data_2R5R # _entry.id 2R5R # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.279 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 2R5R RCSB RCSB044459 WWPDB D_1000044459 # _pdbx_database_related.db_name TargetDB _pdbx_database_related.db_id APC86493 _pdbx_database_related.details . _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 2R5R _pdbx_database_status.recvd_initial_deposition_date 2007-09-04 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry Y _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Tan, K.' 1 'Wu, R.' 2 'Nocek, B.' 3 'Bigelow, L.' 4 'Patterson, S.' 5 'Freeman, L.' 6 'Bargassa, M.' 7 'Joachimiak, A.' 8 'Midwest Center for Structural Genomics (MCSG)' 9 # _citation.id primary _citation.title 'The crystal structure of DUF198 from Nitrosomonas europaea ATCC 19718.' _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 'Tan, K.' 1 primary 'Wu, R.' 2 primary 'Nocek, B.' 3 primary 'Bigelow, L.' 4 primary 'Patterson, S.' 5 primary 'Freeman, L.' 6 primary 'Bargassa, M.' 7 primary 'Joachimiak, A.' 8 # _cell.entry_id 2R5R _cell.length_a 118.705 _cell.length_b 118.705 _cell.length_c 113.210 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 12 _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 2R5R _symmetry.space_group_name_H-M 'P 64 2 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 181 _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 'UPF0343 protein NE1163' 31201.350 1 ? ? ? ? 2 non-polymer syn 'PHOSPHATE ION' 94.971 1 ? ? ? ? 3 non-polymer syn IMIDAZOLE 69.085 1 ? ? ? ? # _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 ;SNA(MSE)NKQIDLPIADVQGSLDTRHIAIDRVGIKAIRHPVVVADKGGGSQHTVAQFN(MSE)YVNLPHNFKGTH (MSE)SRFVEILNSHEREISVESFEEILRS(MSE)VSRLESDSGHIE(MSE)AFPYFINKSAPVSGVKSLLDYEVTFIGE IKHGNQYSFT(MSE)KVIVPVTSLCPCSKKISDYGAHNQRSHVTISVRTNSFIWIEDIIRIAEEQASCELYGLLKRPDEK YVTERAYNNPKFVEDIVRDVAEVLNHDDRIDAYIVESENFESIHNHSAYALIERDKRIR ; _entity_poly.pdbx_seq_one_letter_code_can ;SNAMNKQIDLPIADVQGSLDTRHIAIDRVGIKAIRHPVVVADKGGGSQHTVAQFNMYVNLPHNFKGTHMSRFVEILNSHE REISVESFEEILRSMVSRLESDSGHIEMAFPYFINKSAPVSGVKSLLDYEVTFIGEIKHGNQYSFTMKVIVPVTSLCPCS KKISDYGAHNQRSHVTISVRTNSFIWIEDIIRIAEEQASCELYGLLKRPDEKYVTERAYNNPKFVEDIVRDVAEVLNHDD RIDAYIVESENFESIHNHSAYALIERDKRIR ; _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier APC86493 # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 SER n 1 2 ASN n 1 3 ALA n 1 4 MSE n 1 5 ASN n 1 6 LYS n 1 7 GLN n 1 8 ILE n 1 9 ASP n 1 10 LEU n 1 11 PRO n 1 12 ILE n 1 13 ALA n 1 14 ASP n 1 15 VAL n 1 16 GLN n 1 17 GLY n 1 18 SER n 1 19 LEU n 1 20 ASP n 1 21 THR n 1 22 ARG n 1 23 HIS n 1 24 ILE n 1 25 ALA n 1 26 ILE n 1 27 ASP n 1 28 ARG n 1 29 VAL n 1 30 GLY n 1 31 ILE n 1 32 LYS n 1 33 ALA n 1 34 ILE n 1 35 ARG n 1 36 HIS n 1 37 PRO n 1 38 VAL n 1 39 VAL n 1 40 VAL n 1 41 ALA n 1 42 ASP n 1 43 LYS n 1 44 GLY n 1 45 GLY n 1 46 GLY n 1 47 SER n 1 48 GLN n 1 49 HIS n 1 50 THR n 1 51 VAL n 1 52 ALA n 1 53 GLN n 1 54 PHE n 1 55 ASN n 1 56 MSE n 1 57 TYR n 1 58 VAL n 1 59 ASN n 1 60 LEU n 1 61 PRO n 1 62 HIS n 1 63 ASN n 1 64 PHE n 1 65 LYS n 1 66 GLY n 1 67 THR n 1 68 HIS n 1 69 MSE n 1 70 SER n 1 71 ARG n 1 72 PHE n 1 73 VAL n 1 74 GLU n 1 75 ILE n 1 76 LEU n 1 77 ASN n 1 78 SER n 1 79 HIS n 1 80 GLU n 1 81 ARG n 1 82 GLU n 1 83 ILE n 1 84 SER n 1 85 VAL n 1 86 GLU n 1 87 SER n 1 88 PHE n 1 89 GLU n 1 90 GLU n 1 91 ILE n 1 92 LEU n 1 93 ARG n 1 94 SER n 1 95 MSE n 1 96 VAL n 1 97 SER n 1 98 ARG n 1 99 LEU n 1 100 GLU n 1 101 SER n 1 102 ASP n 1 103 SER n 1 104 GLY n 1 105 HIS n 1 106 ILE n 1 107 GLU n 1 108 MSE n 1 109 ALA n 1 110 PHE n 1 111 PRO n 1 112 TYR n 1 113 PHE n 1 114 ILE n 1 115 ASN n 1 116 LYS n 1 117 SER n 1 118 ALA n 1 119 PRO n 1 120 VAL n 1 121 SER n 1 122 GLY n 1 123 VAL n 1 124 LYS n 1 125 SER n 1 126 LEU n 1 127 LEU n 1 128 ASP n 1 129 TYR n 1 130 GLU n 1 131 VAL n 1 132 THR n 1 133 PHE n 1 134 ILE n 1 135 GLY n 1 136 GLU n 1 137 ILE n 1 138 LYS n 1 139 HIS n 1 140 GLY n 1 141 ASN n 1 142 GLN n 1 