data_4O8S # _entry.id 4O8S # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.281 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 4O8S RCSB RCSB084185 WWPDB D_1000084185 # _pdbx_database_status.entry_id 4O8S _pdbx_database_status.status_code REL _pdbx_database_status.methods_development_category ? _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site PDBJ _pdbx_database_status.recvd_initial_deposition_date 2013-12-30 _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry . _pdbx_database_status.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Zhao, Y.H.' 1 'Su, Y.T.' 2 'Sun, L.F.' 3 'Wu, Y.' 4 # _citation.id primary _citation.title 'Crystal Structure Confirmation of JHP933 as a Nucleotidyltransferase Superfamily Protein from Helicobacter pylori Strain J99' _citation.journal_abbrev 'Plos One' _citation.journal_volume 9 _citation.page_first e104609 _citation.page_last e104609 _citation.year 2014 _citation.journal_id_ASTM ? _citation.country US _citation.journal_id_ISSN 1932-6203 _citation.journal_id_CSD ? _citation.book_publisher ? _citation.pdbx_database_id_PubMed 25101777 _citation.pdbx_database_id_DOI 10.1371/journal.pone.0104609 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Zhao, Y.' 1 primary 'Ye, X.' 2 primary 'Su, Y.' 3 primary 'Sun, L.' 4 primary 'She, F.' 5 primary 'Wu, Y.' 6 # _cell.length_a 90.056 _cell.length_b 90.056 _cell.length_c 70.867 _cell.angle_alpha 90.000 _cell.angle_beta 90.000 _cell.angle_gamma 120.000 _cell.entry_id 4O8S _cell.pdbx_unique_axis ? _cell.Z_PDB 6 _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.space_group_name_H-M 'P 62' _symmetry.entry_id 4O8S _symmetry.Int_Tables_number 171 _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 Putative 26935.012 1 ? ? ? ? 2 water nat water 18.015 76 ? ? ? ? # _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 ;SLSEQALNHEKL(MSE)RAIVKNLADTP(MSE)VLKGETALYLGYGLNRFSEDLDFDCHKKINLLGRVKSAIPNGIILND IHIKKDTDSVGRY(MSE)VRYATKDNKEEQTLKLEISYRDAPKESEVNVIEG(MSE)RIAKIERIIDNKLCACFDGEHTR TKARDLFDLHFLAKHYEEHFNLDLASRLKDFSKDPDKLVSDYLVDVKLDALLNQI(MSE)DLEETALELGV(MSE)AQLI HKKLEKQSHSLNALQE ; _entity_poly.pdbx_seq_one_letter_code_can ;SLSEQALNHEKLMRAIVKNLADTPMVLKGETALYLGYGLNRFSEDLDFDCHKKINLLGRVKSAIPNGIILNDIHIKKDTD SVGRYMVRYATKDNKEEQTLKLEISYRDAPKESEVNVIEGMRIAKIERIIDNKLCACFDGEHTRTKARDLFDLHFLAKHY EEHFNLDLASRLKDFSKDPDKLVSDYLVDVKLDALLNQIMDLEETALELGVMAQLIHKKLEKQSHSLNALQE ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 SER n 1 2 LEU n 1 3 SER n 1 4 GLU n 1 5 GLN n 1 6 ALA n 1 7 LEU n 1 8 ASN n 1 9 HIS n 1 10 GLU n 1 11 LYS n 1 12 LEU n 1 13 MSE n 1 14 ARG n 1 15 ALA n 1 16 ILE n 1 17 VAL n 1 18 LYS n 1 19 ASN n 1 20 LEU n 1 21 ALA n 1 22 ASP n 1 23 THR n 1 24 PRO n 1 25 MSE n 1 26 VAL n 1 27 LEU n 1 28 LYS n 1 29 GLY n 1 30 GLU n 1 31 THR n 1 32 ALA n 1 33 LEU n 1 34 TYR n 1 35 LEU n 1 36 GLY n 1 37 TYR n 1 38 GLY n 1 39 LEU n 1 40 ASN n 1 41 ARG n 1 42 PHE n 1 43 SER n 1 44 GLU n 1 45 ASP n 1 46 LEU n 1 47 ASP n 1 48 PHE n 1 49 ASP n 1 50 CYS n 1 51 HIS n 1 52 LYS n 1 53 LYS n 1 54 ILE n 1 55 ASN n 1 56 LEU n 1 57 LEU n 1 58 GLY n 1 59 ARG n 1 60 VAL n 1 61 LYS n 1 62 SER n 1 63 ALA n 1 64 ILE n 1 65 PRO n 1 66 ASN n 1 67 GLY n 1 68 ILE n 1 69 ILE n 1 70 LEU n 1 71 ASN n 1 72 ASP n 1 73 ILE n 1 74 HIS n 1 75 ILE n 1 76 LYS n 1 77 LYS n 1 78 ASP n 1 79 THR n 1 80 ASP n 1 81 SER n 1 82 VAL n 1 83 GLY n 1 84 ARG n 1 85 TYR n 1 86 MSE n 1 87 VAL n 1 88 ARG n 1 89 TYR n 1 90 ALA n 1 91 THR n 1 92 LYS n 1 93 ASP n 1 94 ASN n 1 95 LYS n 1 96 GLU n 1 97 GLU n 1 98 GLN n 1 99 THR n 1 100 LEU n 1 101 LYS n 1 102 LEU n 1 103 GLU n 1 104 ILE n 1 105 SER n 1 106 TYR n 1 107 ARG n 1 108 ASP n 1 109 ALA n 1 110 PRO n 1 111 LYS n 1 112 GLU n 1 113 SER n 1 114 GLU n 1 115 VAL n 1 116 ASN n 1 117 VAL n 1 118 ILE n 1 119 GLU n 1 120 GLY n 1 121 MSE n 1 122 ARG n 1 123 ILE n 1 124 ALA n 1 125 LYS n 1 126 ILE n 1 127 GLU n 1 128 ARG n 1 129 ILE n 1 130 ILE n 1 131 ASP n 1 132 ASN n 1 133 LYS n 1 134 LEU n 1 135 CYS n 1 136 ALA