data_7YM5 # _entry.id 7YM5 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.373 _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 7YM5 pdb_00007ym5 10.2210/pdb7ym5/pdb WWPDB D_1300031233 ? ? # _pdbx_database_PDB_obs_spr.id SPRSDE _pdbx_database_PDB_obs_spr.date 2023-08-02 _pdbx_database_PDB_obs_spr.pdb_id 7YM5 _pdbx_database_PDB_obs_spr.replace_pdb_id 6AGU _pdbx_database_PDB_obs_spr.details ? # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 7YM5 _pdbx_database_status.recvd_initial_deposition_date 2022-07-27 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBJ _pdbx_database_status.process_site PDBJ _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Kim, U.J.' 1 0000-0002-9062-5842 'Park, J.B.' 2 0000-0002-3023-1040 'Yoo, Y.' 3 0000-0001-7848-412X 'Cho, H.S.' 4 0000-0003-4067-4715 # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country ? _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'To Be Published' _citation.journal_id_ASTM ? _citation.journal_id_CSD 0353 _citation.journal_id_ISSN ? _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume ? _citation.language ? _citation.page_first ? _citation.page_last ? _citation.title 'Crystal structure of the Salmonella effector SseK1' _citation.year ? _citation.database_id_CSD ? _citation.pdbx_database_id_DOI ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Kim, U.J.' 1 0000-0002-9062-5842 primary 'Park, J.B.' 2 0000-0002-3023-1040 primary 'Yoo, Y.' 3 0000-0001-7848-412X primary 'Cho, H.S.' 4 0000-0003-4067-4715 # _cell.angle_alpha 90.000 _cell.angle_alpha_esd ? _cell.angle_beta 90.000 _cell.angle_beta_esd ? _cell.angle_gamma 120.000 _cell.angle_gamma_esd ? _cell.entry_id 7YM5 _cell.details ? _cell.formula_units_Z ? _cell.length_a 115.995 _cell.length_a_esd ? _cell.length_b 115.995 _cell.length_b_esd ? _cell.length_c 101.042 _cell.length_c_esd ? _cell.volume 1177364.954 _cell.volume_esd ? _cell.Z_PDB 12 _cell.reciprocal_angle_alpha ? _cell.reciprocal_angle_beta ? _cell.reciprocal_angle_gamma ? _cell.reciprocal_angle_alpha_esd ? _cell.reciprocal_angle_beta_esd ? _cell.reciprocal_angle_gamma_esd ? _cell.reciprocal_length_a ? _cell.reciprocal_length_b ? _cell.reciprocal_length_c ? _cell.reciprocal_length_a_esd ? _cell.reciprocal_length_b_esd ? _cell.reciprocal_length_c_esd ? _cell.pdbx_unique_axis ? _cell.pdbx_esd_method ? # _symmetry.entry_id 7YM5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 180 _symmetry.space_group_name_Hall 'P 62 2 (x,y,z+1/3)' _symmetry.space_group_name_H-M 'P 62 2 2' _symmetry.pdbx_full_space_group_name_H-M ? # 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 'Type III secretion system effector arginine glycosyltransferase SseK1' 35420.012 1 ? ? ? ? 2 non-polymer syn 'MANGANESE (II) ION' 54.938 1 ? ? ? ? 3 non-polymer syn "URIDINE-5'-DIPHOSPHATE" 404.161 1 ? ? ? ? 4 water nat water 18.015 1 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code ;FTSFNGKDYPLCFLDEKTPLLFQWFERNPARFGKNDIPIINTEKNPYLNNIIKAATIEKERLIGIFVDGDFFPGQKDAFS KLEYDYENIKVIYRNDIDFSMYDKKLSEIYMENISKQESMPEEKRDCHLLQLLKKELSDIQEGNDSLIKSYLLDKGHGWF DFYRNMAMLKAGQLFLEADKVGCYDLSTNSGCIYLDADMIITEKLGGIYIPDGIAVHVERIDGRASMENGIIAVDRNNHP ALLAGLEIMHTKFDADPYSDGVCNGIRKHFNYSLNEDYNSFCDFIEFKHDNIIMNTSQFTQSSWAR ; _entity_poly.pdbx_seq_one_letter_code_can ;FTSFNGKDYPLCFLDEKTPLLFQWFERNPARFGKNDIPIINTEKNPYLNNIIKAATIEKERLIGIFVDGDFFPGQKDAFS KLEYDYENIKVIYRNDIDFSMYDKKLSEIYMENISKQESMPEEKRDCHLLQLLKKELSDIQEGNDSLIKSYLLDKGHGWF DFYRNMAMLKAGQLFLEADKVGCYDLSTNSGCIYLDADMIITEKLGGIYIPDGIAVHVERIDGRASMENGIIAVDRNNHP ALLAGLEIMHTKFDADPYSDGVCNGIRKHFNYSLNEDYNSFCDFIEFKHDNIIMNTSQFTQSSWAR ; _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 PHE n 1 2 THR n 1 3 SER n 1 4 PHE n 1 5 ASN n 1 6 GLY n 1 7 LYS n 1 8 ASP n 1 9 TYR n 1 10 PRO n 1 11 LEU n 1 12 CYS n 1 13 PHE n 1 14 LEU n 1 15 ASP n 1 16 GLU n 1 17 LYS n 1 18 THR n 1 19 PRO n 1 20 LEU n 1 21 LEU n 1 22 PHE n 1 23 GLN n 1 24 TRP n 1 25 PHE n 1 26 GLU n 1 27 ARG n 1 28 ASN n 1 29 PRO n 1 30 ALA n 1 31 ARG n 1 32 PHE n 1 33 GLY n 1 34 LYS n 1 35 ASN n 1 36 ASP n 1 37 ILE n 1 38 PRO n 1 39 ILE n 1 40 ILE n 1 41 ASN n 1 42 THR n 1 43 GLU n 1 44 LYS n 1 45 ASN n 1 46 PRO n 1 47 TYR n 1 48 LEU n 1 49 ASN n 1 50 ASN n 1 51 ILE n 1 52 ILE n 1 53 LYS n 1 54 ALA n 1 55 ALA n 1 56 THR n 1 57 ILE n 1 58 GLU n 1 59 LYS n 1 60 GLU n 1 61 ARG n 1 62 LEU n 1 63 ILE n 1 64 GLY n 1 65 ILE n 1 66 PHE n 1 67 VAL n 1 68 ASP n 1 69 GLY n 1 70 ASP n 1 71 PHE n 1 72 PHE n 1 73 PRO n 1 74 GLY n 1 75 GLN n 1 76 LYS n 1 77 ASP n 1 78 ALA n 1 79 PHE n 1 80 SER n 1 81 LYS n 1 82 LEU n 1 83 GLU n 1 84 TYR n 1 85 ASP n 1 86 TYR n 1 87 GLU n 1 88 ASN n 1 89 ILE n 1 90 LYS n 1 91 VAL n 1 92 ILE n 1 93 TYR n 1 94 ARG n 1 95 ASN n 1 96 ASP n 1 97 ILE n 1 98 ASP n 1 99 PHE n 1 100 SER n 1 101 MET n 1 102 TYR n 1 103 ASP n 1 104 LYS n 1 105 LYS n 1 106 LEU n 1 107 SER n 1 108 GLU n 1 109 ILE n 1 110 TYR n 1 111 MET n 1 112 GLU n 1 113 ASN n 1 114 ILE n 1 115 SER n 1 116 LYS n 1 117 GLN n 1 118 GLU n 1 119 SER n 1 120 MET n 1 121 PRO n 1 122 GLU n 1 123 GLU n 1 124 LYS n 1 125 ARG n 1 126 ASP n 1 127 CYS n 1 128 HIS n 1 129 LEU n 1 130 LEU n 1 131 GLN n 1 132 LEU n 1 133 LEU n 1 134 LYS n 1 135 LYS n 1 136 GLU n 1 137 LEU n 1 138 SER n 1 139 ASP n 1 140 ILE n 1 141 GLN n 1 142 GLU n 1 143 GLY n 1 144 ASN n 1 145 ASP n 1 146 SER n 1 147 LEU n 1 148 ILE n 1 149 LYS n 1 150 SER n 1 151 TYR n 1 152 LEU n 1 153 LEU n 1 154 ASP n 1 155 LYS n 1 156 GLY n 1 157 HIS n 1 158 GLY n 1 159 TRP n 1 160 PHE n 1 161 ASP n 1 162 PHE n 1 163 TYR n 1 164 ARG n 1 165 ASN n 1 166 MET n 1 167 ALA n 1 168 MET