143 TYR n 1 144 SER n 1 145 PHE n 1 146 THR n 1 147 MSE n 1 148 LYS n 1 149 VAL n 1 150 ILE n 1 151 VAL n 1 152 PRO n 1 153 VAL n 1 154 THR n 1 155 SER n 1 156 LEU n 1 157 CYS n 1 158 PRO n 1 159 CYS n 1 160 SER n 1 161 LYS n 1 162 LYS n 1 163 ILE n 1 164 SER n 1 165 ASP n 1 166 TYR n 1 167 GLY n 1 168 ALA n 1 169 HIS n 1 170 ASN n 1 171 GLN n 1 172 ARG n 1 173 SER n 1 174 HIS n 1 175 VAL n 1 176 THR n 1 177 ILE n 1 178 SER n 1 179 VAL n 1 180 ARG n 1 181 THR n 1 182 ASN n 1 183 SER n 1 184 PHE n 1 185 ILE n 1 186 TRP n 1 187 ILE n 1 188 GLU n 1 189 ASP n 1 190 ILE n 1 191 ILE n 1 192 ARG n 1 193 ILE n 1 194 ALA n 1 195 GLU n 1 196 GLU n 1 197 GLN n 1 198 ALA n 1 199 SER n 1 200 CYS n 1 201 GLU n 1 202 LEU n 1 203 TYR n 1 204 GLY n 1 205 LEU n 1 206 LEU n 1 207 LYS n 1 208 ARG n 1 209 PRO n 1 210 ASP n 1 211 GLU n 1 212 LYS n 1 213 TYR n 1 214 VAL n 1 215 THR n 1 216 GLU n 1 217 ARG n 1 218 ALA n 1 219 TYR n 1 220 ASN n 1 221 ASN n 1 222 PRO n 1 223 LYS n 1 224 PHE n 1 225 VAL n 1 226 GLU n 1 227 ASP n 1 228 ILE n 1 229 VAL n 1 230 ARG n 1 231 ASP n 1 232 VAL n 1 233 ALA n 1 234 GLU n 1 235 VAL n 1 236 LEU n 1 237 ASN n 1 238 HIS n 1 239 ASP n 1 240 ASP n 1 241 ARG n 1 242 ILE n 1 243 ASP n 1 244 ALA n 1 245 TYR n 1 246 ILE n 1 247 VAL n 1 248 GLU n 1 249 SER n 1 250 GLU n 1 251 ASN n 1 252 PHE n 1 253 GLU n 1 254 SER n 1 255 ILE n 1 256 HIS n 1 257 ASN n 1 258 HIS n 1 259 SER n 1 260 ALA n 1 261 TYR n 1 262 ALA n 1 263 LEU n 1 264 ILE n 1 265 GLU n 1 266 ARG n 1 267 ASP n 1 268 LYS n 1 269 ARG n 1 270 ILE n 1 271 ARG 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 Nitrosomonas _entity_src_gen.pdbx_gene_src_gene NE1163 _entity_src_gen.gene_src_species 'Nitrosomonas europaea' _entity_src_gen.gene_src_strain 'IFO 14298' _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 'Nitrosomonas europaea ATCC 19718' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 228410 _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 BL21' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 511693 _entity_src_gen.host_org_genus Escherichia _entity_src_gen.pdbx_host_org_gene ? _entity_src_gen.pdbx_host_org_organ ? _entity_src_gen.host_org_species 'Escherichia coli' _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 pMCSG7 _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code Y1163_NITEU _struct_ref.pdbx_db_accession Q82VD1 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;MNKQIDLPIADVQGSLDTRHIAIDRVGIKAIRHPVVVADKGGGSQHTVAQFNMYVNLPHNFKGTHMSRFVEILNSHEREI SVESFEEILRSMVSRLESDSGHIEMAFPYFINKSAPVSGVKSLLDYEVTFIGEIKHGNQYSFTMKVIVPVTSLCPCSKKI SDYGAHNQRSHVTISVRTNSFIWIEDIIRIAEEQASCELYGLLKRPDEKYVTERAYNNPKFVEDIVRDVAEVLNHDDRID AYIVESENFESIHNHSAYALIERDKRIR ; _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 2R5R _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 4 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 271 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q82VD1 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 268 _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 268 # 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 2R5R SER A 1 ? UNP Q82VD1 ? ? 'EXPRESSION TAG' -2 1 1 2R5R ASN A 2 ? UNP Q82VD1 ? ? 'EXPRESSION TAG' -1 2 1 2R5R ALA A 3 ? UNP Q82VD1 ? ? 'EXPRESSION TAG' 0 3 # 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 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 IMD non-polymer . IMIDAZOLE ? 'C3 H5 N2 1' 69.085 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 PO4 non-polymer . 'PHOSPHATE ION' ? 'O4 P -3' 94.971 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TRP 'L-peptide linking' y TRYPTOPHAN ? 