n 1 137 CYS n 1 138 PHE n 1 139 ASP n 1 140 GLY n 1 141 GLU n 1 142 HIS n 1 143 THR n 1 144 ARG n 1 145 THR n 1 146 LYS n 1 147 ALA n 1 148 ARG n 1 149 ASP n 1 150 LEU n 1 151 PHE n 1 152 ASP n 1 153 LEU n 1 154 HIS n 1 155 PHE n 1 156 LEU n 1 157 ALA n 1 158 LYS n 1 159 HIS n 1 160 TYR n 1 161 GLU n 1 162 GLU n 1 163 HIS n 1 164 PHE n 1 165 ASN n 1 166 LEU n 1 167 ASP n 1 168 LEU n 1 169 ALA n 1 170 SER n 1 171 ARG n 1 172 LEU n 1 173 LYS n 1 174 ASP n 1 175 PHE n 1 176 SER n 1 177 LYS n 1 178 ASP n 1 179 PRO n 1 180 ASP n 1 181 LYS n 1 182 LEU n 1 183 VAL n 1 184 SER n 1 185 ASP n 1 186 TYR n 1 187 LEU n 1 188 VAL n 1 189 ASP n 1 190 VAL n 1 191 LYS n 1 192 LEU n 1 193 ASP n 1 194 ALA n 1 195 LEU n 1 196 LEU n 1 197 ASN n 1 198 GLN n 1 199 ILE n 1 200 MSE n 1 201 ASP n 1 202 LEU n 1 203 GLU n 1 204 GLU n 1 205 THR n 1 206 ALA n 1 207 LEU n 1 208 GLU n 1 209 LEU n 1 210 GLY n 1 211 VAL n 1 212 MSE n 1 213 ALA n 1 214 GLN n 1 215 LEU n 1 216 ILE n 1 217 HIS n 1 218 LYS n 1 219 LYS n 1 220 LEU n 1 221 GLU n 1 222 LYS n 1 223 GLN n 1 224 SER n 1 225 HIS n 1 226 SER n 1 227 LEU n 1 228 ASN n 1 229 ALA n 1 230 LEU n 1 231 GLN n 1 232 GLU 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 '933, jhp_0933' _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain 'J99 / ATCC 700824' _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 'Helicobacter pylori' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 85963 _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 'BL21(DE3)' _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 pET-15b _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code Q9ZKK2_HELPJ _struct_ref.pdbx_db_accession Q9ZKK2 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;SLSEQALNHEKLMRAIVKNLADTPMVLKGETALYLGYGLNRFSEDLDFDCHKKINLLGRVKSAIPNGIILNDIHIKKDTD SVGRYMVRYATKDNKEEQTLKLEISYRDAPKESEVNVIEGMRIAKIERIIDNKLCACFDGEHTRTKARDLFDLHFLAKHY EEHFNLDLASRLKDFSKDPDKLVSDYLVDVKLDALLNQIMDLEETALELGVMAQLIHKKLEKQSHSLNALQE ; _struct_ref.pdbx_align_begin 11 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 4O8S _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 232 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q9ZKK2 _struct_ref_seq.db_align_beg 11 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 242 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 11 _struct_ref_seq.pdbx_auth_seq_align_end 242 # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.162 HOH non-polymer . WATER ? 'H2 O' 18.015 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 MSE 'L-peptide linking' n SELENOMETHIONINE ? 'C5 H11 N O2 Se' 196.106 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # _exptl.crystals_number 1 _exptl.entry_id 4O8S _exptl.method 'X-RAY DIFFRACTION' # _exptl_crystal.id 1 _exptl_crystal.pdbx_mosaicity 0.230 _exptl_crystal.pdbx_mosaicity_esd ? _exptl_crystal.density_Matthews 3.08 _exptl_crystal.density_diffrn ? _exptl_crystal.density_meas ? _exptl_crystal.density_meas_temp ? _exptl_crystal.density_percent_sol 60.06 _exptl_crystal.size_max ? _exptl_crystal.size_mid ? _exptl_crystal.size_min ? _exptl_crystal.size_rad ? _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.pH 7.5 _exptl_crystal_grow.temp 293 _exptl_crystal_grow.pdbx_details '0.1M Potassium Sodium tartarate, 0.1M Tris-HCl, 32%(v/w) PEG4000, pH 7.5, vapor diffusion, sitting drop, temperature 293K' _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pdbx_pH_range . # _diffrn.id 1 _diffrn.ambient_temp 298 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'ADSC QUANTUM 315r' _diffrn_detector.pdbx_collection_date 2012-11-03 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.monochromator GRAPHITE _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.9792 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'SSRF BEAMLINE BL17U' _diffrn_source.pdbx_wavelength_list 0.9792 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_site SSRF _diffrn_source.pdbx_synchrotron_beamline BL17U # _reflns.entry_id 