n 1 169 LEU n 1 170 LYS n 1 171 ALA n 1 172 GLY n 1 173 GLN n 1 174 LEU n 1 175 PHE n 1 176 LEU n 1 177 GLU n 1 178 ALA n 1 179 ASP n 1 180 LYS n 1 181 VAL n 1 182 GLY n 1 183 CYS n 1 184 TYR n 1 185 ASP n 1 186 LEU n 1 187 SER n 1 188 THR n 1 189 ASN n 1 190 SER n 1 191 GLY n 1 192 CYS n 1 193 ILE n 1 194 TYR n 1 195 LEU n 1 196 ASP n 1 197 ALA n 1 198 ASP n 1 199 MET n 1 200 ILE n 1 201 ILE n 1 202 THR n 1 203 GLU n 1 204 LYS n 1 205 LEU n 1 206 GLY n 1 207 GLY n 1 208 ILE n 1 209 TYR n 1 210 ILE n 1 211 PRO n 1 212 ASP n 1 213 GLY n 1 214 ILE n 1 215 ALA n 1 216 VAL n 1 217 HIS n 1 218 VAL n 1 219 GLU n 1 220 ARG n 1 221 ILE n 1 222 ASP n 1 223 GLY n 1 224 ARG n 1 225 ALA n 1 226 SER n 1 227 MET n 1 228 GLU n 1 229 ASN n 1 230 GLY n 1 231 ILE n 1 232 ILE n 1 233 ALA n 1 234 VAL n 1 235 ASP n 1 236 ARG n 1 237 ASN n 1 238 ASN n 1 239 HIS n 1 240 PRO n 1 241 ALA n 1 242 LEU n 1 243 LEU n 1 244 ALA n 1 245 GLY n 1 246 LEU n 1 247 GLU n 1 248 ILE n 1 249 MET n 1 250 HIS n 1 251 THR n 1 252 LYS n 1 253 PHE n 1 254 ASP n 1 255 ALA n 1 256 ASP n 1 257 PRO n 1 258 TYR n 1 259 SER n 1 260 ASP n 1 261 GLY n 1 262 VAL n 1 263 CYS n 1 264 ASN n 1 265 GLY n 1 266 ILE n 1 267 ARG n 1 268 LYS n 1 269 HIS n 1 270 PHE n 1 271 ASN n 1 272 TYR n 1 273 SER n 1 274 LEU n 1 275 ASN n 1 276 GLU n 1 277 ASP n 1 278 TYR n 1 279 ASN n 1 280 SER n 1 281 PHE n 1 282 CYS n 1 283 ASP n 1 284 PHE n 1 285 ILE n 1 286 GLU n 1 287 PHE n 1 288 LYS n 1 289 HIS n 1 290 ASP n 1 291 ASN n 1 292 ILE n 1 293 ILE n 1 294 MET n 1 295 ASN n 1 296 THR n 1 297 SER n 1 298 GLN n 1 299 PHE n 1 300 THR n 1 301 GLN n 1 302 SER n 1 303 SER n 1 304 TRP n 1 305 ALA n 1 306 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 'Biological sequence' _entity_src_gen.pdbx_beg_seq_num 1 _entity_src_gen.pdbx_end_seq_num 306 _entity_src_gen.gene_src_common_name ? _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene G9F52_004249 _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain ? _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 'Salmonella enterica' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 28901 _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 ? _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 ? _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 ? _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name ? _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code A0A741VJQ1_SALER _struct_ref.pdbx_db_accession A0A741VJQ1 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;FTSFNGKDYPLCFLDEKTPLLFQWFERNPARFGKNDIPIINTEKNPYLNNIIKAATIEKERLIGIFVDGDFFPGQKDAFS KLEYDYENIKVIYRNDIDFSMYDKKLSEIYMENISKQESMPEEKRDCHLLQLLKKELSDIQEGNDSLIKSYLLDKGHGWF DFYRNMAMLKAGQLFLEADKVGCYDLSTNSGCIYLDADMIITEKLGGIYIPDGIAVHVERIDGRASMENGIIAVDRNNHP ALLAGLEIMHTKFDADPYSDGVCNGIRKHFNYSLNEDYNSFCDFIEFKHDNIIMNTSQFTQSSWAR ; _struct_ref.pdbx_align_begin 5 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 7YM5 _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 306 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession A0A741VJQ1 _struct_ref_seq.db_align_beg 5 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 310 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 28 _struct_ref_seq.pdbx_auth_seq_align_end 333 # 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 MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.211 MN non-polymer . 'MANGANESE (II) ION' ? 'Mn 2' 54.938 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TRP 'L-peptide linking' y TRYPTOPHAN ? 'C11 H12 N2 O2' 204.225 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 UDP 'RNA linking' . "URIDINE-5'-DIPHOSPHATE" ? 'C9 H14 N2 O12 P2' 404.161 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.entry_id 7YM5 _exptl.crystals_number 1 _exptl.details ? _exptl.method 'X-RAY DIFFRACTION' _exptl.method_details ? # _exptl_crystal.colour ? _exptl_crystal.density_diffrn ? _exptl_crystal.density_Matthews 2.50 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 50.74 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.id 1 _exptl_crystal.preparation ? _exptl_crystal.size_max ? _exptl_crystal.size_mid ? _exptl_crystal.size_min ? _exptl_crystal.size_rad ? _exptl_crystal.colour_lustre ? _exptl_crystal.colour_modifier ? _exptl_crystal.colour_primary ? _exptl_crystal.density_meas ? _exptl_crystal.density_meas_esd ? _exptl_crystal.density_meas_gt ? _exptl_crystal.density_meas_lt ? _exptl_crystal.density_meas_temp ? _exptl_crystal.density_meas_temp_esd ? _exptl_crystal.density_meas_temp_gt ? _exptl_crystal.density_meas_temp_lt ? _exptl_crystal.pdbx_crystal_image_url ? _exptl_crystal.pdbx_crystal_image_format ? _exptl_crystal.pdbx_mosaicity ? _exptl_crystal.pdbx_mosaicity_esd ? _exptl_crystal.pdbx_mosaic_method ? _exptl_crystal.pdbx_mosaic_block_size ? _exptl_crystal.pdbx_mosaic_block_size_esd ? # _exptl_crystal_grow.apparatus ? _exptl_crystal_grow.atmosphere ? _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.details ? _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH ? _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 290 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details '0.1M Bis-Tris propane-HCl pH 7.0 1.0M ammonium citrate tribasic' _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.ambient_environment ? _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.ambient_temp_esd ? _diffrn.crystal_id 1 _diffrn.crystal_support ? _diffrn.crystal_treatment ? _diffrn.details ? _diffrn.id 1 _diffrn.ambient_pressure ? _diffrn.ambient_pressure_esd ? _diffrn.ambient_pressure_gt ? _diffrn.ambient_pressure_lt ? _diffrn.ambient_temp_gt ? _diffrn.ambient_temp_lt ? _diffrn.pdbx_serial_crystal_experiment N # _diffrn_detector.details ? _diffrn_detector.detector PIXEL _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'DECTRIS EIGER X 16M' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2016-05-28 _diffrn_detector.pdbx_frequency ? # _diffrn_radiation.collimation ? _diffrn_radiation.diffrn_id 1 _diffrn_radiation.filter_edge ? _diffrn_radiation.inhomogeneity ? _diffrn_radiation.monochromator ? _diffrn_radiation.polarisn_norm ? _diffrn_radiation.polarisn_ratio ? _diffrn_radiation.probe ? _diffrn_radiation.type ? _diffrn_radiation.xray_symbol ? _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_wavelength_list ? _diffrn_radiation.pdbx_wavelength ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_analyzer ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.1 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.current ? _diffrn_source.details ? _diffrn_source.diffrn_id 1 _diffrn_source.power ? _diffrn_source.size ? _diffrn_source.source SYNCHROTRON _diffrn_source.target ? _diffrn_source.type 'PHOTON FACTORY BEAMLINE BL-1A' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 1.1 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline BL-1A _diffrn_source.pdbx_synchrotron_site 'Photon Factory' # _reflns.B_iso_Wilson_estimate 112.40 _reflns.entry_id 7YM5 _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 3.45 _reflns.d_resolution_low 44.98 _reflns.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.number_all ? _reflns.number_obs 5663 _reflns.observed_criterion ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.observed_criterion_I_max ? _reflns.observed_criterion_I_min ? _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.percent_possible_obs 99.70 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 28.0 _reflns.pdbx_Rmerge_I_obs 0.1506 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 23.08 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_d_res_high_opt ? _reflns.pdbx_d_res_low_opt ? _reflns.pdbx_d_res_opt_method ? _reflns.phase_calculation_details ? _reflns.pdbx_Rrim_I_all 0.1534 _reflns.pdbx_Rpim_I_all 0.02896 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 0.999 _reflns.pdbx_CC_star 1 _reflns.pdbx_R_split ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_1 ? _reflns.pdbx_aniso_diffraction_limit_2 ? _reflns.pdbx_aniso_diffraction_limit_3 ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvalue_1 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_2 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_3 ? _reflns.pdbx_orthogonalization_convention ? _reflns.pdbx_percent_possible_ellipsoidal ? _reflns.pdbx_percent_possible_spherical ? _reflns.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns.pdbx_percent_possible_spherical_anomalous ? _reflns.pdbx_redundancy_anomalous ? _reflns.pdbx_CC_half_anomalous ? _reflns.pdbx_absDiff_over_sigma_anomalous ? _reflns.pdbx_percent_possible_anomalous ? _reflns.pdbx_observed_signal_threshold ? _reflns.pdbx_signal_type ? _reflns.pdbx_signal_details ? _reflns.pdbx_signal_software_id ? _reflns.pdbx_CC_split_method ? # _reflns_shell.d_res_high 3.45 _reflns_shell.d_res_low 3.573 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 4.26 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs 553 _reflns_shell.percent_possible_all ? _reflns_shell.percent_possible_obs ? _reflns_shell.Rmerge_F_all ? _reflns_shell.Rmerge_F_obs ? _reflns_shell.Rmerge_I_all ? _reflns_shell.Rmerge_I_obs 1.212 _reflns_shell.meanI_over_sigI_gt ? _reflns_shell.meanI_over_uI_all ? _reflns_shell.meanI_over_uI_gt ? _reflns_shell.number_measured_gt ? _reflns_shell.number_unique_gt ? _reflns_shell.percent_possible_gt ? _reflns_shell.Rmerge_F_gt ? _reflns_shell.Rmerge_I_gt ? _reflns_shell.pdbx_redundancy ? _reflns_shell.pdbx_Rsym_value ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_netI_over_sigmaI_all ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.pdbx_Rrim_I_all 1.232 _reflns_shell.pdbx_Rpim_I_all 0.2205 _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.963 _reflns_shell.pdbx_CC_star 0.991 _reflns_shell.pdbx_R_split ? _reflns_shell.pdbx_percent_possible_ellipsoidal ? _reflns_shell.pdbx_percent_possible_spherical ? _reflns_shell.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns_shell.pdbx_percent_possible_spherical_anomalous ? _reflns_shell.pdbx_redundancy_anomalous ? _reflns_shell.pdbx_CC_half_anomalous ? _reflns_shell.pdbx_absDiff_over_sigma_anomalous ? _reflns_shell.pdbx_percent_possible_anomalous ? # _refine.aniso_B[1][1] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][2] ? _refine.aniso_B[2][3] ? _refine.aniso_B[3][3] ? _refine.B_iso_max ? _refine.B_iso_mean 113.41 _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.details ? _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 7YM5 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.ls_abs_structure_details ? _refine.ls_abs_structure_Flack ? _refine.ls_abs_structure_Flack_esd ? _refine.ls_abs_structure_Rogers ? _refine.ls_abs_structure_Rogers_esd ? _refine.ls_d_res_high 3.45 _refine.ls_d_res_low 44.98 _refine.ls_extinction_coef ? _refine.ls_extinction_coef_esd ? _refine.ls_extinction_expression ? _refine.ls_extinction_method ? _refine.ls_goodness_of_fit_all ? _refine.ls_goodness_of_fit_all_esd ? _refine.ls_goodness_of_fit_obs ? _refine.ls_goodness_of_fit_obs_esd ? _refine.ls_hydrogen_treatment ? _refine.ls_matrix_type ? _refine.ls_number_constraints ? _refine.ls_number_parameters ? _refine.ls_number_reflns_all ? _refine.ls_number_reflns_obs 5653 _refine.ls_number_reflns_R_free 567 _refine.ls_number_reflns_R_work 9018 _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 99.80 _refine.ls_percent_reflns_R_free 10.00 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.2838 _refine.ls_R_factor_R_free 0.2898 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.2831 _refine.ls_R_Fsqd_factor_obs ? _refine.ls_R_I_factor_obs ? _refine.ls_redundancy_reflns_all ? _refine.ls_redundancy_reflns_obs ? _refine.ls_restrained_S_all ? _refine.ls_restrained_S_obs ? _refine.ls_shift_over_esd_max ? _refine.ls_shift_over_esd_mean ? _refine.ls_structure_factor_coef ? _refine.ls_weighting_details ? _refine.ls_weighting_scheme ? _refine.ls_wR_factor_all ? _refine.ls_wR_factor_obs ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_R_complete ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 1.37 _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method 'FREE R-VALUE' _refine.pdbx_method_to_determine_struct SAD _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values 'GeoStd + Monomer Library + CDL v1.2' _refine.pdbx_R_Free_selection_details ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_solvent_vdw_probe_radii 1.1100 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.9000 _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error 36.3045 _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id 1 _refine.overall_SU_B ? _refine.overall_SU_ML 0.6022 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.details ? _refine_hist.d_res_high 3.45 _refine_hist.d_res_low 44.98 _refine_hist.number_atoms_solvent 1 _refine_hist.number_atoms_total 2493 _refine_hist.number_reflns_all ? _refine_hist.number_reflns_obs ? _refine_hist.number_reflns_R_free ? _refine_hist.number_reflns_R_work ? _refine_hist.R_factor_all ? _refine_hist.R_factor_obs ? _refine_hist.R_factor_R_free ? _refine_hist.R_factor_R_work ? _refine_hist.pdbx_number_residues_total ? _refine_hist.pdbx_B_iso_mean_ligand ? _refine_hist.pdbx_B_iso_mean_solvent ? _refine_hist.pdbx_number_atoms_protein 2466 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 26 _refine_hist.pdbx_number_atoms_lipid ? _refine_hist.pdbx_number_atoms_carb ? _refine_hist.pdbx_pseudo_atom_details ? # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.criterion _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.rejects _refine_ls_restr.type _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function 'X-RAY DIFFRACTION' ? 0.0115 ? 2548 ? f_bond_d ? ? 'X-RAY DIFFRACTION' ? 1.7056 ? 3439 ? f_angle_d ? ? 'X-RAY DIFFRACTION' ? 0.1160 ? 360 ? f_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.0064 ? 445 ? f_plane_restr ? ? 'X-RAY DIFFRACTION' ? 13.1883 ? 937 ? f_dihedral_angle_d ? ? # loop_ _refine_ls_shell.pdbx_refine_id _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.number_reflns_R_free _refine_ls_shell.number_reflns_R_work _refine_ls_shell.percent_reflns_obs _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.R_factor_all _refine_ls_shell.R_factor_obs _refine_ls_shell.R_factor_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.R_factor_R_work _refine_ls_shell.redundancy_reflns_all _refine_ls_shell.redundancy_reflns_obs _refine_ls_shell.wR_factor_all _refine_ls_shell.wR_factor_obs _refine_ls_shell.wR_factor_R_free _refine_ls_shell.wR_factor_R_work _refine_ls_shell.pdbx_R_complete _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.pdbx_phase_error _refine_ls_shell.pdbx_fsc_work _refine_ls_shell.pdbx_fsc_free 'X-RAY DIFFRACTION' 3.45 3.63 . . 144 1302 99.86 . . . 0.3929 . 0.3787 . . . . . . . . . . . 'X-RAY DIFFRACTION' 3.63 3.86 . . 143 1284 99.86 . . . 0.4138 . 0.3356 . . . . . . . . . . . 'X-RAY DIFFRACTION' 3.86 4.16 . . 145 1284 99.86 . . . 0.3248 . 0.2924 . . . . . . . . . . . 'X-RAY DIFFRACTION' 4.16 4.57 . . 144 1271 99.58 . . . 0.2946 . 0.2732 . . . . . . . . . . . 'X-RAY DIFFRACTION' 4.58 5.23 . . 143 1284 99.86 . . . 0.2463 . 0.2889 . . . . . . . . . . . 'X-RAY DIFFRACTION' 5.24 6.59 . . 142 1292 100.00 . . . 0.3247 . 0.3296 . . . . . . . . . . . # _struct.entry_id 7YM5 _struct.title 'Crystal structure of the Salmonella effector SseK1' _struct.pdbx_model_details ? _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag N # _struct_keywords.entry_id 7YM5 _struct_keywords.text 'salmonella, effector, arginine glycosylation, TOXIN' _struct_keywords.pdbx_keywords TOXIN # 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 4 ? # 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 AA1 PRO A 46 ? GLU A 58 ? PRO A 73 GLU A 85 1 ? 13 HELX_P HELX_P2 AA2 PHE A 72 ? TYR A 86 ? PHE A 99 TYR A 113 1 ? 15 HELX_P HELX_P3 AA3 ASN A 95 ? ILE A 97 ? ASN A 122 ILE A 124 5 ? 3 HELX_P HELX_P4 AA4 PHE A 99 ? ASP A 103 ? PHE A 126 ASP A 130 5 ? 5 HELX_P HELX_P5 AA5 LYS A 105 ? MET A 120 ? LYS A 132 MET A 147 1 ? 16 HELX_P HELX_P6 AA6 ASP A 126 ? ASP A 139 ? ASP A 153 ASP A 166 1 ? 14 HELX_P HELX_P7 AA7 SER A 146 ? TYR A 151 ? SER A 173 TYR A 178 1 ? 6 HELX_P HELX_P8 AA8 HIS A 157 ? ALA A 171 ? HIS A 184 ALA A 198 1 ? 15 HELX_P HELX_P9 AA9 ALA A 171 ? ALA A 178 ? ALA A 198 ALA A 205 1 ? 8 HELX_P HELX_P10 AB1 HIS A 239 ? LYS A 252 ? HIS A 266 LYS A 279 1 ? 14 HELX_P HELX_P11 AB2 VAL A 262 ? PHE A 270 ? VAL A 289 PHE A 297 1 ? 9 HELX_P HELX_P12 AB3 ASP A 277 ? GLU A 286 ? ASP A 304 GLU A 313 1 ? 10 HELX_P HELX_P13 AB4 THR A 296 ? GLN A 301 ? THR A 323 GLN A 328 1 ? 6 # _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 disulf1 disulf ? ? A CYS 127 SG ? ? ? 