'C11 H12 N2 O2' 204.225 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # _exptl.entry_id 2R5R _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 3.69 _exptl_crystal.density_percent_sol 66.66 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.temp 289 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 4.2 _exptl_crystal_grow.pdbx_details '1.6M NaH2PO4/0.4M K2HPO4, 0.1M Phosphate-Citrate, pH 4.2, VAPOR DIFFUSION, SITTING DROP, temperature 289K' _exptl_crystal_grow.pdbx_pH_range . # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'ADSC QUANTUM 315' _diffrn_detector.pdbx_collection_date 2007-07-30 _diffrn_detector.details mirror # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator 'Si 111 crystal' _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 0.97951 1.0 2 0.97965 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'APS BEAMLINE 19-ID' _diffrn_source.pdbx_synchrotron_site APS _diffrn_source.pdbx_synchrotron_beamline 19-ID _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list '0.97951, 0.97965' # _reflns.entry_id 2R5R _reflns.observed_criterion_sigma_F 0 _reflns.observed_criterion_sigma_I 0 _reflns.d_resolution_high 3.05 _reflns.d_resolution_low 38.87 _reflns.number_all 9363 _reflns.number_obs 9363 _reflns.percent_possible_obs 99.1 _reflns.pdbx_Rmerge_I_obs 0.151 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 17.4 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 9.9 _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 3.05 _reflns_shell.d_res_low 3.16 _reflns_shell.percent_possible_all 93.6 _reflns_shell.Rmerge_I_obs 0.847 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 1.6 _reflns_shell.pdbx_redundancy 7.9 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 846 _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 2R5R _refine.ls_number_reflns_obs 8890 _refine.ls_number_reflns_all 8890 _refine.pdbx_ls_sigma_I 0 _refine.pdbx_ls_sigma_F 0 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 38.87 _refine.ls_d_res_high 3.05 _refine.ls_percent_reflns_obs 99.10 _refine.ls_R_factor_obs 0.24007 _refine.ls_R_factor_all 0.24007 _refine.ls_R_factor_R_work 0.23905 _refine.ls_R_factor_R_free 0.26052 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 4.8 _refine.ls_number_reflns_R_free 445 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.915 _refine.correlation_coeff_Fo_to_Fc_free 0.902 _refine.B_iso_mean 74.918 _refine.aniso_B[1][1] -0.16 _refine.aniso_B[2][2] -0.16 _refine.aniso_B[3][3] 0.24 _refine.aniso_B[1][2] -0.08 _refine.aniso_B[1][3] 0.00 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details MASK _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.20 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS' _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct 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 1.083 _refine.pdbx_overall_ESU_R_Free 0.383 _refine.overall_SU_ML 0.307 _refine.overall_SU_B 17.744 _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 1978 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 10 _refine_hist.number_atoms_solvent 0 _refine_hist.number_atoms_total 1988 _refine_hist.d_res_high 3.05 _refine_hist.d_res_low 38.87 # 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 0.006 0.022 ? 2030 'X-RAY DIFFRACTION' ? r_bond_other_d ? ? ? ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1.007 1.938 ? 2744 'X-RAY DIFFRACTION' ? r_angle_other_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 5.342 5.000 ? 245 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 33.963 23.824 ? 102 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 18.022 15.000 ? 353 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 17.250 15.000 ? 14 'X-RAY DIFFRACTION' ? r_chiral_restr 0.076 0.200 ? 302 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.002 0.020 ? 1544 'X-RAY DIFFRACTION' ? r_gen_planes_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbd_refined 0.190 0.200 ? 891 'X-RAY DIFFRACTION' ? r_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_refined 0.297 0.200 ? 1402 'X-RAY DIFFRACTION' ? r_nbtor_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 0.127 0.200 ? 50 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined 0.151 0.200 ? 80 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 0.037 0.200 ? 