4O8S _reflns.d_resolution_high 2.050 _reflns.d_resolution_low 50.000 _reflns.number_obs 20549 _reflns.pdbx_Rmerge_I_obs 0.139 _reflns.pdbx_netI_over_sigmaI 9.700 _reflns.pdbx_chi_squared 1.821 _reflns.pdbx_redundancy 6.300 _reflns.percent_possible_obs 99.900 _reflns.observed_criterion_sigma_F 2 _reflns.observed_criterion_sigma_I 2 _reflns.number_all ? _reflns.pdbx_Rsym_value ? _reflns.B_iso_Wilson_estimate ? _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_scaling_rejects ? _reflns.pdbx_ordinal 1 _reflns.pdbx_diffrn_id 1 # loop_ _reflns_shell.d_res_high _reflns_shell.d_res_low _reflns_shell.number_measured_obs _reflns_shell.number_measured_all _reflns_shell.number_unique_obs _reflns_shell.pdbx_rejects _reflns_shell.Rmerge_I_obs _reflns_shell.meanI_over_sigI_obs _reflns_shell.pdbx_Rsym_value _reflns_shell.pdbx_chi_squared _reflns_shell.pdbx_redundancy _reflns_shell.percent_possible_obs _reflns_shell.pdbx_netI_over_sigmaI_obs _reflns_shell.number_possible _reflns_shell.number_unique_all _reflns_shell.Rmerge_F_all _reflns_shell.Rmerge_F_obs _reflns_shell.Rmerge_I_all _reflns_shell.meanI_over_sigI_all _reflns_shell.percent_possible_all _reflns_shell.pdbx_Rrim_I_all _reflns_shell.pdbx_Rpim_I_all _reflns_shell.pdbx_ordinal _reflns_shell.pdbx_diffrn_id 2.050 2.120 ? ? ? ? 0.932 ? ? 0.805 6.300 ? ? ? 2036 ? ? ? ? 100.000 ? ? 1 1 2.120 2.210 ? ? ? ? 0.585 ? ? 0.889 6.300 ? ? ? 2040 ? ? ? ? 100.000 ? ? 2 1 2.210 2.310 ? ? ? ? 0.443 ? ? 1.012 6.300 ? ? ? 2043 ? ? ? ? 100.000 ? ? 3 1 2.310 2.430 ? ? ? ? 0.304 ? ? 1.146 6.300 ? ? ? 2060 ? ? ? ? 100.000 ? ? 4 1 2.430 2.580 ? ? ? ? 0.236 ? ? 1.456 6.300 ? ? ? 2034 ? ? ? ? 100.000 ? ? 5 1 2.580 2.780 ? ? ? ? 0.185 ? ? 1.689 6.300 ? ? ? 2047 ? ? ? ? 100.000 ? ? 6 1 2.780 3.060 ? ? ? ? 0.145 ? ? 2.017 6.300 ? ? ? 2062 ? ? ? ? 100.000 ? ? 7 1 3.060 3.510 ? ? ? ? 0.116 ? ? 2.289 6.300 ? ? ? 2062 ? ? ? ? 100.000 ? ? 8 1 3.510 4.420 ? ? ? ? 0.119 ? ? 3.045 6.300 ? ? ? 2073 ? ? ? ? 100.000 ? ? 9 1 4.420 50.000 ? ? ? ? 0.118 ? ? 3.900 6.100 ? ? ? 2092 ? ? ? ? 99.000 ? ? 10 1 # _refine.entry_id 4O8S _refine.ls_d_res_high 2.1000 _refine.ls_d_res_low 38.0050 _refine.pdbx_ls_sigma_F 0.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_percent_reflns_obs 98.7400 _refine.ls_number_reflns_obs 18941 _refine.ls_number_reflns_all ? _refine.pdbx_ls_cross_valid_method ? _refine.pdbx_R_Free_selection_details RANDOM _refine.details ? _refine.ls_R_factor_all 0.2070 _refine.ls_R_factor_obs 0.2070 _refine.ls_R_factor_R_work 0.2043 _refine.ls_wR_factor_R_work ? _refine.ls_R_factor_R_free 0.2308 _refine.ls_wR_factor_R_free ? _refine.ls_percent_reflns_R_free 9.6600 _refine.ls_number_reflns_R_free 1829 _refine.ls_R_factor_R_free_error ? _refine.B_iso_mean 47.0548 _refine.solvent_model_param_bsol 32.4420 _refine.solvent_model_param_ksol 0.3460 _refine.pdbx_isotropic_thermal_model ? _refine.aniso_B[1][1] 1.7633 _refine.aniso_B[2][2] 1.7633 _refine.aniso_B[3][3] -3.5265 _refine.aniso_B[1][2] -0.0000 _refine.aniso_B[1][3] -0.0000 _refine.aniso_B[2][3] -0.0000 _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML 0.2100 _refine.overall_SU_B ? _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.pdbx_solvent_vdw_probe_radii 1.1000 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.8600 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_stereochemistry_target_values MLHL _refine.pdbx_stereochem_target_val_spec_case ? _refine.overall_FOM_work_R_set 0.8335 _refine.B_iso_max 125.430 _refine.B_iso_min 21.660 _refine.pdbx_overall_phase_error 24.0900 _refine.occupancy_max 1.000 _refine.occupancy_min 1.000 _refine.pdbx_ls_sigma_I ? _refine.ls_redundancy_reflns_obs ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.overall_FOM_free_R_set ? _refine.pdbx_diffrn_id 1 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 1867 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 76 _refine_hist.number_atoms_total 1943 _refine_hist.d_res_high 2.1000 _refine_hist.d_res_low 38.0050 # loop_ _refine_ls_restr.type _refine_ls_restr.number _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function _refine_ls_restr.pdbx_refine_id f_bond_d 1893 0.008 ? ? ? 