data_3NNR # _entry.id 3NNR # _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 3NNR pdb_00003nnr 10.2210/pdb3nnr/pdb RCSB RCSB060057 ? ? WWPDB D_1000060057 ? ? # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id 403231 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.SG_entry Y _pdbx_database_status.entry_id 3NNR _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2010-06-24 _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 a TetR-family transcriptional regulator (Maqu_3571) from MARINOBACTER AQUAEOLEI VT8 at 2.49 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 3NNR _cell.length_a 58.745 _cell.length_b 58.745 _cell.length_c 172.650 _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 3NNR _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, TetR family' 26902.824 1 ? ? ? ? 2 non-polymer syn 'UNKNOWN LIGAND' ? 1 ? ? ? ? 3 non-polymer syn 'SULFATE ION' 96.063 2 ? ? ? ? 4 water nat water 18.015 14 ? ? ? ? # _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)T(MSE)KTRDKILLSSLELFNDKGERNITTNHIAAHLAISPGNLYYHFRNKSDIIYEIFQEYEKLVDYYLDIPE DRPITLED(MSE)TFYLESVFDGLWSYRFFHRDLEYLLDSDPRLRQDYREFTNRCLAAINRIFAKLADAGIIQPQPEDLR SA(MSE)SLNVWLVITNW(MSE)AFLKTAHAAEEPASLSLTELKQGIYQVLTLEVPYLTPEYRERVLALREKYRPTLPEA QGISGVEA ; _entity_poly.pdbx_seq_one_letter_code_can ;GMTMKTRDKILLSSLELFNDKGERNITTNHIAAHLAISPGNLYYHFRNKSDIIYEIFQEYEKLVDYYLDIPEDRPITLED MTFYLESVFDGLWSYRFFHRDLEYLLDSDPRLRQDYREFTNRCLAAINRIFAKLADAGIIQPQPEDLRSAMSLNVWLVIT NWMAFLKTAHAAEEPASLSLTELKQGIYQVLTLEVPYLTPEYRERVLALREKYRPTLPEAQGISGVEA ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier 403231 # 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 THR n 1 4 MSE n 1 5 LYS n 1 6 THR n 1 7 ARG n 1 8 ASP n 1 9 LYS n 1 10 ILE n 1 11 LEU n 1 12 LEU n 1 13 SER n 1 14 SER n 1 15 LEU n 1 16 GLU n 1 17 LEU n 1 18 PHE n 1 19 ASN n 1 20 ASP n 1 21 LYS n 1 22 GLY n 1 23 GLU n 1 24 ARG n 1 25 ASN n 1 26 ILE n 1 27 THR n 1 28 THR n 1 29 ASN n 1 30 HIS n 1 31 ILE n 1 32 ALA n 1 33 ALA n 1 34 HIS n 1 35 LEU n 1 36 ALA n 1 37 ILE n 1 38 SER n 1 39 PRO n 1 40 GLY n 1 41 ASN n 1 42 LEU n 1 43 TYR n 1 44 TYR n 1 45 HIS n 1 46 PHE n 1 47 ARG n 1 48 ASN n 1 49 LYS n 1 50 SER n 1 51 ASP n 1 52 ILE n 1 53 ILE n 1 54 TYR n 1 55 GLU n 1 56 ILE n 1 57 PHE n 1 58 GLN n 1 59 GLU n 1 60 TYR n 1 61 GLU n 1 62 LYS n 1 63 LEU n 1 64 VAL n 1 65 ASP n 1 66 TYR n 1 67 TYR n 1 68 LEU n 1 69 ASP n 1 70 ILE n 1 71 PRO n 1 72 GLU n 1 73 ASP n 1 74 ARG n 1 75 PRO n 1 76 ILE n 1 77 THR n 1 78 LEU n 1 79 GLU n 1 80 ASP n 1 81 MSE n 1 82 THR n 1 83 PHE n 1 84 TYR n 1 85 LEU n 1 86 GLU n 1 87 SER n 1 88 VAL n 1 89 PHE n 1 90 ASP n 1 91 GLY n 1 92 LEU n 1 93 TRP n 1 94 SER n 1 95 TYR n 1 96 ARG n 1 97 PHE n 1 98 PHE n 1 99 HIS n 1 100 ARG n 1 101 ASP n 1 102 LEU n 1 103 GLU n 1 104 TYR n 1 105 LEU n 1 106 LEU n 1 107 ASP n 1 108 SER n 1 109 ASP n 1 110 PRO n 1 111 ARG n 1 112 LEU n 1 113 ARG n 1 114 GLN n 1 115 ASP n 1 116 TYR n 1 117 ARG n 1 118 GLU n 1 119 PHE n 1 120 THR n 1 121 ASN n 1 122 ARG n 1 123 CYS n 1 124 LEU n 1 125 ALA n 1 126 ALA n 1 127 ILE n 1 128 ASN n 1 129 ARG n 1 130 ILE n 1 131 PHE n 1 132 ALA n 1 133 LYS n 1 134 LEU n 1 135 ALA n 1 136 ASP n 1 137 ALA n 1 138 GLY n 1 139 ILE n 1 140 ILE n 1 141 GLN n 1 142 PRO n 1 143 GLN n 1 144 PRO n 1 145 GLU n 1 146 ASP n 1 147 LEU n 1 148 ARG n 1 149 SER n 1 150 ALA n 1 151 MSE n 1 152 SER n 1 153 LEU n 1 154 ASN n 1 155 VAL n 1 156 TRP n 1 157 LEU n 1 158 VAL n 1 159 ILE n 1 160 THR n 1 161 ASN n 1 162 TRP n 1 163 MSE n 1 164 ALA n 1 165 PHE n 1 166 LEU n 1 167 LYS n 1 168 THR n 1 169 ALA n 1 170 HIS n 1 171 ALA n 1 172 ALA n 1 173 GLU n 1 174 GLU n 1 175 PRO n 1 176 ALA n 1 177 SER n 1 178 LEU n 1 179 SER n 1 180 LEU n 1 181 THR n 1 182 GLU n 1 183 LEU n 1 184 LYS n 1 185 GLN n 1 186 GLY n 1 187 ILE n 1 188 TYR n 1 189 GLN n 1 