data_3BNZ # _entry.id 3BNZ # _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 3BNZ RCSB RCSB045751 WWPDB D_1000045751 # _pdbx_database_related.db_name PDB _pdbx_database_related.db_id 1LCA _pdbx_database_related.details 'LACTOBACILLUS CASEI THYMIDYLATE SYNTHASE TERNARY COMPLEX WITH DUMP AND CB3717' _pdbx_database_related.content_type unspecified # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3BNZ _pdbx_database_status.recvd_initial_deposition_date 2007-12-15 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site PDBJ _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Leone, R.' 1 'Cancian, L.' 2 'Luciani, R.' 3 'Ferrari, S.' 4 'Costi, M.P.' 5 'Mangani, S.' 6 # _citation.id primary _citation.title ;Identification of the binding modes of N-phenylphthalimides inhibiting bacterial thymidylate synthase through X-ray crystallography screening ; _citation.journal_abbrev J.Med.Chem. _citation.journal_volume 54 _citation.page_first 5454 _citation.page_last 5467 _citation.year 2011 _citation.journal_id_ASTM JMCMAR _citation.country US _citation.journal_id_ISSN 0022-2623 _citation.journal_id_CSD 0151 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 21696158 _citation.pdbx_database_id_DOI 10.1021/jm2005018 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal primary 'Mangani, S.' 1 primary 'Cancian, L.' 2 primary 'Leone, R.' 3 primary 'Pozzi, C.' 4 primary 'Lazzari, S.' 5 primary 'Luciani, R.' 6 primary 'Ferrari, S.' 7 primary 'Costi, M.P.' 8 # _cell.entry_id 3BNZ _cell.length_a 76.563 _cell.length_b 76.563 _cell.length_c 213.073 _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 3BNZ _symmetry.space_group_name_H-M 'P 61 2 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _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 'Thymidylate synthase' 36630.453 1 2.1.1.45 ? ? ? 2 non-polymer syn 'PHOSPHATE ION' 94.971 1 ? ? ? ? 3 non-polymer syn ;2'-DEOXYURIDINE 5'-MONOPHOSPHATE ; 308.182 1 ? ? ? ? 4 non-polymer syn '4-(4-methyl-1,3-dioxo-1,3-dihydro-2H-isoindol-2-yl)benzonitrile' 262.263 1 ? ? ? ? 5 water nat water 18.015 73 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'TS, TSase' # _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 ;MLEQPYLDLAKKVLDEGHFKPDRTHTGTYSIFGHQMRFDLSKGFPLLTTKKVPFGLIKSELLWFLHGDTNIRFLLQHRNH IWDEWAFEKWVKSDEYHGPDMTDFGHRSQKDPEFAAVYHEEMAKFDDRVLHDDAFAAKYGDLGLVYGSQWRAWHTSKGDT IDQLGDVIEQIKTHPYSRRLIVSAWNPEDVPTMALPPCHTLYQFYVNDGKLSLQLYQRSADIFLGVPFNIASYALLTHLV AHECGLEVGEFIHTFGDAHLYVNHLDQIKEQLSRTPRPAPTLQLNPDKHDIFDFDMKDIKLLNYDPYPAIKAPVAV ; _entity_poly.pdbx_seq_one_letter_code_can ;MLEQPYLDLAKKVLDEGHFKPDRTHTGTYSIFGHQMRFDLSKGFPLLTTKKVPFGLIKSELLWFLHGDTNIRFLLQHRNH IWDEWAFEKWVKSDEYHGPDMTDFGHRSQKDPEFAAVYHEEMAKFDDRVLHDDAFAAKYGDLGLVYGSQWRAWHTSKGDT IDQLGDVIEQIKTHPYSRRLIVSAWNPEDVPTMALPPCHTLYQFYVNDGKLSLQLYQRSADIFLGVPFNIASYALLTHLV AHECGLEVGEFIHTFGDAHLYVNHLDQIKEQLSRTPRPAPTLQLNPDKHDIFDFDMKDIKLLNYDPYPAIKAPVAV ; _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 MET n 1 2 LEU n 1 3 GLU n 1 4 GLN n 1 5 PRO n 1 6 TYR n 1 7 LEU n 1 8 ASP n 1 9 LEU n 1 10 ALA n 1 11 LYS n 1 12 LYS n 1 13 VAL n 1 14 LEU n 1 15 ASP n 1 16 GLU n 1 17 GLY n 1 18 HIS n 1 19 PHE n 1 20 LYS n 1 21 PRO n 1 22 ASP n 1 23 ARG n 1 24 THR n 1 25 HIS n 1 26 THR n 1 27 GLY n 1 28 THR n 1 29 TYR n 1 30 SER n 1 31 ILE n 1 32 PHE n 1 33 GLY n 1 34 HIS n 1 35 GLN n 1 36 MET n 1 37 ARG n 1 38 PHE n 1 39 ASP n 1 40 LEU n 1 41 SER n 1 42 LYS n 1 43 GLY n 1 44 PHE n 1 45 PRO n 1 46 LEU n 1 47 LEU n 1 48 THR n 1 49 THR n 1 50 LYS n 1 51 LYS n 1 52 VAL n 1 53 PRO n 1 54 PHE n 1 55 GLY n 1 