'X-RAY DIFFRACTION' f_angle_d 2543 1.137 ? ? ? 'X-RAY DIFFRACTION' f_chiral_restr 290 0.082 ? ? ? 'X-RAY DIFFRACTION' f_plane_restr 327 0.004 ? ? ? 'X-RAY DIFFRACTION' f_dihedral_angle_d 732 14.209 ? ? ? 'X-RAY DIFFRACTION' # loop_ _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.percent_reflns_obs _refine_ls_shell.number_reflns_R_work _refine_ls_shell.R_factor_all _refine_ls_shell.R_factor_R_work _refine_ls_shell.R_factor_R_free _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.number_reflns_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.number_reflns_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.pdbx_refine_id _refine_ls_shell.redundancy_reflns_obs 2.1000 2.1568 13 95.0000 1269 . 0.2687 0.2933 . 131 . 1400 . 'X-RAY DIFFRACTION' . 2.1568 2.2203 13 98.0000 1287 . 0.2493 0.3013 . 138 . 1425 . 'X-RAY DIFFRACTION' . 2.2203 2.2919 13 98.0000 1297 . 0.2471 0.2833 . 140 . 1437 . 'X-RAY DIFFRACTION' . 2.2919 2.3738 13 99.0000 1306 . 0.2356 0.2868 . 140 . 1446 . 'X-RAY DIFFRACTION' . 2.3738 2.4689 13 98.0000 1292 . 0.2261 0.2528 . 139 . 1431 . 'X-RAY DIFFRACTION' . 2.4689 2.5812 13 99.0000 1330 . 0.2279 0.2875 . 139 . 1469 . 'X-RAY DIFFRACTION' . 2.5812 2.7172 13 99.0000 1315 . 0.2303 0.3252 . 143 . 1458 . 'X-RAY DIFFRACTION' . 2.7172 2.8874 13 100.0000 1320 . 0.2299 0.2595 . 137 . 1457 . 'X-RAY DIFFRACTION' . 2.8874 3.1103 13 100.0000 1347 . 0.2143 0.2584 . 143 . 1490 . 'X-RAY DIFFRACTION' . 3.1103 3.4231 13 100.0000 1310 . 0.2125 0.2467 . 141 . 1451 . 'X-RAY DIFFRACTION' . 3.4231 3.9180 13 100.0000 1348 . 0.1940 0.2180 . 148 . 1496 . 'X-RAY DIFFRACTION' . 3.9180 4.9346 13 100.0000 1325 . 0.1671 0.1586 . 148 . 1473 . 'X-RAY DIFFRACTION' . 4.9346 38.0114 13 99.0000 1366 . 0.1872 0.2091 . 142 . 1508 . 'X-RAY DIFFRACTION' . # _struct.entry_id 4O8S _struct.title 'Crystal structure of JHP933 from Helicobacter pylori' _struct.pdbx_descriptor Putative _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 4O8S _struct_keywords.text 'nucleotidyl transferase, HYDROLASE' _struct_keywords.pdbx_keywords HYDROLASE # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? # _struct_biol.id 1 _struct_biol.details 'biological unit is the same as asym.' # 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 SER A 3 ? LEU A 20 ? SER A 13 LEU A 30 1 ? 18 HELX_P HELX_P2 2 ALA A 21 ? THR A 23 ? ALA A 31 THR A 33 5 ? 3 HELX_P HELX_P3 3 LYS A 28 ? TYR A 37 ? LYS A 38 TYR A 47 1 ? 10 HELX_P HELX_P4 4 ASN A 55 ? ILE A 64 ? ASN A 65 ILE A 74 1 ? 10 HELX_P HELX_P5 5 LYS A 111 ? SER A 113 ? LYS A 121 SER A 123 5 ? 3 HELX_P HELX_P6 6 LYS A 125 ? PHE A 138 ? LYS A 135 PHE A 148 1 ? 14 HELX_P HELX_P7 7 LYS A 146 ? TYR A 160 ? LYS A 156 TYR A 170 1 ? 15 HELX_P HELX_P8 8 GLU A 161 ? PHE A 164 ? GLU A 171 PHE A 174 5 ? 4 HELX_P HELX_P9 9 ASN A 165 ? LYS A 177 ? ASN A 175 LYS A 187 1 ? 13 HELX_P HELX_P10 10 ASP A 178 ? ASP A 193 ? ASP A 188 ASP A 203 1 ? 16 HELX_P HELX_P11 11 ASP A 201 ? GLU A 232 ? ASP A 211 GLU A 242 1 ? 32 # _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 LEU 12 C ? ? ? 1_555 A MSE 13 N ? ? A LEU 22 A MSE 23 1_555 ? ? ? ? ? ? ? 1.334 ? covale2 covale ? ? A MSE 13 C ? ? ? 1_555 A ARG 14 N ? ? A MSE 23 A ARG 24 1_555 ? ? ? ? ? ? ? 1.335 ? covale3 covale ? ? A PRO 24 C ? ? ? 1_555 A MSE 25 N ? ? A PRO 34 A MSE 35 1_555 ? ? ? ? ? ? ? 1.331 ? covale4 covale ? ? A MSE 25 C ? ? ? 1_555 A VAL 26 N ? ? A MSE 35 A VAL 36 1_555 ? ? ? ? ? ? ? 1.332 ? covale5 covale ? ? A TYR 85 C ? ? ? 1_555 A MSE 86 N ? ? A TYR 95 A MSE 96 1_555 ? ? ? ? ? ? ? 1.331 ? covale6 covale ? ? A MSE 86 C ? ? ? 1_555 A VAL 87 N ? ? A MSE 96 A VAL 97 1_555 ? ? ? ? ? ? ? 1.330 ? covale7 covale ? ? A GLY 120 C ? ? ? 1_555 A MSE 121 N ? ? A GLY 130 A MSE 131 1_555 ? ? ? ? ? ? ? 1.332 ? covale8 covale ? ? A MSE 121 C ? ? ? 