190 VAL n 1 191 LEU n 1 192 THR n 1 193 LEU n 1 194 GLU n 1 195 VAL n 1 196 PRO n 1 197 TYR n 1 198 LEU n 1 199 THR n 1 200 PRO n 1 201 GLU n 1 202 TYR n 1 203 ARG n 1 204 GLU n 1 205 ARG n 1 206 VAL n 1 207 LEU n 1 208 ALA n 1 209 LEU n 1 210 ARG n 1 211 GLU n 1 212 LYS n 1 213 TYR n 1 214 ARG n 1 215 PRO n 1 216 THR n 1 217 LEU n 1 218 PRO n 1 219 GLU n 1 220 ALA n 1 221 GLN n 1 222 GLY n 1 223 ILE n 1 224 SER n 1 225 GLY n 1 226 VAL n 1 227 GLU n 1 228 ALA 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 'Marinobacter hydrocarbonoclasticus (strain DSM 11845)' _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene Maqu_3571 _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain 'ATCC 700491 / DSM 11845 / VT8' _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 'Marinobacter aquaeolei' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 351348 _entity_src_gen.pdbx_gene_src_variant ? _entity_src_gen.pdbx_gene_src_cell_line ? _entity_src_gen.pdbx_gene_src_atcc ? _entity_src_gen.pdbx_gene_src_organ ? _entity_src_gen.pdbx_gene_src_organelle ? _entity_src_gen.pdbx_gene_src_cell ? _entity_src_gen.pdbx_gene_src_cellular_location ? _entity_src_gen.host_org_common_name ? _entity_src_gen.pdbx_host_org_scientific_name 'Escherichia Coli' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 562 _entity_src_gen.host_org_genus ? _entity_src_gen.pdbx_host_org_gene ? _entity_src_gen.pdbx_host_org_organ ? _entity_src_gen.host_org_species ? _entity_src_gen.pdbx_host_org_tissue ? _entity_src_gen.pdbx_host_org_tissue_fraction ? _entity_src_gen.pdbx_host_org_strain 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 A1U6M1_MARAV _struct_ref.pdbx_db_accession A1U6M1 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;MTMKTRDKILLSSLELFNDKGERNITTNHIAAHLAISPGNLYYHFRNKSDIIYEIFQEYEKLVDYYLDIPEDRPITLEDM TFYLESVFDGLWSYRFFHRDLEYLLDSDPRLRQDYREFTNRCLAAINRIFAKLADAGIIQPQPEDLRSAMSLNVWLVITN WMAFLKTAHAAEEPASLSLTELKQGIYQVLTLEVPYLTPEYRERVLALREKYRPTLPEAQGISGVEA ; _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 3NNR _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 228 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession A1U6M1 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 227 _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 227 # _struct_ref_seq_dif.align_id 1 _struct_ref_seq_dif.pdbx_pdb_id_code 3NNR _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 A1U6M1 _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 SO4 non-polymer . 'SULFATE ION' ? 'O4 S -2' 96.063 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 UNL non-polymer . 'UNKNOWN LIGAND' ? ? ? VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # _exptl.entry_id 3NNR _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.77 _exptl_crystal.density_percent_sol 55.57 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method ? _exptl_crystal_grow.temp 293 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 9.5 _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.pdbx_details ;0.2000M lithium sulfate, 1.0500M potassium sodium tartrate, 0.1M CHES pH 9.5, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 293K ; # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'MARMOSAIC 325 mm CCD' _diffrn_detector.pdbx_collection_date 2010-05-14 _diffrn_detector.details 'FLAT COLLIMATING MIRROR, TOROID FOCUSING MIRROR' # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'DOUBLE CRYSTAL MONOCHROMATOR' _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 0.91837 1.0 2 0.97934 1.0 3 0.97922 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'SSRL BEAMLINE BL9-2' _diffrn_source.pdbx_synchrotron_site SSRL _diffrn_source.pdbx_synchrotron_beamline BL9-2 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.91837,0.97934,0.97922 # _reflns.entry_id 