1_555 A CYS 127 SG ? ? A CYS 154 A CYS 154 11_555 ? ? ? ? ? ? ? 2.445 ? ? metalc1 metalc ? ? A ASP 198 OD2 ? ? ? 1_555 B MN . MN ? ? A ASP 225 A MN 401 1_555 ? ? ? ? ? ? ? 2.160 ? ? metalc2 metalc ? ? A ASN 295 OD1 ? ? ? 1_555 B MN . MN ? ? A ASN 322 A MN 401 1_555 ? ? ? ? ? ? ? 2.029 ? ? metalc3 metalc ? ? A SER 297 OG ? ? ? 1_555 B MN . MN ? ? A SER 324 A MN 401 1_555 ? ? ? ? ? ? ? 2.158 ? ? metalc4 metalc ? ? B MN . MN ? ? ? 1_555 C UDP . O3B ? ? A MN 401 A UDP 402 1_555 ? ? ? ? ? ? ? 1.996 ? ? metalc5 metalc ? ? B MN . MN ? ? ? 1_555 C UDP . O2A ? ? A MN 401 A UDP 402 1_555 ? ? ? ? ? ? ? 2.050 ? ? metalc6 metalc ? ? B MN . MN ? ? ? 1_555 D HOH . O ? ? A MN 401 A HOH 501 1_555 ? ? ? ? ? ? ? 2.294 ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference disulf ? ? metalc ? ? # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details AA1 ? 2 ? AA2 ? 2 ? AA3 ? 6 ? AA4 ? 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 AA1 1 2 ? anti-parallel AA2 1 2 ? anti-parallel AA3 1 2 ? parallel AA3 2 3 ? parallel AA3 3 4 ? parallel AA3 4 5 ? anti-parallel AA3 5 6 ? anti-parallel AA4 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 AA1 1 SER A 3 ? PHE A 4 ? SER A 30 PHE A 31 AA1 2 ASP A 8 ? TYR A 9 ? ASP A 35 TYR A 36 AA2 1 CYS A 12 ? LEU A 14 ? CYS A 39 LEU A 41 AA2 2 ILE A 208 ? ILE A 210 ? ILE A 235 ILE A 237 AA3 1 ILE A 89 ? TYR A 93 ? ILE A 116 TYR A 120 AA3 2 ILE A 63 ? ASP A 68 ? ILE A 90 ASP A 95 AA3 3 LEU A 20 ? PHE A 25 ? LEU A 47 PHE A 52 AA3 4 ILE A 193 ? LEU A 195 ? ILE A 220 LEU A 222 AA3 5 MET A 227 ? VAL A 234 ? MET A 254 VAL A 261 AA3 6 ILE A 214 ? VAL A 218 ? ILE A 241 VAL A 245 AA4 1 ILE A 200 ? ILE A 201 ? ILE A 227 ILE A 228 AA4 2 ILE A 292 ? ILE A 293 ? ILE A 319 ILE A 320 # 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 AA1 1 2 N SER A 3 ? N SER A 30 O TYR A 9 ? O TYR A 36 AA2 1 2 N CYS A 12 ? N CYS A 39 O ILE A 210 ? O ILE A 237 AA3 1 2 O ILE A 92 ? O ILE A 119 N ILE A 65 ? N ILE A 92 AA3 2 3 O PHE A 66 ? O PHE A 93 N PHE A 22 ? N PHE A 49 AA3 3 4 N LEU A 21 ? N LEU A 48 O ILE A 193 ? O ILE A 220 AA3 4 5 N TYR A 194 ? N TYR A 221 O ILE A 232 ? O ILE A 259 AA3 5 6 O GLU A 228 ? O GLU A 255 N HIS A 217 ? N HIS A 244 AA4 1 2 N ILE A 200 ? N ILE A 227 O ILE A 293 ? O ILE A 320 # _atom_sites.entry_id 7YM5 _atom_sites.Cartn_transf_matrix[1][1] ? _atom_sites.Cartn_transf_matrix[1][2] ? _atom_sites.Cartn_transf_matrix[1][3] ? _atom_sites.Cartn_transf_matrix[2][1] ? _atom_sites.Cartn_transf_matrix[2][2] ? _atom_sites.Cartn_transf_matrix[2][3] ? _atom_sites.Cartn_transf_matrix[3][1] ? _atom_sites.Cartn_transf_matrix[3][2] ? _atom_sites.Cartn_transf_matrix[3][3] ? _atom_sites.Cartn_transf_vector[1] ? _atom_sites.Cartn_transf_vector[2] ? _atom_sites.Cartn_transf_vector[3] ? _atom_sites.fract_transf_matrix[1][1] 0.008621 _atom_sites.fract_transf_matrix[1][2] 0.004977 _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] 0.009955 _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] 0.009897 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 _atom_sites.solution_primary ? _atom_sites.solution_secondary ? _atom_sites.solution_hydrogens ? _atom_sites.special_details ? # loop_ _atom_type.symbol _atom_type.scat_dispersion_real _atom_type.scat_dispersion_imag _atom_type.scat_Cromer_Mann_a1 _atom_type.scat_Cromer_Mann_a2 _atom_type.scat_Cromer_Mann_a3 _atom_type.scat_Cromer_Mann_a4 _atom_type.scat_Cromer_Mann_b1 _atom_type.scat_Cromer_Mann_b2 _atom_type.scat_Cromer_Mann_b3 _atom_type.scat_Cromer_Mann_b4 _atom_type.scat_Cromer_Mann_c _atom_type.scat_source _atom_type.scat_dispersion_source C ? ? 5.96793 ? ? ? 14.89577 ? ? ? 0.0 ;1-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? MN ? ? 20.23591 4.67902 ? ? 2.76514 44.01191 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? N ? ? 6.96715 ? ? ? 11.43723 ? ? ? 0.0 ;1-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? O ? ? 7.96527 ? ? ? 9.05267 ? ? ? 0.0 ;1-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? O1- ? ? 8.95260 ? ? ? 12.67477 ? ? ? 0.0 ;1-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? P ? ? 9.51135 5.44231 ? ? 1.42069 35.72801 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? S ? ? 15.91112 ? ? ? 10.84690 ? ? ? 0.0 ;1-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? # 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 PHE 1 28 28 PHE PHE A . n A 1 2 THR 2 29 29 THR THR A . n A 1 3 SER 3 30 30 SER SER A . n A 1 4 PHE 4 31 31 PHE PHE A . n A 1 5 ASN 5 32 32 ASN ASN A . n A 1 6 GLY 6 33 33 GLY GLY A . n A 1 7 LYS 7 34 34 LYS LYS A . n A 1 8 ASP 8 35 35 ASP ASP A . n A 1 9 TYR 9 36 36 TYR TYR A . n A 1 10 PRO 10 37 37 PRO PRO A . n A 1 11 LEU 11 38 38 LEU LEU A . n A 1 12 CYS 12 39 39 CYS CYS A . n A 1 13 PHE 13 40 40 PHE PHE A . n A 1 14 LEU 14 41 41 LEU LEU A . n A 1 15 ASP 15 42 42 ASP ASP A . n A 1 16 GLU 16 43 43 GLU GLU A . n A 1 17 LYS 17 44 44 LYS LYS A . n A 1 18 THR 18 45 45 THR THR A . n A 1 19 PRO 19 46 46 PRO PRO A . n A 1 20 LEU 20 47 47 LEU LEU A . n A 1 21 LEU 21 48 48 LEU LEU A . n A 1 22 PHE 22 49 49 PHE PHE A . n A 1 23 GLN 23 50 50 GLN GLN A . n A 1 24 TRP 24 51 51 TRP TRP A . n A 1 25 PHE 25 52 52 PHE PHE A . n A 1 26 GLU 26 53 53 GLU GLU A . n A 1 27 ARG 27 54 54 ARG ARG A . n A 1 28 ASN 28 55 55 ASN ASN A . n A 1 29 PRO 29 56 56 PRO PRO A . n A 1 30 ALA 30 57 57 ALA ALA A . n A 1 31 ARG 31 58 58 ARG ARG A . n A 1 32 PHE 32 59 59 PHE PHE A . n A 1 33 GLY 33 60 60 GLY GLY A . n A 1 34 LYS 34 61 61 LYS LYS A . n A 1 35 ASN 35 62 62 ASN ASN A . n A 1 36 ASP 36 63 63 ASP ASP A . n A 1 37 ILE 37 64 64 ILE ILE A . n A 1 38 PRO 38 65 65 PRO PRO A . n A 1 39 ILE 39 66 66 ILE ILE A . n A 1 40 ILE 40 67 67 ILE ILE A . n A 1 41 ASN 41 68 68 ASN ASN A . n A 1 42 THR 42 69 69 THR THR A . n A 1 43 GLU 43 70 70 GLU GLU A . n A 1 44 LYS 44 71 71 LYS LYS A . n A 1 45 ASN 45 72 72 ASN ASN A . n A 1 46 PRO 46 73 73 PRO PRO A . n A 1 47 TYR 47 74 74 TYR TYR A . n A 1 48 LEU 48 75 75 LEU LEU A . n A 1 49 ASN 49 76 76 ASN ASN A . n A 1 50 ASN 50 77 77 ASN ASN A . n A 1 51 ILE 51 78 78 ILE ILE A . n A 1 52 ILE 52 79 79 ILE ILE A . n A 1 53 LYS 53 80 80 LYS LYS A . n A 1 54 ALA 54 81 81 ALA ALA A . n A 1 55 ALA 55 82 82 ALA ALA A . n A 1 56 THR 56 83 83 THR THR A . n A 1 57 ILE 57 84 84 ILE ILE A . n A 1 58 GLU 58 85 85 GLU GLU A . n A 1 59 LYS 59 86 86 LYS LYS A . n A 1 60 GLU 60 87 87 GLU GLU A . n A 1 61 ARG 61 88 88 ARG ARG A . n A 1 62 LEU 62 89 89 LEU LEU A . n A 1 63 ILE 63 90 90 ILE ILE A . n A 1 64 GLY 64 91 91 GLY GLY A . n A 1 65 ILE 65 92 92 ILE ILE A . n A 1 66 PHE 66 93 93 PHE PHE A . n A 1 67 VAL 67 94 94 VAL VAL A . n A 1 68 ASP 68 95 95 ASP ASP A . n A 1 69 GLY 69 96 96 GLY GLY A . n A 1 70 ASP 70 97 97 ASP ASP A . n A 1 71 PHE 71 98 98 PHE PHE A . n A 1 72 PHE 72 99 99 PHE PHE A . n A 1 73 PRO 73 100 100 PRO PRO A . n A 1 74 GLY 74 101 101 GLY GLY A . n A 1 75 GLN 75 102 102 GLN GLN A . n A 1 76 LYS 76 103 103 LYS LYS A . n A 1 77 ASP 77 104 104 ASP ASP A . n A 1 78 ALA 78 105 105 ALA ALA A . n A 1 79 PHE 79 106 106 PHE PHE A . n A 1 80 SER 80 107 107 SER SER A . n A 1 81 LYS 81 108 108 LYS LYS A . n A 1 82 LEU 82 109 109 LEU LEU A . n A 1 83 GLU 83 110 110 GLU GLU A . n A 1 84 TYR 84 111 111 TYR TYR A . n A 1 85 ASP 85 112 112 ASP ASP A . n A 1 86 TYR 86 113 113 TYR TYR A . n A 1 87 GLU 87 114 114 GLU GLU A . n A 1 88 ASN 88 115 115 ASN ASN A . n A 1 89 ILE 89 116 116 ILE ILE A . n A 1 90 LYS 90 117 117 LYS LYS A . n A 1 91 VAL 91 118 118 VAL VAL A . n A 1 92 ILE 92 119 119 ILE ILE A . n A 1 93 TYR 93 120 120 TYR TYR A . n A 1 94 ARG 94 121 121 ARG ARG A . n A 1 95 ASN 95 122 122 ASN ASN A . n A 1 96 ASP 96 123 123 ASP ASP A . n A 1 97 ILE 97 124 124 ILE ILE A . n A 1 98 ASP 98 125 125 ASP ASP A . n A 1 99 PHE 99 126 126 PHE PHE A . n A 1 100 SER 100 127 127 SER SER A . n A 1 101 MET 101 128 128 MET MET A . n A 1 102 TYR 102 129 129 TYR TYR A . n A 1 103 ASP 103 130 130 ASP ASP A . n A 1 104 LYS 104 131 131 LYS LYS A . n A 1 105 LYS 105 132 132 LYS LYS A . n A 1 106 LEU 106 133 133 LEU LEU A . n A 1 107 SER 107 134 134 SER SER A . n A 1 108 GLU 108 135 135 GLU GLU A . n A 1 109 ILE 109 136 136 ILE ILE A . n A 1 110 TYR 110 137 137 TYR TYR A . n A 1 111 MET 111 138 138 MET MET A . n A 1 112 GLU 112 139 139 GLU GLU A . n A 1 113 ASN 113 140 140 ASN ASN A . n A 1 114 ILE 114 141 141 ILE ILE A . n A 1 115 SER 115 142 142 SER SER A . n A 1 116 LYS 116 143 143 LYS LYS A . n A 1 117 GLN 117 144 144 GLN GLN A . n A 1 118 GLU 118 145 145 GLU GLU A . n A 1 119 SER 119 146 146 SER SER A . n A 1 120 MET 120 147 147 MET MET A . n A 1 121 PRO 121 148 148 PRO PRO A . n A 1 122 GLU 122 149 149 GLU GLU A . n A 1 123 GLU 123 150 150 GLU GLU A . n A 1 124 LYS 124 151 151 LYS LYS A . n A 1 125 ARG 125 152 152 ARG ARG A . n A 1 126 ASP 126 153 153 ASP ASP A . n A 1 127 CYS 127 154 154 CYS CYS A . n A 1 128 HIS 128 155 155 HIS HIS A . n A 1 129 LEU 129 156 156 LEU LEU A . n A 1 130 LEU 130 157 157 LEU LEU A . n A 1 131 GLN 131 158 158 GLN GLN A . n A 1 132 LEU 132 159 159 LEU LEU A . n A 1 133 LEU 133 160 160 LEU LEU A . n A 1 134 LYS 134 161 161 LYS LYS A . n A 1 135 LYS 135 162 162 LYS LYS A . n A 1 136 GLU 136 163 163 GLU GLU A . n A 1 137 LEU 137 164 164 LEU LEU A . n A 1 138 SER 138 165 165 SER SER A . n A 1 139 ASP 139 166 166 ASP ASP A . n A 1 140 ILE 140 167 167 ILE ILE A . n A 1 141 GLN 141 168 168 GLN GLN A . n A 1 142 GLU 142 169 169 GLU GLU A . n A 1 143 GLY 143 170 170 GLY GLY A . n A 1 144 ASN 144 171 171 ASN ASN A . n A 1 145 ASP 145 172 172 ASP ASP A . n A 1 146 SER 146 173 173 SER SER A . n A 1 147 LEU 147 174 174 LEU LEU A . n A 1 148 ILE 148 175 175 ILE ILE A . n A 1 149 LYS 149 176 176 LYS LYS A . n A 1 150 SER 150 177 177 SER SER A . n A 1 151 TYR 151 178 178 TYR TYR A . n A 1 152 LEU 152 179 179 LEU LEU A . n A 1 153 LEU 153 180 180 LEU LEU A . n A 1 154 ASP 154 181 ? ? ? A . n A 1 155 LYS 155 182 ? ? ? A . n A 1 156 GLY 156 183 183 GLY GLY A . n A 1 157 HIS 157 184 184 HIS HIS A . n A 1 158 GLY 158 185 185 GLY GLY A . n A 1 159 TRP 159 186 186 TRP TRP A . n A 1 160 PHE 160 187 187 PHE PHE A . n A 1 161 ASP 161 188 188 ASP ASP A . n A 1 162 PHE 162 189 189 PHE PHE A . n A 1 163 TYR 163 190 190 TYR TYR A . n A 1 164 ARG 164 191 191 ARG ARG A . n A 1 165 ASN 165 192 192 ASN ASN A . n A 1 166 MET 166 193 193 MET MET A . n A 1 167 ALA 167 194 194 ALA ALA A . n A 1 168 MET 168 195 195 MET MET A . n A 1 169 LEU 169 196 196 LEU LEU A . n A 1 170 LYS 170 197 197 LYS LYS A . n A 1 171 ALA 171 198 198 ALA ALA A . n A 1 172 GLY 172 199 199 GLY GLY A . n A 1 173 GLN 173 200 200 GLN GLN A . n A 1 174 LEU 174 201 201 LEU LEU A . n A 1 175 PHE 175 202 202 PHE PHE A . n A 1 176 LEU 176 203 203 LEU LEU A . n A 1 177 GLU 177 204 204 GLU GLU A . n A 1 178 ALA 178 205 205 ALA ALA A . n A 1 179 ASP 179 206 206 ASP ASP A . n A 1 180 LYS 180 207 207 LYS LYS A . n A 1 181 VAL 181 208 208 VAL VAL A . n A 1 182 GLY 182 209 209 GLY GLY A . n A 1 183 CYS 183 210 210 CYS CYS A . n A 1 184 TYR 184 211 211 TYR TYR A . n A 1 185 ASP 185 212 212 ASP ASP A . n A 1 186 LEU 186 213 213 LEU LEU A . n A 1 187 SER 187 214 214 SER SER A . n A 1 188 THR 188 215 215 THR THR A . n A 