5 'X-RAY DIFFRACTION' ? r_symmetry_hbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcbond_it 0.419 1.500 ? 1258 'X-RAY DIFFRACTION' ? r_mcbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcangle_it 0.751 2.000 ? 1997 'X-RAY DIFFRACTION' ? r_scbond_it 0.559 3.000 ? 854 'X-RAY DIFFRACTION' ? r_scangle_it 1.011 4.500 ? 747 'X-RAY DIFFRACTION' ? r_rigid_bond_restr ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_free ? ? ? ? 'X-RAY DIFFRACTION' ? r_sphericity_bonded ? ? ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 3.05 _refine_ls_shell.d_res_low 3.13 _refine_ls_shell.number_reflns_R_work 578 _refine_ls_shell.R_factor_R_work 0.352 _refine_ls_shell.percent_reflns_obs 91.49 _refine_ls_shell.R_factor_R_free 0.404 _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.number_reflns_obs 613 _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 2R5R _struct.title 'The crystal structure of DUF198 from Nitrosomonas europaea ATCC 19718' _struct.pdbx_descriptor 'UPF0343 protein NE1163' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2R5R _struct_keywords.pdbx_keywords 'STRUCTURAL GENOMICS, UNKNOWN FUNCTION' _struct_keywords.text ;APC86493, DUF198, Nitrosomonas europaea ATCC 19718, structural genomics, PSI-2, Protein Structure Initiative, Midwest Center for Structural Genomics, MCSG, UNKNOWN FUNCTION ; # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? C N N 3 ? # _struct_biol.id 1 _struct_biol.details ;Authors state that the biological unit is experimentally unknown. From molecular packing, it seems to be a tetramer, generated from symmetry operators given in remark 350. ; # 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 65 ? MSE A 69 ? LYS A 62 MSE A 66 5 ? 5 HELX_P HELX_P2 2 SER A 70 ? HIS A 79 ? SER A 67 HIS A 76 1 ? 10 HELX_P HELX_P3 3 SER A 87 ? LEU A 99 ? SER A 84 LEU A 96 1 ? 13 HELX_P HELX_P4 4 CYS A 157 ? SER A 164 ? CYS A 154 SER A 161 1 ? 8 HELX_P HELX_P5 5 TRP A 186 ? ALA A 198 ? TRP A 183 ALA A 195 1 ? 13 HELX_P HELX_P6 6 LYS A 207 ? ASN A 220 ? LYS A 204 ASN A 217 1 ? 14 HELX_P HELX_P7 7 PHE A 224 ? HIS A 238 ? PHE A 221 HIS A 235 1 ? 15 # _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 ASN 55 C ? ? ? 1_555 A MSE 56 N ? ? A ASN 52 A MSE 53 1_555 ? ? ? ? ? ? ? 1.330 ? covale2 covale ? ? A MSE 56 C ? ? ? 1_555 A TYR 57 N ? ? A MSE 53 A TYR 54 1_555 ? ? ? ? ? ? ? 1.328 ? covale3 covale ? ? A HIS 68 C ? ? ? 1_555 A MSE 69 N ? ? A HIS 65 A MSE 66 1_555 ? ? ? ? ? ? ? 1.331 ? covale4 covale ? ? A MSE 69 C ? ? ? 1_555 A SER 70 N ? ? A MSE 66 A SER 67 1_555 ? ? ? ? ? ? ? 1.333 ? covale5 covale ? ? A SER 94 C ? ? ? 1_555 A MSE 95 N ? ? A SER 91 A MSE 92 1_555 ? ? ? ? ? ? ? 1.326 ? covale6 covale ? ? A MSE 95 C ? ? ? 1_555 A VAL 96 N ? ? A MSE 92 A VAL 93 1_555 ? ? ? ? ? ? ? 1.331 ? covale7 covale ? ? A GLU 107 C ? ? ? 1_555 A MSE 108 N ? ? A GLU 104 A MSE 105 1_555 ? ? ? ? ? ? ? 1.325 ? covale8 covale ? ? A MSE 108 C ? ? ? 1_555 A ALA 109 N ? ? A MSE 105 A ALA 106 1_555 ? ? ? ? ? ? ? 1.331 ? covale9 covale ? ? A THR 146 C ? ? ? 1_555 A MSE 147 N ? ? A THR 143 A MSE 144 1_555 ? ? ? ? ? ? ? 1.328 ? covale10 covale ? ? A MSE 147 C ? ? ? 1_555 A LYS 148 N ? ? A MSE 144 A LYS 145 1_555 ? ? ? ? ? ? ? 1.327 ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 7 ? B ? 9 ? # 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 ? parallel A 2 3 ? anti-parallel A 3 4 ? anti-parallel A 4 5 ? anti-parallel A 5 6 ? anti-parallel A 6 7 ? anti-parallel B 1 2 ? parallel B 2 3 ? anti-parallel B 3 4 ? anti-parallel B 4 5 ? anti-parallel B 5 6 ? anti-parallel B 6 7 ? anti-parallel B 7 8 ? anti-parallel B 8 9 ? 