3NNR _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 29.930 _reflns.d_resolution_high 2.490 _reflns.number_obs 11338 _reflns.number_all ? _reflns.percent_possible_obs 100.0 _reflns.pdbx_Rmerge_I_obs ? _reflns.pdbx_Rsym_value 0.07400 _reflns.pdbx_netI_over_sigmaI 16.9 _reflns.B_iso_Wilson_estimate 68.12 _reflns.pdbx_redundancy 9.100 _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 2.490 _reflns_shell.d_res_low ? _reflns_shell.percent_possible_all 100.0 _reflns_shell.Rmerge_I_obs ? _reflns_shell.pdbx_Rsym_value 1.187 _reflns_shell.meanI_over_sigI_obs 2.1 _reflns_shell.pdbx_redundancy 9.4 _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.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.entry_id 3NNR _refine.ls_number_reflns_obs 11278 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 29.93 _refine.ls_d_res_high 2.49 _refine.ls_percent_reflns_obs 100.0 _refine.ls_R_factor_obs 0.232 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.230 _refine.ls_R_factor_R_free 0.260 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 4.800 _refine.ls_number_reflns_R_free 538 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min 0.37 _refine.occupancy_max 1.00 _refine.correlation_coeff_Fo_to_Fc 0.943 _refine.correlation_coeff_Fo_to_Fc_free 0.933 _refine.B_iso_mean 72.55 _refine.aniso_B[1][1] 0.50000 _refine.aniso_B[2][2] 0.50000 _refine.aniso_B[3][3] -1.01000 _refine.aniso_B[1][2] 0.00000 _refine.aniso_B[1][3] 0.00000 _refine.aniso_B[2][3] 0.00000 _refine.solvent_model_details 'BABINET MODEL WITH MASK' _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.40 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details ;1.HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. 2.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. 3.ATOM RECORD CONTAINS SUM OF TLS AND RESIDUAL B FACTORS. ANISOU RECORD CONTAINS SUM OF TLS AND RESIDUAL U FACTORS. 4.WATERS WERE EXCLUDED FROM AUTOMATIC TLS ASSIGNMENT. 5.SULFATE (SO4) FROM THE CRYSTALLIZATION SOLUTION HAS BEEN MODELED IN THE SOLVENT STRUCTURE. 6.AN UNIDENTIFIED LIGAND (UNL) HAS BEEN MODELED AT A PUTATIVE FUNCTIONAL SITE BASED ON COMPARISON TO THE HOMOLOG STRUCTURE WITH PDB ID 3G1L. ; _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct MAD _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD WITH PHASES' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R_Free 0.265 _refine.overall_SU_ML 0.227 _refine.pdbx_overall_phase_error ? _refine.overall_SU_B 20.893 _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.ls_redundancy_reflns_obs ? _refine.pdbx_overall_ESU_R ? _refine.B_iso_min ? _refine.B_iso_max ? _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_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 1687 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 18 _refine_hist.number_atoms_solvent 14 _refine_hist.number_atoms_total 1719 _refine_hist.d_res_high 2.49 _refine_hist.d_res_low 29.93 # 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 0.017 0.022 ? 1766 'X-RAY DIFFRACTION' ? r_bond_other_d 0.002 0.020 ? 1205 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1.644 1.970 ? 2403 'X-RAY DIFFRACTION' ? r_angle_other_deg 1.280 3.000 ? 2920 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 3.644 5.000 ? 209 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 31.484 23.407 ? 91 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 14.338 15.000 ? 306 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 21.196 15.000 ? 14 'X-RAY DIFFRACTION' ? r_chiral_restr 0.093 0.200 ? 262 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.008 0.021 ? 1936 'X-RAY DIFFRACTION' ? r_gen_planes_other 0.002 0.020 ? 383 'X-RAY DIFFRACTION' ? r_nbd_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcbond_it 1.792 3.000 ? 