU 175 163 163 LEU LEU A . n A 1 176 ASN 176 164 164 ASN ASN A . n A 1 177 GLU 177 165 165 GLU GLU A . n A 1 178 ARG 178 166 166 ARG ARG A . n A 1 179 TYR 179 167 167 TYR TYR A . n A 1 180 VAL 180 168 168 VAL VAL A . n A 1 181 VAL 181 169 169 VAL VAL A . n A 1 182 SER 182 170 170 SER SER A . n A 1 183 ASN 183 171 171 ASN ASN A . n A 1 184 ARG 184 172 172 ARG ARG A . n A 1 185 GLU 185 173 173 GLU GLU A . n A 1 186 HIS 186 174 174 HIS HIS A . n A 1 187 LYS 187 175 175 LYS LYS A . n A 1 188 GLU 188 176 176 GLU GLU A . n A 1 189 LEU 189 177 177 LEU LEU A . n A 1 190 ILE 190 178 178 ILE ILE A . n A 1 191 GLU 191 179 179 GLU GLU A . n A 1 192 ARG 192 180 180 ARG ARG A . n A 1 193 ILE 193 181 181 ILE ILE A . n A 1 194 ILE 194 182 182 ILE ILE A . n A 1 195 SER 195 183 183 SER SER A . n A 1 196 GLY 196 184 184 GLY GLY A . n A 1 197 ASP 197 185 185 ASP ASP A . n A 1 198 LYS 198 186 186 LYS LYS A . n A 1 199 GLU 199 187 187 GLU GLU A . n A 1 200 GLY 200 188 188 GLY GLY A . n A 1 201 ALA 201 189 189 ALA ALA A . n A 1 202 ILE 202 190 190 ILE ILE A . n A 1 203 GLU 203 191 191 GLU GLU A . n A 1 204 LYS 204 192 192 LYS LYS A . n A 1 205 LEU 205 193 193 LEU LEU A . n A 1 206 LYS 206 194 194 LYS LYS A . n A 1 207 GLU 207 195 195 GLU GLU A . n A 1 208 HIS 208 196 196 HIS HIS A . n A 1 209 LEU 209 197 197 LEU LEU A . n A 1 210 LYS 210 198 198 LYS LYS A . n A 1 211 ASN 211 199 199 ASN ASN A . n A 1 212 VAL 212 200 200 VAL VAL A . n A 1 213 GLU 213 201 201 GLU GLU A . n A 1 214 ALA 214 202 202 ALA ALA A . n A 1 215 GLU 215 203 203 GLU GLU A . n A 1 216 THR 216 204 204 THR THR A . n A 1 217 ILE 217 205 205 ILE ILE A . n A 1 218 LYS 218 206 206 LYS LYS A . n A 1 219 ASN 219 207 207 ASN ASN A . n A 1 220 LEU 220 208 208 LEU LEU A . n A 1 221 TYR 221 209 209 TYR TYR A . n A 1 222 THR 222 210 210 THR THR A . n A 1 223 TYR 223 211 211 TYR TYR A . n A 1 224 GLU 224 212 212 GLU GLU A . n A 1 225 ARG 225 213 213 ARG ARG A . n A 1 226 SER 226 214 214 SER SER A . n # _pdbx_SG_project.id 1 _pdbx_SG_project.project_name 'PSI, Protein Structure Initiative' _pdbx_SG_project.full_name_of_center 'Integrated Center for Structure and Function Innovation' _pdbx_SG_project.initial_of_center ISFI # 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 ZN 1 301 1 ZN ZN A . C 3 ACT 1 302 1 ACT ACT A . D 3 ACT 1 303 2 ACT ACT A . E 4 HOH 1 304 1 HOH HOH A . E 4 HOH 2 305 2 HOH HOH A . E 4 HOH 3 306 3 HOH HOH A . E 4 HOH 4 307 4 HOH HOH A . E 4 HOH 5 308 5 HOH HOH A . E 4 HOH 6 309 6 HOH HOH A . E 4 HOH 7 310 7 HOH HOH A . E 4 HOH 8 311 8 HOH HOH A . E 4 HOH 9 312 9 HOH HOH A . E 4 HOH 10 313 10 HOH HOH A . E 4 HOH 11 314 11 HOH HOH A . E 4 HOH 12 315 12 HOH HOH A . E 4 HOH 13 316 13 HOH HOH A . E 4 HOH 14 317 14 HOH HOH A . E 4 HOH 15 318 15 HOH HOH A . E 4 HOH 16 319 16 HOH HOH A . E 4 HOH 17 320 17 HOH HOH A . E 4 HOH 18 321 18 HOH HOH A . E 4 HOH 19 322 19 HOH HOH A . E 4 HOH 20 323 20 HOH HOH A . E 4 HOH 21 324 21 HOH HOH A . E 4 HOH 22 325 22 HOH HOH A . E 4 HOH 23 326 23 HOH HOH A . E 4 HOH 24 327 24 HOH HOH A . E 4 HOH 25 328 25 HOH HOH A . E 4 HOH 26 329 26 HOH HOH A . E 4 HOH 27 330 27 HOH HOH A . E 4 HOH 28 331 28 HOH HOH A . E 4 HOH 29 332 29 HOH HOH A . E 4 HOH 30 333 30 HOH HOH A . E 4 HOH 31 334 31 HOH HOH A . E 4 HOH 32 335 32 HOH HOH A . E 4 HOH 33 336 33 HOH HOH A . E 4 HOH 34 337 34 HOH HOH A . E 4 HOH 35 338 35 HOH HOH A . E 4 HOH 36 339 36 HOH HOH A . E 4 HOH 37 340 37 HOH HOH A . E 4 HOH 38 341 38 HOH HOH A . E 4 HOH 39 342 39 HOH HOH A . E 4 HOH 40 343 40 HOH HOH A . E 4 HOH 41 344 41 HOH HOH A . E 4 HOH 42 345 42 HOH HOH A . E 4 HOH 43 346 43 HOH HOH A . E 4 HOH 44 347 44 HOH HOH A . E 4 HOH 45 348 45 HOH HOH A . E 4 HOH 46 349 46 HOH HOH A . E 4 HOH 47 350 47 HOH HOH A . E 4 HOH 48 351 48 HOH HOH A . E 4 HOH 49 352 49 HOH HOH A . E 4 HOH 50 353 50 HOH HOH A . E 4 HOH 51 354 51 HOH HOH A . E 4 HOH 52 355 52 HOH HOH A . E 4 HOH 53 356 53 HOH HOH A . E 4 HOH 54 357 54 HOH HOH A . E 4 HOH 55 358 55 HOH HOH A . E 4 HOH 56 359 56 HOH HOH A . E 4 HOH 57 360 57 HOH HOH A . E 4 HOH 58 361 58 HOH HOH A . E 4 HOH 59 362 59 HOH HOH A . E 4 HOH 60 363 60 HOH HOH A . E 4 HOH 61 364 61 HOH HOH A . E 4 HOH 62 365 62 HOH HOH A . E 4 HOH 63 366 63 HOH HOH A . E 4 HOH 64 367 64 HOH HOH A . E 4 HOH 65 368 65 HOH HOH A . E 4 HOH 66 369 66 HOH HOH A . E 4 HOH 67 370 67 HOH HOH A . E 4 HOH 68 371 68 HOH HOH A . E 4 HOH 69 372 69 HOH HOH A . E 4 HOH 70 373 70 HOH HOH A . E 4 HOH 71 374 71 HOH HOH A . E 4 HOH 72 375 72 HOH HOH A . E 4 HOH 73 376 73 HOH HOH A . E 4 HOH 74 377 74 HOH HOH A . E 4 HOH 75 378 75 HOH HOH A . E 4 HOH 76 379 76 HOH HOH A . E 4 HOH 77 380 77 HOH HOH A . E 4 HOH 78 381 78 HOH HOH A . E 4 HOH 79 382 79 HOH HOH A . E 4 HOH 80 383 80 HOH HOH A . E 4 HOH 81 384 81 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 32 A MSE 20 ? MET SELENOMETHIONINE 2 A MSE 100 A MSE 88 ? MET SELENOMETHIONINE 3 A MSE 101 A MSE 89 ? 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 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,C,D,E # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 1910 ? 1 MORE -11.6 ? 1 'SSA (A^2)' 18920 ? # 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' 2_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 # loop_ _pdbx_struct_special_symmetry.id _pdbx_struct_special_symmetry.PDB_model_num _pdbx_struct_special_symmetry.auth_asym_id _pdbx_struct_special_symmetry.auth_comp_id _pdbx_struct_special_symmetry.auth_seq_id _pdbx_struct_special_symmetry.PDB_ins_code _pdbx_struct_special_symmetry.label_asym_id _pdbx_struct_special_symmetry.label_comp_id _pdbx_struct_special_symmetry.label_seq_id 1 1 A HOH 323 ? E HOH . 2 1 A HOH 368 ? E HOH . 3 1 A HOH 378 ? E HOH . # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 NE2 ? A HIS 146 ? A HIS 134 ? 1_555 ZN ? B ZN . ? A ZN 301 ? 1_555 NE2 ? A HIS 186 ? A HIS 174 ? 1_555 111.9 ? 2 NE2 ? A HIS 146 ? A HIS 134 ? 1_555 ZN ? B ZN . ? A ZN 301 ? 1_555 NE2 ? A HIS 208 ? A HIS 196 ? 