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 ILE A 83 ? SER A 84 ? ILE A 80 SER A 81 A 2 ARG A 28 ? VAL A 40 ? ARG A 25 VAL A 37 A 3 GLN A 48 ? ASN A 59 ? GLN A 45 ASN A 56 A 4 SER A 103 ? SER A 117 ? SER A 100 SER A 114 A 5 LYS A 124 ? LYS A 138 ? LYS A 121 LYS A 135 A 6 GLN A 142 ? LEU A 156 ? GLN A 139 LEU A 153 A 7 CYS A 200 ? GLU A 201 ? CYS A 197 GLU A 198 B 1 ILE A 83 ? SER A 84 ? ILE A 80 SER A 81 B 2 ARG A 28 ? VAL A 40 ? ARG A 25 VAL A 37 B 3 GLN A 48 ? ASN A 59 ? GLN A 45 ASN A 56 B 4 SER A 103 ? SER A 117 ? SER A 100 SER A 114 B 5 LYS A 124 ? LYS A 138 ? LYS A 121 LYS A 135 B 6 GLN A 142 ? LEU A 156 ? GLN A 139 LEU A 153 B 7 ASN A 170 ? THR A 181 ? ASN A 167 THR A 178 B 8 ILE A 242 ? PHE A 252 ? ILE A 239 PHE A 249 B 9 SER A 259 ? ASP A 267 ? SER A 256 ASP A 264 # 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 O ILE A 83 ? O ILE A 80 N PRO A 37 ? N PRO A 34 A 2 3 N VAL A 40 ? N VAL A 37 O GLN A 48 ? O GLN A 45 A 3 4 N GLN A 53 ? N GLN A 50 O ALA A 109 ? O ALA A 106 A 4 5 N PHE A 110 ? N PHE A 107 O VAL A 131 ? O VAL A 128 A 5 6 N ILE A 134 ? N ILE A 131 O THR A 146 ? O THR A 143 A 6 7 N THR A 154 ? N THR A 151 O CYS A 200 ? O CYS A 197 B 1 2 O ILE A 83 ? O ILE A 80 N PRO A 37 ? N PRO A 34 B 2 3 N VAL A 40 ? N VAL A 37 O GLN A 48 ? O GLN A 45 B 3 4 N GLN A 53 ? N GLN A 50 O ALA A 109 ? O ALA A 106 B 4 5 N PHE A 110 ? N PHE A 107 O VAL A 131 ? O VAL A 128 B 5 6 N ILE A 134 ? N ILE A 131 O THR A 146 ? O THR A 143 B 6 7 N VAL A 153 ? N VAL A 150 O SER A 173 ? O SER A 170 B 7 8 N THR A 176 ? N THR A 173 O GLU A 248 ? O GLU A 245 B 8 9 N VAL A 247 ? N VAL A 244 O ILE A 264 ? O ILE A 261 # 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 ? ? ? ? 7 'BINDING SITE FOR RESIDUE PO4 A 269' AC2 Software ? ? ? ? 3 'BINDING SITE FOR RESIDUE IMD A 270' # 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 7 PHE A 64 ? PHE A 61 . ? 7_556 ? 2 AC1 7 LYS A 65 ? LYS A 62 . ? 7_556 ? 3 AC1 7 GLY A 66 ? GLY A 63 . ? 7_556 ? 4 AC1 7 PHE A 224 ? PHE A 221 . ? 1_555 ? 5 AC1 7 GLU A 226 ? GLU A 223 . ? 1_555 ? 6 AC1 7 ASP A 227 ? ASP A 224 . ? 1_555 ? 7 AC1 7 ARG A 230 ? ARG A 227 . ? 1_555 ? 8 AC2 3 PHE A 184 ? PHE A 181 . ? 1_555 ? 9 AC2 3 ILE A 185 ? ILE A 182 . ? 1_555 ? 10 AC2 3 ILE A 187 ? ILE A 184 . ? 1_555 ? # _database_PDB_matrix.entry_id 2R5R _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 2R5R _atom_sites.fract_transf_matrix[1][1] 0.008424 _atom_sites.fract_transf_matrix[1][2] 0.004864 _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] 0.009727 _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] 0.008833 _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 P 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 -2 ? ? ? A . n A 1 2 ASN 2 -1 ? ? ? A . n A 1 3 ALA 3 0 ? ? ? A . n A 1 4 MSE 4 1 ? ? ? A . n A 1 5 ASN 5 2 ? ? ? A . n A 1 6 LYS 6 3 ? ? ? A . n A 1 7 GLN 7 4 ? ? ? A . n A 1 8 ILE 8 5 ? ? ? A . n A 1 9 ASP 9 6 ? ? ? A . n A 1 10 LEU 10 7 ? ? ? A . n A 1 11 PRO 11 8 ? ? ? A . n A 1 12 ILE 12 9 ? ? ? A . n A 1 13 ALA 13 10 ? ? ? A . n A 1 14 ASP 14 11 ? ? ? A . n A 1 15 VAL 15 12 ? ? ? A . n A 1 16 GLN 16 13 ? ? ? A . n A 1 17 GLY 17 14 ? ? ? A . n A 1 18 SER 18 15 ? ? ? A . n A 1 19 LEU 19 16 ? ? ? A . n A 1 20 ASP 20 17 ? ? ? A . n A 1 21 THR 21 18 ? ? ? A . n A 1 22 ARG 22 19 ? ? ? A . n A 1 23 HIS 23 20 20 HIS HIS A . n A 1 24 ILE 24 21 21 ILE ILE A . n A 1 25 ALA 25 22 22 ALA ALA A . n A 1 26 ILE 26 23 23 ILE ILE A . n A 1 27 ASP 27 24 24 ASP ASP A . n A 1 28 ARG 28 25 25 ARG ARG A . n A 1 29 VAL 29 26 26 VAL VAL A . n A 1 30 GLY 30 27 27 GLY GLY A . n A 1 31 ILE 31 28 28 ILE ILE A . n A 1 32 LYS 32 29 29 LYS LYS A . n A 1 33 ALA 33 30 30 ALA ALA A . n A 1 34 ILE 34 31 31 ILE ILE A . n A 1 35 ARG 35 32 32 ARG ARG A . n A 1 36 HIS 36 33 33 HIS HIS A . n A 1 37 PRO 37 34 34 PRO PRO A . n A 1 38 VAL 38 35 35 VAL VAL A . n A 1 39 VAL 39 36 36 VAL VAL A . n A 1 40 VAL 40 37 37 VAL VAL A . n A 1 41 ALA 41 38 38 ALA ALA A . n A 1 42 ASP 42 39 39 ASP ASP A . n A 1 43 LYS 43 40 40 LYS LYS A . n A 1 44 GLY 44 41 41 GLY GLY A . n A 1 45 GLY 45 42 42 GLY GLY A . n A 1 46 GLY 46 43 43 GLY GLY A . n A 1 47 SER 47 44 44 SER SER A . n A 1 48 GLN 48 45 45 GLN GLN A . n A 1 49 HIS 49 46 46 HIS HIS A . n A 1 50 THR 50 47 47 THR THR A . n A 1 51 VAL 51 48 