1_555 A ARG 122 N ? ? A MSE 131 A ARG 132 1_555 ? ? ? ? ? ? ? 1.334 ? covale9 covale ? ? A ILE 199 C ? ? ? 1_555 A MSE 200 N ? ? A ILE 209 A MSE 210 1_555 ? ? ? ? ? ? ? 1.323 ? covale10 covale ? ? A MSE 200 C ? ? ? 1_555 A ASP 201 N ? ? A MSE 210 A ASP 211 1_555 ? ? ? ? ? ? ? 1.331 ? covale11 covale ? ? A VAL 211 C ? ? ? 1_555 A MSE 212 N ? ? A VAL 221 A MSE 222 1_555 ? ? ? ? ? ? ? 1.335 ? covale12 covale ? ? A MSE 212 C ? ? ? 1_555 A ALA 213 N ? ? A MSE 222 A ALA 223 1_555 ? ? ? ? ? ? ? 1.332 ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # _struct_mon_prot_cis.pdbx_id 1 _struct_mon_prot_cis.label_comp_id SER _struct_mon_prot_cis.label_seq_id 1 _struct_mon_prot_cis.label_asym_id A _struct_mon_prot_cis.label_alt_id . _struct_mon_prot_cis.pdbx_PDB_ins_code ? _struct_mon_prot_cis.auth_comp_id SER _struct_mon_prot_cis.auth_seq_id 11 _struct_mon_prot_cis.auth_asym_id A _struct_mon_prot_cis.pdbx_label_comp_id_2 LEU _struct_mon_prot_cis.pdbx_label_seq_id_2 2 _struct_mon_prot_cis.pdbx_label_asym_id_2 A _struct_mon_prot_cis.pdbx_PDB_ins_code_2 ? _struct_mon_prot_cis.pdbx_auth_comp_id_2 LEU _struct_mon_prot_cis.pdbx_auth_seq_id_2 12 _struct_mon_prot_cis.pdbx_auth_asym_id_2 A _struct_mon_prot_cis.pdbx_PDB_model_num 1 _struct_mon_prot_cis.pdbx_omega_angle -9.48 # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 5 ? B ? 2 ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense A 1 2 ? anti-parallel A 2 3 ? parallel A 3 4 ? anti-parallel A 4 5 ? anti-parallel B 1 2 ? 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 26 ? LEU A 27 ? VAL A 36 LEU A 37 A 2 LEU A 46 ? CYS A 50 ? LEU A 56 CYS A 60 A 3 GLN A 98 ? TYR A 106 ? GLN A 108 TYR A 116 A 4 VAL A 82 ? THR A 91 ? VAL A 92 THR A 101 A 5 ILE A 68 ? ASP A 78 ? ILE A 78 ASP A 88 B 1 VAL A 115 ? ILE A 118 ? VAL A 125 ILE A 128 B 2 MSE A 121 ? ALA A 124 ? MSE A 131 ALA A 134 # loop_ _pdbx_struct_sheet_hbond.sheet_id _pdbx_struct_sheet_hbond.range_id_1 _pdbx_struct_sheet_hbond.range_id_2 _pdbx_struct_sheet_hbond.range_1_label_atom_id _pdbx_struct_sheet_hbond.range_1_label_comp_id _pdbx_struct_sheet_hbond.range_1_label_asym_id _pdbx_struct_sheet_hbond.range_1_label_seq_id _pdbx_struct_sheet_hbond.range_1_PDB_ins_code _pdbx_struct_sheet_hbond.range_1_auth_atom_id _pdbx_struct_sheet_hbond.range_1_auth_comp_id _pdbx_struct_sheet_hbond.range_1_auth_asym_id _pdbx_struct_sheet_hbond.range_1_auth_seq_id _pdbx_struct_sheet_hbond.range_2_label_atom_id _pdbx_struct_sheet_hbond.range_2_label_comp_id _pdbx_struct_sheet_hbond.range_2_label_asym_id _pdbx_struct_sheet_hbond.range_2_label_seq_id _pdbx_struct_sheet_hbond.range_2_PDB_ins_code _pdbx_struct_sheet_hbond.range_2_auth_atom_id _pdbx_struct_sheet_hbond.range_2_auth_comp_id _pdbx_struct_sheet_hbond.range_2_auth_asym_id _pdbx_struct_sheet_hbond.range_2_auth_seq_id A 1 2 N VAL A 26 ? N VAL A 36 O ASP A 49 ? O ASP A 59 A 2 3 N LEU A 46 ? N LEU A 56 O LYS A 101 ? O LYS A 111 A 3 4 O GLN A 98 ? O GLN A 108 N TYR A 89 ? N TYR A 99 A 4 5 O ALA A 90 ? O ALA A 100 N ILE A 69 ? N ILE A 79 B 1 2 N ASN A 116 ? N ASN A 126 O ILE A 123 ? O ILE A 133 # _atom_sites.entry_id 4O8S _atom_sites.fract_transf_matrix[1][1] 0.011104 _atom_sites.fract_transf_matrix[1][2] 0.006411 _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] 0.012822 _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] 0.014111 _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 SER 1 11 11 SER SER A . n A 1 2 LEU 2 12 12 LEU LEU A . n A 1 3 SER 3 13 13 SER SER A . n A 1 4 GLU 4 14 14 GLU GLU A . n A 1 5 GLN 5 15 15 GLN GLN A . n A 1 6 ALA 6 16 16 ALA ALA A . n A 1 7 LEU 7 17 17 LEU LEU A . n A 1 8 ASN 8 18 18 ASN ASN A . n A 1 9 HIS 9 19 19 HIS HIS A . n A 1 10 GLU 10 20 20 GLU GLU A . n A 1 11 LYS 11 21 21 LYS LYS A . n A 1 12 LEU 12 22 22 LEU LEU A . n A 1 13 MSE 13 23 23 MSE MSE A . n A 1 14 ARG 14 24 24 ARG ARG A . n A 1 15 ALA 15 25 25 ALA ALA A . n A 1 16 ILE 16 26 26 ILE ILE A . n A 1 17 VAL 17 27 27 VAL VAL A . n A 1 18 LYS 18 28 28 LYS LYS A . n A 1 19 ASN 