1 189 ASN 189 216 216 ASN ASN A . n A 1 190 SER 190 217 217 SER SER A . n A 1 191 GLY 191 218 218 GLY GLY A . n A 1 192 CYS 192 219 219 CYS CYS A . n A 1 193 ILE 193 220 220 ILE ILE A . n A 1 194 TYR 194 221 221 TYR TYR A . n A 1 195 LEU 195 222 222 LEU LEU A . n A 1 196 ASP 196 223 223 ASP ASP A . n A 1 197 ALA 197 224 224 ALA ALA A . n A 1 198 ASP 198 225 225 ASP ASP A . n A 1 199 MET 199 226 226 MET MET A . n A 1 200 ILE 200 227 227 ILE ILE A . n A 1 201 ILE 201 228 228 ILE ILE A . n A 1 202 THR 202 229 229 THR THR A . n A 1 203 GLU 203 230 230 GLU GLU A . n A 1 204 LYS 204 231 231 LYS LYS A . n A 1 205 LEU 205 232 232 LEU LEU A . n A 1 206 GLY 206 233 233 GLY GLY A . n A 1 207 GLY 207 234 234 GLY GLY A . n A 1 208 ILE 208 235 235 ILE ILE A . n A 1 209 TYR 209 236 236 TYR TYR A . n A 1 210 ILE 210 237 237 ILE ILE A . n A 1 211 PRO 211 238 238 PRO PRO A . n A 1 212 ASP 212 239 239 ASP ASP A . n A 1 213 GLY 213 240 240 GLY GLY A . n A 1 214 ILE 214 241 241 ILE ILE A . n A 1 215 ALA 215 242 242 ALA ALA A . n A 1 216 VAL 216 243 243 VAL VAL A . n A 1 217 HIS 217 244 244 HIS HIS A . n A 1 218 VAL 218 245 245 VAL VAL A . n A 1 219 GLU 219 246 246 GLU GLU A . n A 1 220 ARG 220 247 247 ARG ARG A . n A 1 221 ILE 221 248 248 ILE ILE A . n A 1 222 ASP 222 249 249 ASP ASP A . n A 1 223 GLY 223 250 250 GLY GLY A . n A 1 224 ARG 224 251 251 ARG ARG A . n A 1 225 ALA 225 252 252 ALA ALA A . n A 1 226 SER 226 253 253 SER SER A . n A 1 227 MET 227 254 254 MET MET A . n A 1 228 GLU 228 255 255 GLU GLU A . n A 1 229 ASN 229 256 256 ASN ASN A . n A 1 230 GLY 230 257 257 GLY GLY A . n A 1 231 ILE 231 258 258 ILE ILE A . n A 1 232 ILE 232 259 259 ILE ILE A . n A 1 233 ALA 233 260 260 ALA ALA A . n A 1 234 VAL 234 261 261 VAL VAL A . n A 1 235 ASP 235 262 262 ASP ASP A . n A 1 236 ARG 236 263 263 ARG ARG A . n A 1 237 ASN 237 264 264 ASN ASN A . n A 1 238 ASN 238 265 265 ASN ASN A . n A 1 239 HIS 239 266 266 HIS HIS A . n A 1 240 PRO 240 267 267 PRO PRO A . n A 1 241 ALA 241 268 268 ALA ALA A . n A 1 242 LEU 242 269 269 LEU LEU A . n A 1 243 LEU 243 270 270 LEU LEU A . n A 1 244 ALA 244 271 271 ALA ALA A . n A 1 245 GLY 245 272 272 GLY GLY A . n A 1 246 LEU 246 273 273 LEU LEU A . n A 1 247 GLU 247 274 274 GLU GLU A . n A 1 248 ILE 248 275 275 ILE ILE A . n A 1 249 MET 249 276 276 MET MET A . n A 1 250 HIS 250 277 277 HIS HIS A . n A 1 251 THR 251 278 278 THR THR A . n A 1 252 LYS 252 279 279 LYS LYS A . n A 1 253 PHE 253 280 280 PHE PHE A . n A 1 254 ASP 254 281 281 ASP ASP A . n A 1 255 ALA 255 282 282 ALA ALA A . n A 1 256 ASP 256 283 283 ASP ASP A . n A 1 257 PRO 257 284 284 PRO PRO A . n A 1 258 TYR 258 285 285 TYR TYR A . n A 1 259 SER 259 286 286 SER SER A . n A 1 260 ASP 260 287 287 ASP ASP A . n A 1 261 GLY 261 288 288 GLY GLY A . n A 1 262 VAL 262 289 289 VAL VAL A . n A 1 263 CYS 263 290 290 CYS CYS A . n A 1 264 ASN 264 291 291 ASN ASN A . n A 1 265 GLY 265 292 292 GLY GLY A . n A 1 266 ILE 266 293 293 ILE ILE A . n A 1 267 ARG 267 294 294 ARG ARG A . n A 1 268 LYS 268 295 295 LYS LYS A . n A 1 269 HIS 269 296 296 HIS HIS A . n A 1 270 PHE 270 297 297 PHE PHE A . n A 1 271 ASN 271 298 298 ASN ASN A . n A 1 272 TYR 272 299 299 TYR TYR A . n A 1 273 SER 273 300 300 SER SER A . n A 1 274 LEU 274 301 301 LEU LEU A . n A 1 275 ASN 275 302 302 ASN ASN A . n A 1 276 GLU 276 303 303 GLU GLU A . n A 1 277 ASP 277 304 304 ASP ASP A . n A 1 278 TYR 278 305 305 TYR TYR A . n A 1 279 ASN 279 306 306 ASN ASN A . n A 1 280 SER 280 307 307 SER SER A . n A 1 281 PHE 281 308 308 PHE PHE A . n A 1 282 CYS 282 309 309 CYS CYS A . n A 1 283 ASP 283 310 310 ASP ASP A . n A 1 284 PHE 284 311 311 PHE PHE A . n A 1 285 ILE 285 312 312 ILE ILE A . n A 1 286 GLU 286 313 313 GLU GLU A . n A 1 287 PHE 287 314 314 PHE PHE A . n A 1 288 LYS 288 315 315 LYS LYS A . n A 1 289 HIS 289 316 316 HIS HIS A . n A 1 290 ASP 290 317 317 ASP ASP A . n A 1 291 ASN 291 318 318 ASN ASN A . n A 1 292 ILE 292 319 319 ILE ILE A . n A 1 293 ILE 293 320 320 ILE ILE A . n A 1 294 MET 294 321 321 MET MET A . n A 1 295 ASN 295 322 322 ASN ASN A . n A 1 296 THR 296 323 323 THR THR A . n A 1 297 SER 297 324 324 SER SER A . n A 1 298 GLN 298 325 325 GLN GLN A . n A 1 299 PHE 299 326 326 PHE PHE A . n A 1 300 THR 300 327 327 THR THR A . n A 1 301 GLN 301 328 328 GLN GLN A . n A 1 302 SER 302 329 329 SER SER A . n A 1 303 SER 303 330 330 SER SER A . n A 1 304 TRP 304 331 331 TRP TRP A . n A 1 305 ALA 305 332 332 ALA ALA A . n A 1 306 ARG 306 333 333 ARG ARG A . n # _pdbx_contact_author.id 2 _pdbx_contact_author.email uijin311@gmail.com _pdbx_contact_author.name_first Hyun-Soo _pdbx_contact_author.name_last Cho _pdbx_contact_author.name_mi ? _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0003-4067-4715 # 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 MN 1 401 403 MN MN A . C 3 UDP 1 402 404 UDP UDP A . D 4 HOH 1 501 551 HOH HOH A . # _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,C,D # 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)' 880 ? 1 MORE -13 ? 1 'SSA (A^2)' 14730 ? # _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 # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 OD2 ? A ASP 198 ? A ASP 225 ? 1_555 MN ? B MN . ? A MN 401 ? 1_555 OD1 ? A ASN 295 ? A ASN 322 ? 1_555 100.2 ? 2 OD2 ? A ASP 198 ? A ASP 225 ? 1_555 MN ? B MN . ? A MN 401 ? 1_555 OG ? A SER 297 ? A SER 324 ? 1_555 75.3 ? 3 OD1 ? A ASN 295 ? A ASN 322 ? 1_555 MN ? B MN . ? A MN 401 ? 1_555 OG ? A SER 297 ? A SER 324 ? 1_555 98.3 ? 4 OD2 ? A ASP 198 ? A ASP 225 ? 1_555 MN ? B MN . ? A MN 401 ? 