1029 'X-RAY DIFFRACTION' ? r_mcbond_other 0.401 3.000 ? 405 'X-RAY DIFFRACTION' ? r_mcangle_it 3.281 5.000 ? 1671 'X-RAY DIFFRACTION' ? r_scbond_it 5.984 8.000 ? 737 'X-RAY DIFFRACTION' ? r_scangle_it 8.366 11.000 ? 728 '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_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 2.49 _refine_ls_shell.d_res_low 2.55 _refine_ls_shell.number_reflns_R_work 787 _refine_ls_shell.R_factor_R_work 0.3090 _refine_ls_shell.percent_reflns_obs 100.00 _refine_ls_shell.R_factor_R_free 0.3980 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 35 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.number_reflns_obs ? # _struct.entry_id 3NNR _struct.title 'Crystal structure of a TetR-family transcriptional regulator (Maqu_3571) from MARINOBACTER AQUAEOLEI VT8 at 2.49 A resolution' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag Y _struct.pdbx_model_type_details ? # _struct_keywords.text ;TETR-FAMILY TRANSCRIPTIONAL REGULATOR, Structural Genomics, Joint Center for Structural Genomics, JCSG, Protein Structure Initiative, PSI-2, TRANSCRIPTION ; _struct_keywords.pdbx_keywords TRANSCRIPTION _struct_keywords.entry_id 3NNR # 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 'CRYSTAL PACKING ANALYSIS SUGGEST THE ASSIGNMENT OF A DIMER AS THE SIGNIFICANT OLIGOMERIZATION STATE IN SOLUTION.' # 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 LYS A 5 ? GLY A 22 ? LYS A 4 GLY A 21 1 ? 18 HELX_P HELX_P2 2 GLU A 23 ? ILE A 26 ? GLU A 22 ILE A 25 5 ? 4 HELX_P HELX_P3 3 THR A 27 ? ALA A 36 ? THR A 26 ALA A 35 1 ? 10 HELX_P HELX_P4 4 SER A 38 ? PHE A 46 ? SER A 37 PHE A 45 1 ? 9 HELX_P HELX_P5 5 ASN A 48 ? LEU A 68 ? ASN A 47 LEU A 67 1 ? 21 HELX_P HELX_P6 6 THR A 77 ? TYR A 95 ? THR A 76 TYR A 94 1 ? 19 HELX_P HELX_P7 7 TYR A 95 ? ASP A 101 ? TYR A 94 ASP A 100 1 ? 7 HELX_P HELX_P8 8 ASP A 101 ? ASP A 109 ? ASP A 100 ASP A 108 1 ? 9 HELX_P HELX_P9 9 ASP A 109 ? ALA A 137 ? ASP A 108 ALA A 136 1 ? 29 HELX_P HELX_P10 10 PRO A 144 ? ASN A 161 ? PRO A 143 ASN A 160 1 ? 18 HELX_P HELX_P11 11 ASN A 161 ? HIS A 170 ? ASN A 160 HIS A 169 1 ? 10 HELX_P HELX_P12 12 GLU A 182 ? LYS A 184 ? GLU A 181 LYS A 183 5 ? 3 HELX_P HELX_P13 13 GLN A 185 ? VAL A 195 ? GLN A 184 VAL A 194 1 ? 11 HELX_P HELX_P14 14 PRO A 196 ? LEU A 198 ? PRO A 195 LEU A 197 5 ? 3 HELX_P HELX_P15 15 THR A 199 ? LYS A 212 ? THR A 198 LYS A 211 1 ? 14 # _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 MSE 4 C ? ? ? 1_555 A LYS 5 N ? ? A MSE 3 A LYS 4 1_555 ? ? ? ? ? ? ? 1.352 ? ? covale2 covale both ? A ASP 80 C ? ? ? 1_555 A MSE 81 N ? ? A ASP 79 A MSE 80 1_555 ? ? ? ? ? ? ? 1.328 ? ? covale3 covale both ? A MSE 81 C ? ? ? 1_555 A THR 82 N ? ? A MSE 80 A THR 81 1_555 ? ? ? ? ? ? ? 1.331 ? ? covale4 covale both ? A ALA 150 C ? ? ? 1_555 A MSE 151 N ? ? A ALA 149 A MSE 150 1_555 ? ? ? ? ? ? ? 1.327 ? ? covale5 covale both ? A MSE 151 C ? ? ? 1_555 A SER 152 N ? ? A MSE 150 A SER 151 1_555 ? ? ? ? ? ? ? 1.337 ? ? covale6 covale both ? A TRP 162 C ? ? ? 1_555 A MSE 163 N ? ? A TRP 161 A MSE 162 1_555 ? ? ? ? ? ? ? 1.343 ? ? covale7 covale both ? A MSE 163 C ? ? ? 1_555 A ALA 164 N ? ? A MSE 162 A ALA 163 1_555 ? ? ? ? ? ? ? 1.339 ? ? # _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 A SO4 231 ? 2 'BINDING SITE FOR RESIDUE SO4 A 231' AC2 Software A SO4 232 ? 2 'BINDING SITE FOR RESIDUE SO4 A 232' # 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 2 TYR A 43 ? TYR A 42 . ? 6_545 ? 2 AC1 2 TYR A 66 ? TYR A 65 . ? 1_555 ? 3 AC2 2 ASN A 19 ? ASN A 18 . ? 1_555 ? 4 AC2 2 ARG A 96 ? ARG A 95 . ? 