19 29 29 ASN ASN A . n A 1 20 LEU 20 30 30 LEU LEU A . n A 1 21 ALA 21 31 31 ALA ALA A . n A 1 22 ASP 22 32 32 ASP ASP A . n A 1 23 THR 23 33 33 THR THR A . n A 1 24 PRO 24 34 34 PRO PRO A . n A 1 25 MSE 25 35 35 MSE MSE A . n A 1 26 VAL 26 36 36 VAL VAL A . n A 1 27 LEU 27 37 37 LEU LEU A . n A 1 28 LYS 28 38 38 LYS LYS A . n A 1 29 GLY 29 39 39 GLY GLY A . n A 1 30 GLU 30 40 40 GLU GLU A . n A 1 31 THR 31 41 41 THR THR A . n A 1 32 ALA 32 42 42 ALA ALA A . n A 1 33 LEU 33 43 43 LEU LEU A . n A 1 34 TYR 34 44 44 TYR TYR A . n A 1 35 LEU 35 45 45 LEU LEU A . n A 1 36 GLY 36 46 46 GLY GLY A . n A 1 37 TYR 37 47 47 TYR TYR A . n A 1 38 GLY 38 48 48 GLY GLY A . n A 1 39 LEU 39 49 49 LEU LEU A . n A 1 40 ASN 40 50 50 ASN ASN A . n A 1 41 ARG 41 51 51 ARG ARG A . n A 1 42 PHE 42 52 52 PHE PHE A . n A 1 43 SER 43 53 53 SER SER A . n A 1 44 GLU 44 54 54 GLU GLU A . n A 1 45 ASP 45 55 55 ASP ASP A . n A 1 46 LEU 46 56 56 LEU LEU A . n A 1 47 ASP 47 57 57 ASP ASP A . n A 1 48 PHE 48 58 58 PHE PHE A . n A 1 49 ASP 49 59 59 ASP ASP A . n A 1 50 CYS 50 60 60 CYS CYS A . n A 1 51 HIS 51 61 61 HIS HIS A . n A 1 52 LYS 52 62 62 LYS LYS A . n A 1 53 LYS 53 63 63 LYS LYS A . n A 1 54 ILE 54 64 64 ILE ILE A . n A 1 55 ASN 55 65 65 ASN ASN A . n A 1 56 LEU 56 66 66 LEU LEU A . n A 1 57 LEU 57 67 67 LEU LEU A . n A 1 58 GLY 58 68 68 GLY GLY A . n A 1 59 ARG 59 69 69 ARG ARG A . n A 1 60 VAL 60 70 70 VAL VAL A . n A 1 61 LYS 61 71 71 LYS LYS A . n A 1 62 SER 62 72 72 SER SER A . n A 1 63 ALA 63 73 73 ALA ALA A . n A 1 64 ILE 64 74 74 ILE ILE A . n A 1 65 PRO 65 75 75 PRO PRO A . n A 1 66 ASN 66 76 76 ASN ASN A . n A 1 67 GLY 67 77 77 GLY GLY A . n A 1 68 ILE 68 78 78 ILE ILE A . n A 1 69 ILE 69 79 79 ILE ILE A . n A 1 70 LEU 70 80 80 LEU LEU A . n A 1 71 ASN 71 81 81 ASN ASN A . n A 1 72 ASP 72 82 82 ASP ASP A . n A 1 73 ILE 73 83 83 ILE ILE A . n A 1 74 HIS 74 84 84 HIS HIS A . n A 1 75 ILE 75 85 85 ILE ILE A . n A 1 76 LYS 76 86 86 LYS LYS A . n A 1 77 LYS 77 87 87 LYS LYS A . n A 1 78 ASP 78 88 88 ASP ASP A . n A 1 79 THR 79 89 89 THR THR A . n A 1 80 ASP 80 90 90 ASP ASP A . n A 1 81 SER 81 91 91 SER SER A . n A 1 82 VAL 82 92 92 VAL VAL A . n A 1 83 GLY 83 93 93 GLY GLY A . n A 1 84 ARG 84 94 94 ARG ARG A . n A 1 85 TYR 85 95 95 TYR TYR A . n A 1 86 MSE 86 96 96 MSE MSE A . n A 1 87 VAL 87 97 97 VAL VAL A . n A 1 88 ARG 88 98 98 ARG ARG A . n A 1 89 TYR 89 99 99 TYR TYR A . n A 1 90 ALA 90 100 100 ALA ALA A . n A 1 91 THR 91 101 101 THR THR A . n A 1 92 LYS 92 102 102 LYS LYS A . n A 1 93 ASP 93 103 103 ASP ASP A . n A 1 94 ASN 94 104 104 ASN ASN A . n A 1 95 LYS 95 105 105 LYS LYS A . n A 1 96 GLU 96 106 106 GLU GLU A . n A 1 97 GLU 97 107 107 GLU GLU A . n A 1 98 GLN 98 108 108 GLN GLN A . n A 1 99 THR 99 109 109 THR THR A . n A 1 100 LEU 100 110 110 LEU LEU A . n A 1 101 LYS 101 111 111 LYS LYS A . n A 1 102 LEU 102 112 112 LEU LEU A . n A 1 103 GLU 103 113 113 GLU GLU A . n A 1 104 ILE 104 114 114 ILE ILE A . n A 1 105 SER 105 115 115 SER SER A . n A 1 106 TYR 106 116 116 TYR TYR A . n A 1 107 ARG 107 117 117 ARG ARG A . n A 1 108 ASP 108 118 118 ASP ASP A . n A 1 109 ALA 109 119 119 ALA ALA A . n A 1 110 PRO 110 120 120 PRO PRO A . n A 1 111 LYS 111 121 121 LYS LYS A . n A 1 112 GLU 112 122 122 GLU GLU A . n A 1 113 SER 113 123 123 SER SER A . n A 1 114 GLU 114 124 124 GLU GLU A . n A 1 115 VAL 115 125 125 VAL VAL A . n A 1 116 ASN 116 126 126 ASN ASN A . n A 1 117 VAL 117 127 127 VAL VAL A . n A 1 118 ILE 118 128 128 ILE ILE A . n A 1 119 GLU 119 129 129 GLU GLU A . n A 1 120 GLY 120 130 130 GLY GLY A . n A 1 121 MSE 121 131 131 MSE MSE A . n A 1 122 ARG 122 132 132 ARG ARG A . n A 1 123 ILE 123 133 133 ILE ILE A . n A 1 124 ALA 124 134 134 ALA ALA A . n A 1 125 LYS 125 135 135 LYS LYS A . n A 1 126 ILE 126 136 136 ILE ILE A . n A 1 127 GLU 127 137 137 GLU GLU A . n A 1 128 ARG 128 138 138 ARG ARG A . n A 1 129 ILE 129 139 139 ILE ILE A . n A 1 130 ILE 130 140 140 ILE ILE A . n A 1 131 ASP 131 141 