56 LEU n 1 57 ILE n 1 58 LYS n 1 59 SER n 1 60 GLU n 1 61 LEU n 1 62 LEU n 1 63 TRP n 1 64 PHE n 1 65 LEU n 1 66 HIS n 1 67 GLY n 1 68 ASP n 1 69 THR n 1 70 ASN n 1 71 ILE n 1 72 ARG n 1 73 PHE n 1 74 LEU n 1 75 LEU n 1 76 GLN n 1 77 HIS n 1 78 ARG n 1 79 ASN n 1 80 HIS n 1 81 ILE n 1 82 TRP n 1 83 ASP n 1 84 GLU n 1 85 TRP n 1 86 ALA n 1 87 PHE n 1 88 GLU n 1 89 LYS n 1 90 TRP n 1 91 VAL n 1 92 LYS n 1 93 SER n 1 94 ASP n 1 95 GLU n 1 96 TYR n 1 97 HIS n 1 98 GLY n 1 99 PRO n 1 100 ASP n 1 101 MET n 1 102 THR n 1 103 ASP n 1 104 PHE n 1 105 GLY n 1 106 HIS n 1 107 ARG n 1 108 SER n 1 109 GLN n 1 110 LYS n 1 111 ASP n 1 112 PRO n 1 113 GLU n 1 114 PHE n 1 115 ALA n 1 116 ALA n 1 117 VAL n 1 118 TYR n 1 119 HIS n 1 120 GLU n 1 121 GLU n 1 122 MET n 1 123 ALA n 1 124 LYS n 1 125 PHE n 1 126 ASP n 1 127 ASP n 1 128 ARG n 1 129 VAL n 1 130 LEU n 1 131 HIS n 1 132 ASP n 1 133 ASP n 1 134 ALA n 1 135 PHE n 1 136 ALA n 1 137 ALA n 1 138 LYS n 1 139 TYR n 1 140 GLY n 1 141 ASP n 1 142 LEU n 1 143 GLY n 1 144 LEU n 1 145 VAL n 1 146 TYR n 1 147 GLY n 1 148 SER n 1 149 GLN n 1 150 TRP n 1 151 ARG n 1 152 ALA n 1 153 TRP n 1 154 HIS n 1 155 THR n 1 156 SER n 1 157 LYS n 1 158 GLY n 1 159 ASP n 1 160 THR n 1 161 ILE n 1 162 ASP n 1 163 GLN n 1 164 LEU n 1 165 GLY n 1 166 ASP n 1 167 VAL n 1 168 ILE n 1 169 GLU n 1 170 GLN n 1 171 ILE n 1 172 LYS n 1 173 THR n 1 174 HIS n 1 175 PRO n 1 176 TYR n 1 177 SER n 1 178 ARG n 1 179 ARG n 1 180 LEU n 1 181 ILE n 1 182 VAL n 1 183 SER n 1 184 ALA n 1 185 TRP n 1 186 ASN n 1 187 PRO n 1 188 GLU n 1 189 ASP n 1 190 VAL n 1 191 PRO n 1 192 THR n 1 193 MET n 1 194 ALA n 1 195 LEU n 1 196 PRO n 1 197 PRO n 1 198 CYS n 1 199 HIS n 1 200 THR n 1 201 LEU n 1 202 TYR n 1 203 GLN n 1 204 PHE n 1 205 TYR n 1 206 VAL n 1 207 ASN n 1 208 ASP n 1 209 GLY n 1 210 LYS n 1 211 LEU n 1 212 SER n 1 213 LEU n 1 214 GLN n 1 215 LEU n 1 216 TYR n 1 217 GLN n 1 218 ARG n 1 219 SER n 1 220 ALA n 1 221 ASP n 1 222 ILE n 1 223 PHE n 1 224 LEU n 1 225 GLY n 1 226 VAL n 1 227 PRO n 1 228 PHE n 1 229 ASN n 1 230 ILE n 1 231 ALA n 1 232 SER n 1 233 TYR n 1 234 ALA n 1 235 LEU n 1 236 LEU n 1 237 THR n 1 238 HIS n 1 239 LEU n 1 240 VAL n 1 241 ALA n 1 242 HIS n 1 243 GLU n 1 244 CYS n 1 245 GLY n 1 246 LEU n 1 247 GLU n 1 248 VAL n 1 249 GLY n 1 250 GLU n 1 251 PHE n 1 252 ILE n 1 253 HIS n 1 254 THR n 1 255 PHE n 1 256 GLY n 1 257 ASP n 1 258 ALA n 1 259 HIS n 1 260 LEU n 1 261 TYR n 1 262 VAL n 1 263 ASN n 1 264 HIS n 1 265 LEU n 1 266 ASP n 1 267 GLN n 1 268 ILE n 1 269 LYS n 1 270 GLU n 1 271 GLN n 1 272 LEU n 1 273 SER n 1 274 ARG n 1 275 THR n 1 276 PRO n 1 277 ARG n 1 278 PRO n 1 279 ALA n 1 280 PRO n 1 281 THR n 1 282 LEU n 1 283 GLN n 1 284 LEU n 1 285 ASN n 1 286 PRO n 1 287 ASP n 1 288 LYS n 1 289 HIS n 1 290 ASP n 1 291 ILE n 1 292 PHE n 1 293 ASP n 1 294 PHE n 1 295 ASP n 1 296 MET n 1 297 LYS n 1 298 ASP n 1 299 ILE n 1 300 LYS n 1 301 LEU n 1 302 LEU n 1 303 ASN n 1 304 TYR n 1 305 ASP n 1 306 PRO n 1 307 TYR n 1 308 PRO n 1 309 ALA n 1 310 ILE n 1 311 LYS n 1 312 ALA n 1 313 PRO n 1 314 VAL n 1 315 ALA n 1 316 VAL n # _entity_src_gen.entity_id 1 _entity_src_gen.pdbx_src_id 1 _entity_src_gen.pdbx_alt_source_flag sample _entity_src_gen.pdbx_seq_type ? _entity_src_gen.pdbx_beg_seq_num ? _entity_src_gen.pdbx_end_seq_num ? _entity_src_gen.gene_src_common_name ? _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene ? _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 'Lactobacillus casei' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 1582 _entity_src_gen.pdbx_gene_src_variant ? _entity_src_gen.pdbx_gene_src_cell_line ? _entity_src_gen.pdbx_gene_src_atcc ? _entity_src_gen.pdbx_gene_src_organ ? _entity_src_gen.pdbx_gene_src_organelle ? _entity_src_gen.pdbx_gene_src_cell ? _entity_src_gen.pdbx_gene_src_cellular_location ? _entity_src_gen.host_org_common_name ? _entity_src_gen.pdbx_host_org_scientific_name 'Escherichia coli' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 562 _entity_src_gen.host_org_genus ? _entity_src_gen.pdbx_host_org_gene ? _entity_src_gen.pdbx_host_org_organ ? _entity_src_gen.host_org_species ? _entity_src_gen.pdbx_host_org_tissue ? _entity_src_gen.pdbx_host_org_tissue_fraction ? _entity_src_gen.pdbx_host_org_strain ? _entity_src_gen.pdbx_host_org_variant ? _entity_src_gen.pdbx_host_org_cell_line ? _entity_src_gen.pdbx_host_org_atcc ? _entity_src_gen.pdbx_host_org_culture_collection ? _entity_src_gen.pdbx_host_org_cell ? _entity_src_gen.pdbx_host_org_organelle ? _entity_src_gen.pdbx_host_org_cellular_location ? _entity_src_gen.pdbx_host_org_vector_type plasmid _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name ? _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code TYSY_LACCA _struct_ref.pdbx_db_accession P00469 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;MLEQPYLDLAKKVLDEGHFKPDRTHTGTYSIFGHQMRFDLSKGFPLLTTKKVPFGLIKSELLWFLHGDTNIRFLLQHRNH IWDEWAFEKWVKSDEYHGPDMTDFGHRSQKDPEFAAVYHEEMAKFDDRVLHDDAFAAKYGDLGLVYGSQWRAWHTSKGDT IDQLGDVIEQIKTHPYSRRLIVSAWNPEDVPTMALPPCHTLYQFYVNDGKLSLQLYQRSADIFLGVPFNIASYALLTHLV AHECGLEVGEFIHTFGDAHLYVNHLDQIKEQLSRTPRPAPTLQLNPDKHDIFDFDMKDIKLLNYDPYPAIKAPVAV ; _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 3BNZ _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 316 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession P00469 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 316 _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 316 # 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 C16 non-polymer . '4-(4-methyl-1,3-dioxo-1,3-dihydro-2H-isoindol-2-yl)benzonitrile' ? 'C16 H10 N2 O2' 262.263 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 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 UMP non-polymer . ;2'-DEOXYURIDINE 5'-MONOPHOSPHATE ; DUMP 'C9 H13 N2 O8 P' 308.182 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # _exptl.entry_id 3BNZ _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.46 _exptl_crystal.density_percent_sol 50.02 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.temp 293 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.4 _exptl_crystal_grow.pdbx_details '100mM (NH4)H2PO4/(NH4)2HPO4, 5% v/v PEG 400, 20mM Tris-HCl buffer pH 7.4, VAPOR DIFFUSION, SITTING DROP, temperature 293K' _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 4' _diffrn_detector.pdbx_collection_date 2005-02-15 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.930 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'ESRF BEAMLINE ID14-1' _diffrn_source.pdbx_synchrotron_site ESRF _diffrn_source.pdbx_synchrotron_beamline ID14-1 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.930 # _reflns.entry_id 3BNZ _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.d_resolution_high 2.60 _reflns.d_resolution_low 48.468 _reflns.number_all 12116 _reflns.number_obs 11978 _reflns.percent_possible_obs ? _reflns.pdbx_Rmerge_I_obs 0.169 _reflns.pdbx_Rsym_value 0.169 _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate 59.330 _reflns.pdbx_redundancy ? _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_ordinal 1 _reflns.pdbx_diffrn_id 