1_555 ? # _atom_sites.entry_id 3NNR _atom_sites.fract_transf_matrix[1][1] 0.017023 _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] 0.017023 _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] 0.005792 _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 ? ? ? A . n A 1 2 MSE 2 1 ? ? ? A . n A 1 3 THR 3 2 ? ? ? A . n A 1 4 MSE 4 3 3 MSE MSE A . n A 1 5 LYS 5 4 4 LYS LYS A . n A 1 6 THR 6 5 5 THR THR A . n A 1 7 ARG 7 6 6 ARG ARG A . n A 1 8 ASP 8 7 7 ASP ASP A . n A 1 9 LYS 9 8 8 LYS LYS A . n A 1 10 ILE 10 9 9 ILE ILE A . n A 1 11 LEU 11 10 10 LEU LEU A . n A 1 12 LEU 12 11 11 LEU LEU A . n A 1 13 SER 13 12 12 SER SER A . n A 1 14 SER 14 13 13 SER SER A . n A 1 15 LEU 15 14 14 LEU LEU A . n A 1 16 GLU 16 15 15 GLU GLU A . n A 1 17 LEU 17 16 16 LEU LEU A . n A 1 18 PHE 18 17 17 PHE PHE A . n A 1 19 ASN 19 18 18 ASN ASN A . n A 1 20 ASP 20 19 19 ASP ASP A . n A 1 21 LYS 21 20 20 LYS LYS A . n A 1 22 GLY 22 21 21 GLY GLY A . n A 1 23 GLU 23 22 22 GLU GLU A . n A 1 24 ARG 24 23 23 ARG ARG A . n A 1 25 ASN 25 24 24 ASN ASN A . n A 1 26 ILE 26 25 25 ILE ILE A . n A 1 27 THR 27 26 26 THR THR A . n A 1 28 THR 28 27 27 THR THR A . n A 1 29 ASN 29 28 28 ASN ASN A . n A 1 30 HIS 30 29 29 HIS HIS A . n A 1 31 ILE 31 30 30 ILE ILE A . n A 1 32 ALA 32 31 31 ALA ALA A . n A 1 33 ALA 33 32 32 ALA ALA A . n A 1 34 HIS 34 33 33 HIS HIS A . n A 1 35 LEU 35 34 34 LEU LEU A . n A 1 36 ALA 36 35 35 ALA ALA A . n A 1 37 ILE 37 36 36 ILE ILE A . n A 1 38 SER 38 37 37 SER SER A . n A 1 39 PRO 39 38 38 PRO PRO A . n A 1 40 GLY 40 39 39 GLY GLY A . n A 1 41 ASN 41 40 40 ASN ASN A . n A 1 42 LEU 42 41 41 LEU LEU A . n A 1 43 TYR 43 42 42 TYR TYR A . n A 1 44 TYR 44 43 43 TYR TYR A . n A 1 45 HIS 45 44 44 HIS HIS A . n A 1 46 PHE 46 45 45 PHE PHE A . n A 1 47 ARG 47 46 46 ARG ARG A . n A 1 48 ASN 48 47 47 ASN ASN A . n A 1 49 LYS 49 48 48 LYS LYS A . n A 1 50 SER 50 49 49 SER SER A . n A 1 51 ASP 51 50 50 ASP ASP A . n A 1 52 ILE 52 51 51 ILE ILE A . n A 1 53 ILE 53 52 52 ILE ILE A . n A 1 54 TYR 54 53 53 TYR TYR A . n A 1 55 GLU 55 54 54 GLU GLU A . n A 1 56 ILE 56 55 55 ILE ILE A . n A 1 57 PHE 57 56 56 PHE PHE A . n A 1 58 GLN 58 57 57 GLN GLN A . n A 1 59 GLU 59 58 58 GLU GLU A . n A 1 60 TYR 60 59 59 TYR TYR A . n A 1 61 GLU 61 60 60 GLU GLU A . n A 1 62 LYS 62 61 61 LYS LYS A . n A 1 63 LEU 63 62 62 LEU LEU A . n A 1 64 VAL 64 63 63 VAL VAL A . n A 1 65 ASP 65 64 64 ASP ASP A . n A 1 66 TYR 66 65 65 TYR TYR A . n A 1 67 TYR 67 66 66 TYR TYR A . n A 1 68 LEU 68 67 67 LEU LEU A . n A 1 69 ASP 69 68 68 ASP ASP A . n A 1 70 ILE 70 69 69 ILE ILE A . n A 1 71 PRO 71 70 70 PRO PRO A . n A 1 72 GLU 72 71 71 GLU GLU A . n A 1 73 ASP 73 72 72 ASP ASP A . n A 1 74 ARG 74 73 73 ARG ARG A . n A 1 75 PRO 75 74 74 PRO PRO A . n A 1 76 ILE 76 75 75 ILE ILE A . n A 1 77 THR 77 76 76 THR THR A . n A 1 78 LEU 78 77 77 LEU LEU A . n A 1 79 GLU 79 78 78 GLU GLU A . n A 1 80 ASP 80 79 79 ASP ASP A . n A 1 81 MSE 81 80 80 MSE MSE A . n A 1 82 THR 82 81 81 THR THR A . n A 1 83 PHE 83 82 82 PHE PHE A . n A 1 84 TYR 84 83 83 TYR TYR A . n A 1 85 LEU 85 84 84 LEU LEU A . n A 1 86 GLU 86 85 85 GLU GLU A . n A 1 87 SER 87 86 86 SER SER A . n A 1 88 VAL 88 87 87 VAL VAL A . n A 1 89 PHE 89 88 88 PHE PHE A . n A 1 90 ASP 90 89 89 ASP ASP A . n A 1 91 GLY 91 90 90 GLY GLY A . n A 1 92 LEU 92 91 91 LEU LEU A . n A 1 93 TRP 93 92 92 TRP TRP A . n A 1 94 SER 94 93 93 SER SER A . n A 1 95 TYR 95 94 94 TYR TYR A . n A 1 96 ARG 96 95 95 ARG ARG A . n A 1 97 PHE 97 96 96 PHE PHE A . n A 1 98 PHE 98 97 97 PHE PHE A . n A 1 99 HIS 99 98 98 HIS HIS A . n A 1 100 ARG 100 99 99 ARG ARG A . n A 1 101 ASP 101 100 100 ASP ASP A . n A 1 102 LEU 102 101 101 LEU LEU A . n A 1 103 GLU 103 102 102 GLU GLU A . n A 1 104 TYR 104 103 103 TYR TYR A . n A 1 105 LEU 105 104 104 LEU LEU A . n A 1 106 LEU 106 105 105 LEU LEU A . n A 1 107 ASP 107 106 106 ASP ASP A . n A 1 108 SER 108 107 107 SER SER A . n A 1 109 ASP 109 108 108 ASP ASP A . n A 1 110 PRO 110 109 109 PRO PRO A . n A 1 111 ARG 111 110 110 ARG ARG A . n A 1 112 LEU 