141 ASP ASP A . n A 1 132 ASN 132 142 142 ASN ASN A . n A 1 133 LYS 133 143 143 LYS LYS A . n A 1 134 LEU 134 144 144 LEU LEU A . n A 1 135 CYS 135 145 145 CYS CYS A . n A 1 136 ALA 136 146 146 ALA ALA A . n A 1 137 CYS 137 147 147 CYS CYS A . n A 1 138 PHE 138 148 148 PHE PHE A . n A 1 139 ASP 139 149 149 ASP ASP A . n A 1 140 GLY 140 150 150 GLY GLY A . n A 1 141 GLU 141 151 151 GLU GLU A . n A 1 142 HIS 142 152 152 HIS HIS A . n A 1 143 THR 143 153 153 THR THR A . n A 1 144 ARG 144 154 154 ARG ARG A . n A 1 145 THR 145 155 155 THR THR A . n A 1 146 LYS 146 156 156 LYS LYS A . n A 1 147 ALA 147 157 157 ALA ALA A . n A 1 148 ARG 148 158 158 ARG ARG A . n A 1 149 ASP 149 159 159 ASP ASP A . n A 1 150 LEU 150 160 160 LEU LEU A . n A 1 151 PHE 151 161 161 PHE PHE A . n A 1 152 ASP 152 162 162 ASP ASP A . n A 1 153 LEU 153 163 163 LEU LEU A . n A 1 154 HIS 154 164 164 HIS HIS A . n A 1 155 PHE 155 165 165 PHE PHE A . n A 1 156 LEU 156 166 166 LEU LEU A . n A 1 157 ALA 157 167 167 ALA ALA A . n A 1 158 LYS 158 168 168 LYS LYS A . n A 1 159 HIS 159 169 169 HIS HIS A . n A 1 160 TYR 160 170 170 TYR TYR A . n A 1 161 GLU 161 171 171 GLU GLU A . n A 1 162 GLU 162 172 172 GLU GLU A . n A 1 163 HIS 163 173 173 HIS HIS A . n A 1 164 PHE 164 174 174 PHE PHE A . n A 1 165 ASN 165 175 175 ASN ASN A . n A 1 166 LEU 166 176 176 LEU LEU A . n A 1 167 ASP 167 177 177 ASP ASP A . n A 1 168 LEU 168 178 178 LEU LEU A . n A 1 169 ALA 169 179 179 ALA ALA A . n A 1 170 SER 170 180 180 SER SER A . n A 1 171 ARG 171 181 181 ARG ARG A . n A 1 172 LEU 172 182 182 LEU LEU A . n A 1 173 LYS 173 183 183 LYS LYS A . n A 1 174 ASP 174 184 184 ASP ASP A . n A 1 175 PHE 175 185 185 PHE PHE A . n A 1 176 SER 176 186 186 SER SER A . n A 1 177 LYS 177 187 187 LYS LYS A . n A 1 178 ASP 178 188 188 ASP ASP A . n A 1 179 PRO 179 189 189 PRO PRO A . n A 1 180 ASP 180 190 190 ASP ASP A . n A 1 181 LYS 181 191 191 LYS LYS A . n A 1 182 LEU 182 192 192 LEU LEU A . n A 1 183 VAL 183 193 193 VAL VAL A . n A 1 184 SER 184 194 194 SER SER A . n A 1 185 ASP 185 195 195 ASP ASP A . n A 1 186 TYR 186 196 196 TYR TYR A . n A 1 187 LEU 187 197 197 LEU LEU A . n A 1 188 VAL 188 198 198 VAL VAL A . n A 1 189 ASP 189 199 199 ASP ASP A . n A 1 190 VAL 190 200 200 VAL VAL A . n A 1 191 LYS 191 201 201 LYS LYS A . n A 1 192 LEU 192 202 202 LEU LEU A . n A 1 193 ASP 193 203 203 ASP ASP A . n A 1 194 ALA 194 204 204 ALA ALA A . n A 1 195 LEU 195 205 205 LEU LEU A . n A 1 196 LEU 196 206 206 LEU LEU A . n A 1 197 ASN 197 207 207 ASN ASN A . n A 1 198 GLN 198 208 208 GLN GLN A . n A 1 199 ILE 199 209 209 ILE ILE A . n A 1 200 MSE 200 210 210 MSE MSE A . n A 1 201 ASP 201 211 211 ASP ASP A . n A 1 202 LEU 202 212 212 LEU LEU A . n A 1 203 GLU 203 213 213 GLU GLU A . n A 1 204 GLU 204 214 214 GLU GLU A . n A 1 205 THR 205 215 215 THR THR A . n A 1 206 ALA 206 216 216 ALA ALA A . n A 1 207 LEU 207 217 217 LEU LEU A . n A 1 208 GLU 208 218 218 GLU GLU A . n A 1 209 LEU 209 219 219 LEU LEU A . n A 1 210 GLY 210 220 220 GLY GLY A . n A 1 211 VAL 211 221 221 VAL VAL A . n A 1 212 MSE 212 222 222 MSE MSE A . n A 1 213 ALA 213 223 223 ALA ALA A . n A 1 214 GLN 214 224 224 GLN GLN A . n A 1 215 LEU 215 225 225 LEU LEU A . n A 1 216 ILE 216 226 226 ILE ILE A . n A 1 217 HIS 217 227 227 HIS HIS A . n A 1 218 LYS 218 228 228 LYS LYS A . n A 1 219 LYS 219 229 229 LYS LYS A . n A 1 220 LEU 220 230 230 LEU LEU A . n A 1 221 GLU 221 231 231 GLU GLU A . n A 1 222 LYS 222 232 232 LYS LYS A . n A 1 223 GLN 223 233 233 GLN GLN A . n A 1 224 SER 224 234 234 SER SER A . n A 1 225 HIS 225 235 235 HIS HIS A . n A 1 226 SER 226 236 236 SER SER A . n A 1 227 LEU 227 237 237 LEU LEU A . n A 1 228 ASN 228 238 238 ASN ASN A . n A 1 229 ALA 229 239 239 ALA ALA A . n A 1 230 LEU 230 240 240 LEU LEU A . n A 1 231 GLN 231 241 241 GLN GLN A . n A 1 232 GLU 232 242 242 GLU GLU A . n # 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 13 A MSE 23 ? MET SELENOMETHIONINE 2 A MSE 25 A