48 VAL VAL A . n A 1 52 ALA 52 49 49 ALA ALA A . n A 1 53 GLN 53 50 50 GLN GLN A . n A 1 54 PHE 54 51 51 PHE PHE A . n A 1 55 ASN 55 52 52 ASN ASN A . n A 1 56 MSE 56 53 53 MSE MSE A . n A 1 57 TYR 57 54 54 TYR TYR A . n A 1 58 VAL 58 55 55 VAL VAL A . n A 1 59 ASN 59 56 56 ASN ASN A . n A 1 60 LEU 60 57 57 LEU LEU A . n A 1 61 PRO 61 58 58 PRO PRO A . n A 1 62 HIS 62 59 59 HIS HIS A . n A 1 63 ASN 63 60 60 ASN ASN A . n A 1 64 PHE 64 61 61 PHE PHE A . n A 1 65 LYS 65 62 62 LYS LYS A . n A 1 66 GLY 66 63 63 GLY GLY A . n A 1 67 THR 67 64 64 THR THR A . n A 1 68 HIS 68 65 65 HIS HIS A . n A 1 69 MSE 69 66 66 MSE MSE A . n A 1 70 SER 70 67 67 SER SER A . n A 1 71 ARG 71 68 68 ARG ARG A . n A 1 72 PHE 72 69 69 PHE PHE A . n A 1 73 VAL 73 70 70 VAL VAL A . n A 1 74 GLU 74 71 71 GLU GLU A . n A 1 75 ILE 75 72 72 ILE ILE A . n A 1 76 LEU 76 73 73 LEU LEU A . n A 1 77 ASN 77 74 74 ASN ASN A . n A 1 78 SER 78 75 75 SER SER A . n A 1 79 HIS 79 76 76 HIS HIS A . n A 1 80 GLU 80 77 77 GLU GLU A . n A 1 81 ARG 81 78 78 ARG ARG A . n A 1 82 GLU 82 79 79 GLU GLU A . n A 1 83 ILE 83 80 80 ILE ILE A . n A 1 84 SER 84 81 81 SER SER A . n A 1 85 VAL 85 82 82 VAL VAL A . n A 1 86 GLU 86 83 83 GLU GLU A . n A 1 87 SER 87 84 84 SER SER A . n A 1 88 PHE 88 85 85 PHE PHE A . n A 1 89 GLU 89 86 86 GLU GLU A . n A 1 90 GLU 90 87 87 GLU GLU A . n A 1 91 ILE 91 88 88 ILE ILE A . n A 1 92 LEU 92 89 89 LEU LEU A . n A 1 93 ARG 93 90 90 ARG ARG A . n A 1 94 SER 94 91 91 SER SER A . n A 1 95 MSE 95 92 92 MSE MSE A . n A 1 96 VAL 96 93 93 VAL VAL A . n A 1 97 SER 97 94 94 SER SER A . n A 1 98 ARG 98 95 95 ARG ARG A . n A 1 99 LEU 99 96 96 LEU LEU A . n A 1 100 GLU 100 97 97 GLU GLU A . n A 1 101 SER 101 98 98 SER SER A . n A 1 102 ASP 102 99 99 ASP ASP A . n A 1 103 SER 103 100 100 SER SER A . n A 1 104 GLY 104 101 101 GLY GLY A . n A 1 105 HIS 105 102 102 HIS HIS A . n A 1 106 ILE 106 103 103 ILE ILE A . n A 1 107 GLU 107 104 104 GLU GLU A . n A 1 108 MSE 108 105 105 MSE MSE A . n A 1 109 ALA 109 106 106 ALA ALA A . n A 1 110 PHE 110 107 107 PHE PHE A . n A 1 111 PRO 111 108 108 PRO PRO A . n A 1 112 TYR 112 109 109 TYR TYR A . n A 1 113 PHE 113 110 110 PHE PHE A . n A 1 114 ILE 114 111 111 ILE ILE A . n A 1 115 ASN 115 112 112 ASN ASN A . n A 1 116 LYS 116 113 113 LYS LYS A . n A 1 117 SER 117 114 114 SER SER A . n A 1 118 ALA 118 115 115 ALA ALA A . n A 1 119 PRO 119 116 116 PRO PRO A . n A 1 120 VAL 120 117 117 VAL VAL A . n A 1 121 SER 121 118 118 SER SER A . n A 1 122 GLY 122 119 119 GLY GLY A . n A 1 123 VAL 123 120 120 VAL VAL A . n A 1 124 LYS 124 121 121 LYS LYS A . n A 1 125 SER 125 122 122 SER SER A . n A 1 126 LEU 126 123 123 LEU LEU A . n A 1 127 LEU 127 124 124 LEU LEU A . n A 1 128 ASP 128 125 125 ASP ASP A . n A 1 129 TYR 129 126 126 TYR TYR A . n A 1 130 GLU 130 127 127 GLU GLU A . n A 1 131 VAL 131 128 128 VAL VAL A . n A 1 132 THR 132 129 129 THR THR A . n A 1 133 PHE 133 130 130 PHE PHE A . n A 1 134 ILE 134 131 131 ILE ILE A . n A 1 135 GLY 135 132 132 GLY GLY A . n A 1 136 GLU 136 133 133 GLU GLU A . n A 1 137 ILE 137 134 134 ILE ILE A . n A 1 138 LYS 138 135 135 LYS LYS A . n A 1 139 HIS 139 136 136 HIS HIS A . n A 1 140 GLY 140 137 137 GLY GLY A . n A 1 141 ASN 141 138 138 ASN ASN A . n A 1 142 GLN 142 139 139 GLN GLN A . n A 1 143 TYR 143 140 140 TYR TYR A . n A 1 144 SER 144 141 141 SER SER A . n A 1 145 PHE 145 142 142 PHE PHE A . n A 1 146 THR 146 143 143 THR THR A . n A 1 147 MSE 147 144 144 MSE MSE A . n A 1 148 LYS 148 145 145 LYS LYS A . n A 1 149 VAL 149 146 146 VAL VAL A . n A 1 150 ILE 150 147 147 ILE ILE A . n A 1 151 VAL 151 148 148 VAL VAL A . n A 1 152 PRO 152 149 149 PRO PRO A . n A 1 153 VAL 153 150 150 VAL VAL A . n A 1 154 THR 154 151 151 THR THR A . n A 1 155 SER 155 152 152 SER SER A . n A 1 156 LEU 156 153 153 LEU LEU A . n A 1 157 CYS 157 154 154 CYS CYS A . n A 1 158 PRO 158 155 155 PRO PRO A . n A 1 159 CYS 159 156 156 CYS CYS A . n A 1 160 SER 160 157 