112 111 111 LEU LEU A . n A 1 113 ARG 113 112 112 ARG ARG A . n A 1 114 GLN 114 113 113 GLN GLN A . n A 1 115 ASP 115 114 114 ASP ASP A . n A 1 116 TYR 116 115 115 TYR TYR A . n A 1 117 ARG 117 116 116 ARG ARG A . n A 1 118 GLU 118 117 117 GLU GLU 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 ASN 121 120 120 ASN ASN A . n A 1 122 ARG 122 121 121 ARG ARG A . n A 1 123 CYS 123 122 122 CYS CYS A . n A 1 124 LEU 124 123 123 LEU LEU A . n A 1 125 ALA 125 124 124 ALA ALA A . n A 1 126 ALA 126 125 125 ALA ALA A . n A 1 127 ILE 127 126 126 ILE ILE A . n A 1 128 ASN 128 127 127 ASN ASN A . n A 1 129 ARG 129 128 128 ARG ARG A . n A 1 130 ILE 130 129 129 ILE ILE A . n A 1 131 PHE 131 130 130 PHE PHE A . n A 1 132 ALA 132 131 131 ALA ALA A . n A 1 133 LYS 133 132 132 LYS LYS A . n A 1 134 LEU 134 133 133 LEU LEU A . n A 1 135 ALA 135 134 134 ALA ALA A . n A 1 136 ASP 136 135 135 ASP ASP A . n A 1 137 ALA 137 136 136 ALA ALA A . n A 1 138 GLY 138 137 137 GLY GLY A . n A 1 139 ILE 139 138 138 ILE ILE A . n A 1 140 ILE 140 139 139 ILE ILE A . n A 1 141 GLN 141 140 140 GLN GLN A . n A 1 142 PRO 142 141 141 PRO PRO A . n A 1 143 GLN 143 142 142 GLN GLN A . n A 1 144 PRO 144 143 143 PRO PRO A . n A 1 145 GLU 145 144 144 GLU GLU A . n A 1 146 ASP 146 145 145 ASP ASP A . n A 1 147 LEU 147 146 146 LEU LEU A . n A 1 148 ARG 148 147 147 ARG ARG A . n A 1 149 SER 149 148 148 SER SER A . n A 1 150 ALA 150 149 149 ALA ALA A . n A 1 151 MSE 151 150 150 MSE MSE A . n A 1 152 SER 152 151 151 SER SER A . n A 1 153 LEU 153 152 152 LEU LEU A . n A 1 154 ASN 154 153 153 ASN ASN A . n A 1 155 VAL 155 154 154 VAL VAL A . n A 1 156 TRP 156 155 155 TRP TRP A . n A 1 157 LEU 157 156 156 LEU LEU A . n A 1 158 VAL 158 157 157 VAL VAL A . n A 1 159 ILE 159 158 158 ILE ILE A . n A 1 160 THR 160 159 159 THR THR A . n A 1 161 ASN 161 160 160 ASN ASN A . n A 1 162 TRP 162 161 161 TRP TRP A . n A 1 163 MSE 163 162 162 MSE MSE A . n A 1 164 ALA 164 163 163 ALA ALA A . n A 1 165 PHE 165 164 164 PHE PHE A . n A 1 166 LEU 166 165 165 LEU LEU A . n A 1 167 LYS 167 166 166 LYS LYS A . n A 1 168 THR 168 167 167 THR THR A . n A 1 169 ALA 169 168 168 ALA ALA A . n A 1 170 HIS 170 169 169 HIS HIS A . n A 1 171 ALA 171 170 ? ? ? A . n A 1 172 ALA 172 171 ? ? ? A . n A 1 173 GLU 173 172 ? ? ? A . n A 1 174 GLU 174 173 ? ? ? A . n A 1 175 PRO 175 174 ? ? ? A . n A 1 176 ALA 176 175 ? ? ? A . n A 1 177 SER 177 176 ? ? ? A . n A 1 178 LEU 178 177 ? ? ? A . n A 1 179 SER 179 178 ? ? ? A . n A 1 180 LEU 180 179 179 LEU LEU A . n A 1 181 THR 181 180 180 THR THR A . n A 1 182 GLU 182 181 181 GLU GLU A . n A 1 183 LEU 183 182 182 LEU LEU A . n A 1 184 LYS 184 183 183 LYS LYS A . n A 1 185 GLN 185 184 184 GLN GLN A . n A 1 186 GLY 186 185 185 GLY GLY A . n A 1 187 ILE 187 186 186 ILE ILE A . n A 1 188 TYR 188 187 187 TYR TYR A . n A 1 189 GLN 189 188 188 GLN GLN A . n A 1 190 VAL 190 189 189 VAL VAL A . n A 1 191 LEU 191 190 190 LEU LEU A . n A 1 192 THR 192 191 191 THR THR A . n A 1 193 LEU 193 192 192 LEU LEU A . n A 1 194 GLU 194 193 193 GLU GLU A . n A 1 195 VAL 195 194 194 VAL VAL A . n A 1 196 PRO 196 195 195 PRO PRO A . n A 1 197 TYR 197 196 196 TYR TYR A . n A 1 198 LEU 198 197 197 LEU LEU A . n A 1 199 THR 199 198 198 THR THR A . n A 1 200 PRO 200 199 199 PRO PRO A . n A 1 201 GLU 201 200 200 GLU GLU A . n A 1 202 TYR 202 201 201 TYR TYR A . n A 1 203 ARG 203 202 202 ARG ARG A . n A 1 204 GLU 204 203 203 GLU GLU A . n A 1 205 ARG 205 204 204 ARG ARG A . n A 1 206 VAL 206 205 205 VAL VAL A . n A 1 207 LEU 207 206 206 LEU LEU A . n A 1 208 ALA 208 207 207 ALA ALA A . n A 1 209 LEU 209 208 208 LEU LEU A . n A 1 210 ARG 210 209 209 ARG ARG A . n A 1 211 GLU 211 210 210 GLU GLU A . n A 1 212 LYS 212 211 211 LYS LYS A . n A 1 213 TYR 213 212 212 TYR TYR A . n A 1 214 ARG 214 213 213 ARG ARG A . n A 1 215 PRO 215 214 214 PRO PRO A . n A 1 216 THR 216 215 ? ? ? A . n A 1 217 LEU 217 216 ? ? ? A . n A 1 218 PRO 218 217 ? ? ? A . n A 1 219 GLU 219 218 ? ? ? A . n A 1 220 ALA 220 219 ? ? ? A . n A 1 221 GLN 221 220 ? ? ? A . n A 1 222 GLY 222 221 ? ? ? A . n A 1 223 ILE 223 222 ? ? ? A . n A 1 224 SER 224 223 ? ? ? A . n A 1 225 GLY 225 224 ? ? ? A . n A 1 226 VAL 226 225 ? ? ? A . n A 1 227 GLU 227 226 ? ? ? A . n A 1 228 ALA 228 227 ? ? ? 