1_555 107.9 ? 3 NE2 ? A HIS 186 ? A HIS 174 ? 1_555 ZN ? B ZN . ? A ZN 301 ? 1_555 NE2 ? A HIS 208 ? A HIS 196 ? 1_555 92.3 ? # 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 2008-07-01 2 'Structure model' 1 1 2009-02-10 # loop_ _pdbx_audit_revision_details.ordinal _pdbx_audit_revision_details.revision_ordinal _pdbx_audit_revision_details.data_content_type _pdbx_audit_revision_details.provider _pdbx_audit_revision_details.type _pdbx_audit_revision_details.description 1 1 'Structure model' repository 'Initial release' ? 2 2 'Structure model' repository Obsolete ? # _pdbx_refine_tls.id 1 _pdbx_refine_tls.details ? _pdbx_refine_tls.method refined _pdbx_refine_tls.origin_x 10.2457 _pdbx_refine_tls.origin_y 44.5616 _pdbx_refine_tls.origin_z 10.2756 _pdbx_refine_tls.T[1][1] 0.2297 _pdbx_refine_tls.T[2][2] 0.2789 _pdbx_refine_tls.T[3][3] 0.2428 _pdbx_refine_tls.T[1][2] 0.0036 _pdbx_refine_tls.T[1][3] -0.0101 _pdbx_refine_tls.T[2][3] 0.0088 _pdbx_refine_tls.L[1][1] 0.5988 _pdbx_refine_tls.L[2][2] 1.2089 _pdbx_refine_tls.L[3][3] 0.6475 _pdbx_refine_tls.L[1][2] -0.4128 _pdbx_refine_tls.L[1][3] -0.1243 _pdbx_refine_tls.L[2][3] -0.2806 _pdbx_refine_tls.S[1][1] -0.0660 _pdbx_refine_tls.S[1][2] -0.1371 _pdbx_refine_tls.S[1][3] -0.0835 _pdbx_refine_tls.S[2][1] 0.1332 _pdbx_refine_tls.S[2][2] -0.0124 _pdbx_refine_tls.S[2][3] -0.0020 _pdbx_refine_tls.S[3][1] 0.0728 _pdbx_refine_tls.S[3][2] 0.0291 _pdbx_refine_tls.S[3][3] 0.0596 _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_auth_asym_id A _pdbx_refine_tls_group.beg_auth_seq_id 6 _pdbx_refine_tls_group.beg_label_asym_id ? _pdbx_refine_tls_group.beg_label_seq_id ? _pdbx_refine_tls_group.end_auth_asym_id A _pdbx_refine_tls_group.end_auth_seq_id 214 _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 'X-RAY DIFFRACTION' _pdbx_refine_tls_group.selection_details ? # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal PHENIX refinement '(phenix.refine)' ? 1 ADSC 'data collection' Quantum ? 2 HKL-2000 'data reduction' . ? 3 HKL-2000 'data scaling' . ? 4 SHELXD phasing . ? 5 # loop_ _pdbx_validate_torsion.id _pdbx_validate_torsion.PDB_model_num _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.PDB_ins_code _pdbx_validate_torsion.label_alt_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi 1 1 ARG A 166 ? ? -93.91 50.35 2 1 ARG A 213 ? ? 86.45 -156.15 # 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 MSE -11 ? A MSE 1 2 1 Y 1 A GLY -10 ? A GLY 2 3 1 Y 1 A SER -9 ? A SER 3 4 1 Y 1 A ASP -8 ? A ASP 4 5 1 Y 1 A LYS -7 ? A LYS 5 6 1 Y 1 A ILE -6 ? A ILE 6 7 1 Y 1 A HIS -5 ? A HIS 7 8 1 Y 1 A HIS -4 ? A HIS 8 9 1 Y 1 A HIS -3 ? A HIS 9 10 1 Y 1 A HIS -2 ? A HIS 10 11 1 Y 1 A HIS -1 ? A HIS 11 12 1 Y 1 A HIS 0 ? A HIS 12 13 1 Y 1 A MSE 1 ? A MSE 13 14 1 Y 1 A LYS 2 ? A LYS 14 15 1 Y 1 A LYS 3 ? A LYS 15 16 1 Y 1 A ILE 4 ? A ILE 16 17 1 Y 1 A GLU 5 ? A GLU 17 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'ZINC ION' ZN 3 'ACETATE ION' ACT 4 water HOH #