157 SER SER A . n A 1 161 LYS 161 158 158 LYS LYS A . n A 1 162 LYS 162 159 159 LYS LYS A . n A 1 163 ILE 163 160 160 ILE ILE A . n A 1 164 SER 164 161 161 SER SER A . n A 1 165 ASP 165 162 162 ASP ASP A . n A 1 166 TYR 166 163 163 TYR TYR A . n A 1 167 GLY 167 164 164 GLY GLY A . n A 1 168 ALA 168 165 165 ALA ALA A . n A 1 169 HIS 169 166 166 HIS HIS A . n A 1 170 ASN 170 167 167 ASN ASN A . n A 1 171 GLN 171 168 168 GLN GLN A . n A 1 172 ARG 172 169 169 ARG ARG A . n A 1 173 SER 173 170 170 SER SER A . n A 1 174 HIS 174 171 171 HIS HIS A . n A 1 175 VAL 175 172 172 VAL VAL A . n A 1 176 THR 176 173 173 THR THR A . n A 1 177 ILE 177 174 174 ILE ILE A . n A 1 178 SER 178 175 175 SER SER A . n A 1 179 VAL 179 176 176 VAL VAL A . n A 1 180 ARG 180 177 177 ARG ARG A . n A 1 181 THR 181 178 178 THR THR A . n A 1 182 ASN 182 179 179 ASN ASN A . n A 1 183 SER 183 180 180 SER SER A . n A 1 184 PHE 184 181 181 PHE PHE A . n A 1 185 ILE 185 182 182 ILE ILE A . n A 1 186 TRP 186 183 183 TRP TRP A . n A 1 187 ILE 187 184 184 ILE ILE A . n A 1 188 GLU 188 185 185 GLU GLU A . n A 1 189 ASP 189 186 186 ASP ASP A . n A 1 190 ILE 190 187 187 ILE ILE A . n A 1 191 ILE 191 188 188 ILE ILE A . n A 1 192 ARG 192 189 189 ARG ARG A . n A 1 193 ILE 193 190 190 ILE ILE A . n A 1 194 ALA 194 191 191 ALA ALA A . n A 1 195 GLU 195 192 192 GLU GLU A . n A 1 196 GLU 196 193 193 GLU GLU A . n A 1 197 GLN 197 194 194 GLN GLN A . n A 1 198 ALA 198 195 195 ALA ALA A . n A 1 199 SER 199 196 196 SER SER A . n A 1 200 CYS 200 197 197 CYS CYS A . n A 1 201 GLU 201 198 198 GLU GLU A . n A 1 202 LEU 202 199 199 LEU LEU A . n A 1 203 TYR 203 200 200 TYR TYR A . n A 1 204 GLY 204 201 201 GLY GLY A . n A 1 205 LEU 205 202 202 LEU LEU A . n A 1 206 LEU 206 203 203 LEU LEU A . n A 1 207 LYS 207 204 204 LYS LYS A . n A 1 208 ARG 208 205 205 ARG ARG A . n A 1 209 PRO 209 206 206 PRO PRO A . n A 1 210 ASP 210 207 207 ASP ASP A . n A 1 211 GLU 211 208 208 GLU GLU A . n A 1 212 LYS 212 209 209 LYS LYS A . n A 1 213 TYR 213 210 210 TYR TYR A . n A 1 214 VAL 214 211 211 VAL VAL A . n A 1 215 THR 215 212 212 THR THR A . n A 1 216 GLU 216 213 213 GLU GLU A . n A 1 217 ARG 217 214 214 ARG ARG A . n A 1 218 ALA 218 215 215 ALA ALA A . n A 1 219 TYR 219 216 216 TYR TYR A . n A 1 220 ASN 220 217 217 ASN ASN A . n A 1 221 ASN 221 218 218 ASN ASN A . n A 1 222 PRO 222 219 219 PRO PRO A . n A 1 223 LYS 223 220 220 LYS LYS A . n A 1 224 PHE 224 221 221 PHE PHE A . n A 1 225 VAL 225 222 222 VAL VAL A . n A 1 226 GLU 226 223 223 GLU GLU A . n A 1 227 ASP 227 224 224 ASP ASP A . n A 1 228 ILE 228 225 225 ILE ILE A . n A 1 229 VAL 229 226 226 VAL VAL A . n A 1 230 ARG 230 227 227 ARG ARG A . n A 1 231 ASP 231 228 228 ASP ASP A . n A 1 232 VAL 232 229 229 VAL VAL A . n A 1 233 ALA 233 230 230 ALA ALA A . n A 1 234 GLU 234 231 231 GLU GLU A . n A 1 235 VAL 235 232 232 VAL VAL A . n A 1 236 LEU 236 233 233 LEU LEU A . n A 1 237 ASN 237 234 234 ASN ASN A . n A 1 238 HIS 238 235 235 HIS HIS A . n A 1 239 ASP 239 236 236 ASP ASP A . n A 1 240 ASP 240 237 237 ASP ASP A . n A 1 241 ARG 241 238 238 ARG ARG A . n A 1 242 ILE 242 239 239 ILE ILE A . n A 1 243 ASP 243 240 240 ASP ASP A . n A 1 244 ALA 244 241 241 ALA ALA A . n A 1 245 TYR 245 242 242 TYR TYR A . n A 1 246 ILE 246 243 243 ILE ILE A . n A 1 247 VAL 247 244 244 VAL VAL A . n A 1 248 GLU 248 245 245 GLU GLU A . n A 1 249 SER 249 246 246 SER SER A . n A 1 250 GLU 250 247 247 GLU GLU A . n A 1 251 ASN 251 248 248 ASN ASN A . n A 1 252 PHE 252 249 249 PHE PHE A . n A 1 253 GLU 253 250 250 GLU GLU A . n A 1 254 SER 254 251 251 SER SER A . n A 1 255 ILE 255 252 252 ILE ILE A . n A 1 256 HIS 256 253 253 HIS HIS A . n A 1 257 ASN 257 254 254 ASN ASN A . n A 1 258 HIS 258 255 255 HIS HIS A . n A 1 259 SER 259 256 256 SER SER A . n A 1 260 ALA 260 257 257 ALA ALA A . n A 1 261 TYR 261 258 258 TYR TYR A . n A 1 262 ALA 262 259 259 ALA ALA A . n A 1 263 LEU 263 260 260 LEU LEU A . n A 1 264 ILE 