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 UNL 1 230 230 UNL UNL A . C 3 SO4 1 231 231 SO4 SO4 A . D 3 SO4 1 232 232 SO4 SO4 A . E 4 HOH 1 233 233 HOH HOH A . E 4 HOH 2 234 234 HOH HOH A . E 4 HOH 3 235 235 HOH HOH A . E 4 HOH 4 236 236 HOH HOH A . E 4 HOH 5 237 237 HOH HOH A . E 4 HOH 6 238 238 HOH HOH A . E 4 HOH 7 239 239 HOH HOH A . E 4 HOH 8 240 240 HOH HOH A . E 4 HOH 9 241 241 HOH HOH A . E 4 HOH 10 242 242 HOH HOH A . E 4 HOH 11 243 243 HOH HOH A . E 4 HOH 12 244 244 HOH HOH A . E 4 HOH 13 245 245 HOH HOH A . E 4 HOH 14 246 246 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 4 A MSE 3 ? MET SELENOMETHIONINE 2 A MSE 81 A MSE 80 ? MET SELENOMETHIONINE 3 A MSE 151 A MSE 150 ? MET SELENOMETHIONINE 4 A MSE 163 A MSE 162 ? 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)' 5720 ? 1 MORE -74 ? 1 'SSA (A^2)' 18710 ? # 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 2010-07-28 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2017-11-08 4 'Structure model' 1 3 2019-07-17 5 'Structure model' 1 4 2023-02-01 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Refinement description' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Derived calculations' 5 4 'Structure model' 'Refinement description' 6 5 'Structure model' 'Database references' 7 5 'Structure model' 'Derived calculations' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 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 6 5 'Structure model' struct_site # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 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' 15 5 'Structure model' '_struct_site.pdbx_auth_asym_id' 16 5 'Structure model' '_struct_site.pdbx_auth_comp_id' 17 5 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_refine_tls.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls.id 1 _pdbx_refine_tls.details ? _pdbx_refine_tls.method refined _pdbx_refine_tls.origin_x 4.3488 _pdbx_refine_tls.origin_y -2.7976 _pdbx_refine_tls.origin_z 11.3117 _pdbx_refine_tls.T[1][1] 0.3022 _pdbx_refine_tls.T[2][2] 0.4738 _pdbx_refine_tls.T[3][3] 0.0993 _pdbx_refine_tls.T[1][2] 0.0668 _pdbx_refine_tls.T[1][3] -0.0824 _pdbx_refine_tls.T[2][3] 0.0932 _pdbx_refine_tls.L[1][1] 4.4727 _pdbx_refine_tls.L[2][2] 4.3132 _pdbx_refine_tls.L[3][3] 2.1601 _pdbx_refine_tls.L[1][2] 2.7366 _pdbx_refine_tls.L[1][3] -0.8207 _pdbx_refine_tls.L[2][3] -1.0378 _pdbx_refine_tls.S[1][1] -0.2304 _pdbx_refine_tls.S[1][2] -0.0233 _pdbx_refine_tls.S[1][3] 0.0627 _pdbx_refine_tls.S[2][1] 0.1709 _pdbx_refine_tls.S[2][2] -0.0730 _pdbx_refine_tls.S[2][3] -0.3304 _pdbx_refine_tls.S[3][1] -0.2514 _pdbx_refine_tls.S[3][2] 0.1878 _pdbx_refine_tls.S[3][3] 0.3033 # _pdbx_refine_tls_group.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls_group.id 1 _pdbx_refine_tls_group.refine_tls_id 1 _pdbx_refine_tls_group.beg_auth_asym_id A _pdbx_refine_tls_group.beg_auth_seq_id 3 _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.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 5.5.0110 ? program 'Garib N. Murshudov' garib@ysbl.york.ac.uk refinement http://www.ccp4.ac.uk/dist/html/refmac5.html Fortran_77 ? 1 PHENIX . ? package 'P.D. Adams' PDAdams@lbl.gov refinement http://www.phenix-online.org/ C++ ? 2 SHELX . ? package 'George M. 