1_555 O3B ? C UDP . ? A UDP 402 ? 1_555 157.6 ? 5 OD1 ? A ASN 295 ? A ASN 322 ? 1_555 MN ? B MN . ? A MN 401 ? 1_555 O3B ? C UDP . ? A UDP 402 ? 1_555 102.1 ? 6 OG ? A SER 297 ? A SER 324 ? 1_555 MN ? B MN . ? A MN 401 ? 1_555 O3B ? C UDP . ? A UDP 402 ? 1_555 102.6 ? 7 OD2 ? A ASP 198 ? A ASP 225 ? 1_555 MN ? B MN . ? A MN 401 ? 1_555 O2A ? C UDP . ? A UDP 402 ? 1_555 78.1 ? 8 OD1 ? A ASN 295 ? A ASN 322 ? 1_555 MN ? B MN . ? A MN 401 ? 1_555 O2A ? C UDP . ? A UDP 402 ? 1_555 173.9 ? 9 OG ? A SER 297 ? A SER 324 ? 1_555 MN ? B MN . ? A MN 401 ? 1_555 O2A ? C UDP . ? A UDP 402 ? 1_555 86.9 ? 10 O3B ? C UDP . ? A UDP 402 ? 1_555 MN ? B MN . ? A MN 401 ? 1_555 O2A ? C UDP . ? A UDP 402 ? 1_555 79.5 ? 11 OD2 ? A ASP 198 ? A ASP 225 ? 1_555 MN ? B MN . ? A MN 401 ? 1_555 O ? D HOH . ? A HOH 501 ? 1_555 85.5 ? 12 OD1 ? A ASN 295 ? A ASN 322 ? 1_555 MN ? B MN . ? A MN 401 ? 1_555 O ? D HOH . ? A HOH 501 ? 1_555 77.8 ? 13 OG ? A SER 297 ? A SER 324 ? 1_555 MN ? B MN . ? A MN 401 ? 1_555 O ? D HOH . ? A HOH 501 ? 1_555 159.5 ? 14 O3B ? C UDP . ? A UDP 402 ? 1_555 MN ? B MN . ? A MN 401 ? 1_555 O ? D HOH . ? A HOH 501 ? 1_555 97.8 ? 15 O2A ? C UDP . ? A UDP 402 ? 1_555 MN ? B MN . ? A MN 401 ? 1_555 O ? D HOH . ? A HOH 501 ? 1_555 96.2 ? # _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 2023-08-02 # _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_ _space_group_symop.id _space_group_symop.operation_xyz 1 x,y,z 2 x-y,x,z+1/3 3 y,-x+y,z+2/3 4 -y,x-y,z+2/3 5 -x+y,-x,z+1/3 6 x-y,-y,-z 7 -x,-x+y,-z+1/3 8 -x,-y,z 9 y,x,-z+2/3 10 -y,-x,-z+2/3 11 -x+y,y,-z 12 x,x-y,-z+1/3 # loop_ _software.citation_id _software.classification _software.compiler_name _software.compiler_version _software.contact_author _software.contact_author_email _software.date _software.description _software.dependencies _software.hardware _software.language _software.location _software.mods _software.name _software.os _software.os_version _software.type _software.version _software.pdbx_ordinal ? refinement ? ? ? ? ? ? ? ? ? ? ? REFMAC ? ? ? v1.0 1 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? iMOSFLM ? ? ? . 2 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? pointless ? ? ? . 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? MOLREP ? ? ? . 4 # _pdbx_entry_details.entry_id 7YM5 _pdbx_entry_details.has_ligand_of_interest Y _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? # loop_ _pdbx_validate_symm_contact.id _pdbx_validate_symm_contact.PDB_model_num _pdbx_validate_symm_contact.auth_atom_id_1 _pdbx_validate_symm_contact.auth_asym_id_1 _pdbx_validate_symm_contact.auth_comp_id_1 _pdbx_validate_symm_contact.auth_seq_id_1 _pdbx_validate_symm_contact.PDB_ins_code_1 _pdbx_validate_symm_contact.label_alt_id_1 _pdbx_validate_symm_contact.site_symmetry_1 _pdbx_validate_symm_contact.auth_atom_id_2 _pdbx_validate_symm_contact.auth_asym_id_2 _pdbx_validate_symm_contact.auth_comp_id_2 _pdbx_validate_symm_contact.auth_seq_id_2 _pdbx_validate_symm_contact.PDB_ins_code_2 _pdbx_validate_symm_contact.label_alt_id_2 _pdbx_validate_symm_contact.site_symmetry_2 _pdbx_validate_symm_contact.dist 1 1 CB A CYS 154 ? ? 1_555 SG A CYS 154 ? ? 11_555 1.72 2 1 CB A CYS 154 ? ? 1_555 CB A CYS 154 ? ? 11_555 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 ASN A 32 ? ? -137.21 -66.00 2 1 PRO A 65 ? ? -77.56 41.43 3 1 ASN A 68 ? ? -140.76 55.08 4 1 TYR A 178 ? ? -90.41 57.61 5 1 ALA A 198 ? ? 54.48 -125.82 6 1 ASP A 212 ? ? -141.63 -3.49 7 1 ILE A 248 ? ? -113.23 -135.36 8 1 VAL A 289 ? ? -126.45 -60.21 9 1 SER A 300 ? ? 85.31 -7.62 10 1 LEU A 301 ? ? 70.30 -46.62 11 1 THR A 327 ? ? -136.08 -69.71 12 1 GLN A 328 ? ? 178.39 150.36 # _pdbx_validate_main_chain_plane.id 1 _pdbx_validate_main_chain_plane.PDB_model_num 1 _pdbx_validate_main_chain_plane.auth_comp_id ASP _pdbx_validate_main_chain_plane.auth_asym_id A _pdbx_validate_main_chain_plane.auth_seq_id 225 _pdbx_validate_main_chain_plane.PDB_ins_code ? _pdbx_validate_main_chain_plane.label_alt_id ? _pdbx_validate_main_chain_plane.improper_torsion_angle -10.27 # 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 GLN 168 ? CG ? A GLN 141 CG 2 1 Y 1 A GLN 168 ? CD ? A GLN 141 CD 3 1 Y 1 A GLN 168 ? OE1 ? A GLN 141 OE1 4 1 Y 1 A GLN 168 ? NE2 ? A GLN 141 NE2 5 1 Y 1 A ASP 249 ? CG ? A ASP 222 CG 6 1 Y 1 A ASP 249 ? OD1 ? A ASP 222 OD1 7 1 Y 1 A ASP 249 ? OD2 ? A ASP 222 OD2 # 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 ASP 181 ? A ASP 154 2 1 Y 1 A LYS 182 ? A LYS 155 # _pdbx_audit_support.funding_organization 'National Research Foundation (NRF, Korea)' _pdbx_audit_support.country 'Korea, Republic Of' _pdbx_audit_support.grant_number ? _pdbx_audit_support.ordinal 1 # loop_ _pdbx_entity_instance_feature.ordinal _pdbx_entity_instance_feature.comp_id _pdbx_entity_instance_feature.asym_id _pdbx_entity_instance_feature.seq_num _pdbx_entity_instance_feature.auth_comp_id _pdbx_entity_instance_feature.auth_asym_id _pdbx_entity_instance_feature.auth_seq_num _pdbx_entity_instance_feature.feature_type _pdbx_entity_instance_feature.details 1 MN ? ? MN ? ? 'SUBJECT OF INVESTIGATION' ? 2 UDP ? ? UDP ? ? 'SUBJECT OF INVESTIGATION' ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'MANGANESE (II) ION' MN 3 "URIDINE-5'-DIPHOSPHATE" UDP 4 water HOH # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support none _pdbx_struct_assembly_auth_evidence.details ? # _space_group.name_H-M_alt 'P 62 2 2' _space_group.name_Hall 'P 62 2 (x,y,z+1/3)' _space_group.IT_number 180 _space_group.crystal_system hexagonal _space_group.id 1 #