264 261 261 ILE ILE A . n A 1 265 GLU 265 262 262 GLU GLU A . n A 1 266 ARG 266 263 263 ARG ARG A . n A 1 267 ASP 267 264 264 ASP ASP A . n A 1 268 LYS 268 265 265 LYS LYS A . n A 1 269 ARG 269 266 ? ? ? A . n A 1 270 ILE 270 267 ? ? ? A . n A 1 271 ARG 271 268 ? ? ? A . n # _pdbx_SG_project.id 1 _pdbx_SG_project.project_name 'PSI, Protein Structure Initiative' _pdbx_SG_project.full_name_of_center 'Midwest Center for Structural Genomics' _pdbx_SG_project.initial_of_center MCSG # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 PO4 1 269 1 PO4 PO4 A . C 3 IMD 1 270 1 IMD IMD 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 56 A MSE 53 ? MET SELENOMETHIONINE 2 A MSE 69 A MSE 66 ? MET SELENOMETHIONINE 3 A MSE 95 A MSE 92 ? MET SELENOMETHIONINE 4 A MSE 108 A MSE 105 ? MET SELENOMETHIONINE 5 A MSE 147 A MSE 144 ? MET SELENOMETHIONINE # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 _pdbx_struct_assembly_gen.asym_id_list A,B,C # _pdbx_struct_assembly_prop.biol_id 1 _pdbx_struct_assembly_prop.type 'ABSA (A^2)' _pdbx_struct_assembly_prop.value 19120 _pdbx_struct_assembly_prop.details ? # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 2 'crystal symmetry operation' 4_665 -x+1,-y+1,z -1.0000000000 0.0000000000 0.0000000000 59.3525000000 0.0000000000 -1.0000000000 0.0000000000 102.8015455562 0.0000000000 0.0000000000 1.0000000000 0.0000000000 3 'crystal symmetry operation' 7_556 y,x,-z+4/3 -0.5000000000 0.8660254038 0.0000000000 0.0000000000 0.8660254038 0.5000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 150.9466666667 4 'crystal symmetry operation' 10_666 -y+1,-x+1,-z+4/3 0.5000000000 -0.8660254038 0.0000000000 59.3525000000 -0.8660254038 -0.5000000000 0.0000000000 102.8015455562 0.0000000000 0.0000000000 -1.0000000000 150.9466666667 # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2007-09-18 2 'Structure model' 1 1 2011-07-13 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? # _pdbx_audit_revision_group.ordinal 1 _pdbx_audit_revision_group.revision_ordinal 2 _pdbx_audit_revision_group.data_content_type 'Structure model' _pdbx_audit_revision_group.group 'Version format compliance' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal REFMAC refinement 5.2.0019 ? 1 SBC-Collect 'data collection' . ? 2 HKL-3000 'data reduction' . ? 3 HKL-3000 'data scaling' . ? 4 MLPHARE phasing . ? 5 DM phasing . ? 6 HKL-3000 phasing . ? 7 # 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 THR A 47 ? ? -133.65 -159.24 2 1 HIS A 65 ? ? -68.25 0.25 3 1 HIS A 76 ? ? -88.17 -126.45 4 1 HIS A 136 ? ? 28.94 60.60 5 1 GLU A 250 ? ? -29.64 117.65 6 1 HIS A 253 ? ? -143.18 -25.21 # loop_ _pdbx_unobs_or_zero_occ_residues.id _pdbx_unobs_or_zero_occ_residues.PDB_model_num _pdbx_unobs_or_zero_occ_residues.polymer_flag _pdbx_unobs_or_zero_occ_residues.occupancy_flag _pdbx_unobs_or_zero_occ_residues.auth_asym_id _pdbx_unobs_or_zero_occ_residues.auth_comp_id _pdbx_unobs_or_zero_occ_residues.auth_seq_id _pdbx_unobs_or_zero_occ_residues.PDB_ins_code _pdbx_unobs_or_zero_occ_residues.label_asym_id _pdbx_unobs_or_zero_occ_residues.label_comp_id _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 1 Y 1 A SER -2 ? A SER 1 2 1 Y 1 A ASN -1 ? A ASN 2 3 1 Y 1 A ALA 0 ? A ALA 3 4 1 Y 1 A MSE 1 ? A MSE 4 5 1 Y 1 A ASN 2 ? A ASN 5 6 1 Y 1 A LYS 3 ? A LYS 6 7 1 Y 1 A GLN 4 ? A GLN 7 8 1 Y 1 A ILE 5 ? A ILE 8 9 1 Y 1 A ASP 6 ? A ASP 9 10 1 Y 1 A LEU 7 ? A LEU 10 11 1 Y 1 A PRO 8 ? A PRO 11 12 1 Y 1 A ILE 9 ? A ILE 12 13 1 Y 1 A ALA 10 ? A ALA 13 14 1 Y 1 A ASP 11 ? A ASP 14 15 1 Y 1 A VAL 12 ? A VAL 15 16 1 Y 1 A GLN 13 ? A GLN 16 17 1 Y 1 A GLY 14 ? A GLY 17 18 1 Y 1 A SER 15 ? A SER 18 19 1 Y 1 A LEU 16 ? A LEU 19 20 1 Y 1 A ASP 17 ? A ASP 20 21 1 Y 1 A THR 18 ? A THR 21 22 1 Y 1 A ARG 19 ? A ARG 22 23 1 Y 1 A ARG 266 ? A ARG 269 24 1 Y 1 A ILE 267 ? A ILE 270 25 1 Y 1 A ARG 268 ? A ARG 271 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'PHOSPHATE ION' PO4 3 IMIDAZOLE IMD #