MSE 35 ? MET SELENOMETHIONINE 3 A MSE 86 A MSE 96 ? MET SELENOMETHIONINE 4 A MSE 121 A MSE 131 ? MET SELENOMETHIONINE 5 A MSE 200 A MSE 210 ? MET SELENOMETHIONINE 6 A MSE 212 A MSE 222 ? MET SELENOMETHIONINE # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # _pdbx_audit_revision_history.ordinal 1 _pdbx_audit_revision_history.data_content_type 'Structure model' _pdbx_audit_revision_history.major_revision 1 _pdbx_audit_revision_history.minor_revision 0 _pdbx_audit_revision_history.revision_date 2014-09-10 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? # loop_ _software.pdbx_ordinal _software.name _software.version _software.date _software.type _software.contact_author _software.contact_author_email _software.classification _software.location _software.language _software.citation_id 1 SCALEPACK . ? program 'Zbyszek Otwinowski' hkl@hkl-xray.com 'data scaling' http://www.hkl-xray.com/ ? ? 2 PHENIX 1.7.3_928 ? package 'Paul D. Adams' PDAdams@lbl.gov refinement http://www.phenix-online.org/ C++ ? 3 PDB_EXTRACT 3.14 'Dec. 10, 2013' package PDB deposit@deposit.rcsb.org 'data extraction' http://sw-tools.pdb.org/apps/PDB_EXTRACT/ C++ ? 4 HKL-2000 . ? ? ? ? 'data collection' ? ? ? 5 HKL-2000 . ? ? ? ? 'data reduction' ? ? ? 6 PHENIX . ? ? ? ? phasing ? ? ? # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 O A GLU 124 ? ? O A HOH 311 ? ? 1.90 2 1 OD1 A ASP 57 ? ? O A HOH 352 ? ? 2.01 3 1 O A HOH 375 ? ? O A HOH 376 ? ? 2.10 4 1 NH2 A ARG 117 ? ? O A HOH 375 ? ? 2.15 5 1 OE2 A GLU 113 ? ? O A HOH 328 ? ? 2.16 # 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 117 ? ? 49.23 21.06 2 1 PHE A 148 ? ? -136.63 -57.28 # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 HOH 1 301 1 HOH HOH A . B 2 HOH 2 302 2 HOH HOH A . B 2 HOH 3 303 3 HOH HOH A . B 2 HOH 4 304 4 HOH HOH A . B 2 HOH 5 305 5 HOH HOH A . B 2 HOH 6 306 6 HOH HOH A . B 2 HOH 7 307 7 HOH HOH A . B 2 HOH 8 308 8 HOH HOH A . B 2 HOH 9 309 9 HOH HOH A . B 2 HOH 10 310 10 HOH HOH A . B 2 HOH 11 311 11 HOH HOH A . B 2 HOH 12 312 12 HOH HOH A . B 2 HOH 13 313 13 HOH HOH A . B 2 HOH 14 314 14 HOH HOH A . B 2 HOH 15 315 15 HOH HOH A . B 2 HOH 16 316 16 HOH HOH A . B 2 HOH 17 317 17 HOH HOH A . B 2 HOH 18 318 18 HOH HOH A . B 2 HOH 19 319 19 HOH HOH A . B 2 HOH 20 320 20 HOH HOH A . B 2 HOH 21 321 21 HOH HOH A . B 2 HOH 22 322 22 HOH HOH A . B 2 HOH 23 323 23 HOH HOH A . B 2 HOH 24 324 24 HOH HOH A . B 2 HOH 25 325 25 HOH HOH A . B 2 HOH 26 326 26 HOH HOH A . B 2 HOH 27 327 27 HOH HOH A . B 2 HOH 28 328 28 HOH HOH A . B 2 HOH 29 329 29 HOH HOH A . B 2 HOH 30 330 30 HOH HOH A . B 2 HOH 31 331 31 HOH HOH A . B 2 HOH 32 332 32 HOH HOH A . B 2 HOH 33 333 33 HOH HOH A . B 2 HOH 34 334 34 HOH HOH A . B 2 HOH 35 335 35 HOH HOH A . B 2 HOH 36 336 36 HOH HOH A . B 2 HOH 37 337 37 HOH HOH A . B 2 HOH 38 338 38 HOH HOH A . B 2 HOH 39 339 39 HOH HOH A . B 2 HOH 40 340 40 HOH HOH A . B 2 HOH 41 341 41 HOH HOH A . B 2 HOH 42 342 42 HOH HOH A . B 2 HOH 43 343 43 HOH HOH A . B 2 HOH 44 344 44 HOH HOH A . B 2 HOH 45 345 45 HOH HOH A . B 2 HOH 46 346 46 HOH HOH A . B 2 HOH 47 347 47 HOH HOH A . B 2 HOH 48 348 48 HOH HOH A . B 2 HOH 49 349 49 HOH HOH A . B 2 HOH 50 350 50 HOH HOH A . B 2 HOH 51 351 51 HOH HOH A . B 2 HOH 52 352 52 HOH HOH A . B 2 HOH 53 353 53 HOH HOH A . B 2 HOH 54 354 54 HOH HOH A . B 2 HOH 55 355 55 HOH HOH A . B 2 HOH 56 356 56 HOH HOH A . B 2 HOH 57 357 57 HOH HOH A . B 2 HOH 58 358 58 HOH HOH A . B 2 HOH 59 359 59 HOH HOH A . B 2 HOH 60 360 60 HOH HOH A . B 2 HOH 61 361 61 HOH HOH A . B 2 HOH 62 362 62 HOH HOH A . B 2 HOH 63 363 63 HOH HOH A . B 2 HOH 64 364 64 HOH HOH A . B 2 HOH 65 365 65 HOH HOH A . B 2 HOH 66 366 66 HOH HOH A . B 2 HOH 67 367 67 HOH HOH A . B 2 HOH 68 368 68 HOH HOH A . B 2 HOH 69 369 69 HOH HOH A . B 2 HOH 70 370 70 HOH HOH A . B 2 HOH 71 371 71 HOH HOH A . B 2 HOH 72 372 72 HOH HOH A . B 2 HOH 73 373 73 HOH HOH A . B 2 HOH 74 374 74 HOH HOH A . B 2 HOH 75 375 75 HOH HOH A . B 2 HOH 76 376 76 HOH HOH A . #