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 SCALA 3.3.15 2009/03/31 other 'Phil R. Evans' pre@mrc-lmb.cam.ac.uk 'data scaling' http://www.ccp4.ac.uk/dist/html/scala.html Fortran_77 ? 5 PDB_EXTRACT 3.006 'June 11, 2008' package PDB help@deposit.rcsb.org 'data extraction' http://sw-tools.pdb.org/apps/PDB_EXTRACT/ C++ ? 6 MOSFLM . ? ? ? ? 'data reduction' ? ? ? 7 autoSHARP . ? ? ? ? phasing ? ? ? 8 SHELXD . ? ? ? ? phasing ? ? ? 9 # _pdbx_entry_details.entry_id 3NNR _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ;THIS PROTEIN WAS EXPRESSED WITH A PURIFICATION TAG MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE LEAVING ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. ; _pdbx_entry_details.has_ligand_of_interest ? # _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 23 _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 23 _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 23 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 123.67 _pdbx_validate_rmsd_angle.angle_target_value 120.30 _pdbx_validate_rmsd_angle.angle_deviation 3.37 _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 LEU _pdbx_validate_torsion.auth_asym_id A _pdbx_validate_torsion.auth_seq_id 67 _pdbx_validate_torsion.PDB_ins_code ? _pdbx_validate_torsion.label_alt_id ? _pdbx_validate_torsion.phi -94.58 _pdbx_validate_torsion.psi 31.46 # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 Y 1 A ARG 46 ? CG ? A ARG 47 CG 2 1 Y 1 A ARG 46 ? CD ? A ARG 47 CD 3 1 Y 1 A ARG 46 ? NE ? A ARG 47 NE 4 1 Y 1 A ARG 46 ? CZ ? A ARG 47 CZ 5 1 Y 1 A ARG 46 ? NH1 ? A ARG 47 NH1 6 1 Y 1 A ARG 46 ? NH2 ? A ARG 47 NH2 7 1 Y 1 A ARG 116 ? NE ? A ARG 117 NE 8 1 Y 1 A ARG 116 ? CZ ? A ARG 117 CZ 9 1 Y 1 A ARG 116 ? NH1 ? A ARG 117 NH1 10 1 Y 1 A ARG 116 ? NH2 ? A ARG 117 NH2 11 1 Y 1 A LYS 166 ? CE ? A LYS 167 CE 12 1 Y 1 A LYS 166 ? NZ ? A LYS 167 NZ 13 1 Y 1 A LEU 182 ? CG ? A LEU 183 CG 14 1 Y 1 A LEU 182 ? CD1 ? A LEU 183 CD1 15 1 Y 1 A LEU 182 ? CD2 ? A LEU 183 CD2 16 1 Y 1 A ARG 202 ? NE ? A ARG 203 NE 17 1 Y 1 A ARG 202 ? CZ ? A ARG 203 CZ 18 1 Y 1 A ARG 202 ? NH1 ? A ARG 203 NH1 19 1 Y 1 A ARG 202 ? NH2 ? A ARG 203 NH2 20 1 Y 1 A GLU 203 ? CG ? A GLU 204 CG 21 1 Y 1 A GLU 203 ? CD ? A GLU 204 CD 22 1 Y 1 A GLU 203 ? OE1 ? A GLU 204 OE1 23 1 Y 1 A GLU 203 ? OE2 ? A GLU 204 OE2 24 1 Y 1 A LYS 211 ? CG ? A LYS 212 CG 25 1 Y 1 A LYS 211 ? CD ? A LYS 212 CD 26 1 Y 1 A LYS 211 ? CE ? A LYS 212 CE 27 1 Y 1 A LYS 211 ? NZ ? A LYS 212 NZ # loop_ _pdbx_unobs_or_zero_occ_residues.id _pdbx_unobs_or_zero_occ_residues.PDB_model_num _pdbx_unobs_or_zero_occ_residues.polymer_flag _pdbx_unobs_or_zero_occ_residues.occupancy_flag _pdbx_unobs_or_zero_occ_residues.auth_asym_id _pdbx_unobs_or_zero_occ_residues.auth_comp_id _pdbx_unobs_or_zero_occ_residues.auth_seq_id _pdbx_unobs_or_zero_occ_residues.PDB_ins_code _pdbx_unobs_or_zero_occ_residues.label_asym_id _pdbx_unobs_or_zero_occ_residues.label_comp_id _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 1 Y 1 A GLY 0 ? A GLY 1 2 1 Y 1 A MSE 1 ? A MSE 2 3 1 Y 1 A THR 2 ? A THR 3 4 1 Y 1 A ALA 170 ? A ALA 171 5 1 Y 1 A ALA 171 ? A ALA 172 6 1 Y 1 A GLU 172 ? A GLU 173 7 1 Y 1 A GLU 173 ? A GLU 174 8 1 Y 1 A PRO 174 ? A PRO 175 9 1 Y 1 A ALA 175 ? A ALA 176 10 1 Y 1 A SER 176 ? A SER 177 11 1 Y 1 A LEU 177 ? A LEU 178 12 1 Y 1 A SER 178 ? A SER 179 13 1 Y 1 A THR 215 ? A THR 216 14 1 Y 1 A LEU 216 ? A LEU 217 15 1 Y 1 A PRO 217 ? A PRO 218 16 1 Y 1 A GLU 218 ? A GLU 219 17 1 Y 1 A ALA 219 ? A ALA 220 18 1 Y 1 A GLN 220 ? A GLN 221 19 1 Y 1 A GLY 221 ? A GLY 222 20 1 Y 1 A ILE 222 ? A ILE 223 21 1 Y 1 A SER 223 ? A SER 224 22 1 Y 1 A GLY 224 ? A GLY 225 23 1 Y 1 A VAL 225 ? A VAL 226 24 1 Y 1 A GLU 226 ? A GLU 227 25 1 Y 1 A ALA 227 ? A ALA 228 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'UNKNOWN LIGAND' UNL 3 'SULFATE ION' SO4 4 water HOH #