1 # _reflns_shell.d_res_high 2.60 _reflns_shell.d_res_low 2.74 _reflns_shell.percent_possible_all ? _reflns_shell.Rmerge_I_obs 0.418 _reflns_shell.pdbx_Rsym_value 0.418 _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.pdbx_redundancy ? _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all 1715 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 # _refine.entry_id 3BNZ _refine.ls_number_reflns_obs 11341 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 36.04 _refine.ls_d_res_high 2.60 _refine.ls_percent_reflns_obs 100.00 _refine.ls_R_factor_obs 0.21913 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.21414 _refine.ls_R_factor_R_free 0.32347 _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 568 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.930 _refine.correlation_coeff_Fo_to_Fc_free 0.833 _refine.B_iso_mean 45.236 _refine.aniso_B[1][1] 0.12 _refine.aniso_B[2][2] 0.12 _refine.aniso_B[3][3] -0.18 _refine.aniso_B[1][2] 0.06 _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 'PDB entry 1LCA' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _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 1.305 _refine.pdbx_overall_ESU_R_Free 0.418 _refine.overall_SU_ML ? _refine.overall_SU_B ? _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_overall_phase_error ? _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 2565 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 45 _refine_hist.number_atoms_solvent 73 _refine_hist.number_atoms_total 2683 _refine_hist.d_res_high 2.60 _refine_hist.d_res_low 36.04 # 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 0.018 0.021 ? 2711 'X-RAY DIFFRACTION' ? r_angle_refined_deg 2.169 1.959 ? 3690 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 8.529 5.000 ? 313 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 38.325 23.897 ? 136 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 23.852 15.000 ? 432 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 22.698 15.000 ? 12 'X-RAY DIFFRACTION' ? r_chiral_restr 0.134 0.200 ? 380 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.006 0.020 ? 2107 'X-RAY DIFFRACTION' ? r_nbd_refined 0.288 0.200 ? 1359 'X-RAY DIFFRACTION' ? r_nbtor_refined 0.324 0.200 ? 1748 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 0.207 0.200 ? 139 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined 0.312 0.200 ? 93 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 0.323 0.200 ? 13 'X-RAY DIFFRACTION' ? r_mcbond_it 0.834 1.500 ? 1570 'X-RAY DIFFRACTION' ? r_mcangle_it 1.549 2.000 ? 2539 'X-RAY DIFFRACTION' ? r_scbond_it 2.002 3.000 ? 1141 'X-RAY DIFFRACTION' ? r_scangle_it 3.080 4.500 ? 1151 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 2.600 _refine_ls_shell.d_res_low 2.668 _refine_ls_shell.number_reflns_R_work 819 _refine_ls_shell.R_factor_R_work 0.284 _refine_ls_shell.percent_reflns_obs 100.00 _refine_ls_shell.R_factor_R_free 0.364 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 39 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 3BNZ _struct.title 'Crystal structure of Thymidylate Synthase ternary complex with dUMP and 8A inhibitor' _struct.pdbx_descriptor 'Thymidylate synthase (E.C.2.1.1.45)' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3BNZ _struct_keywords.pdbx_keywords TRANSFERASE _struct_keywords.text 'Thymidylate Synthase, Methyltransferase, Nucleotide biosynthesis, Transferase' # 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 ? E N N 5 ? # _struct_biol.id 1 _struct_biol.details ? # loop_ _struct_conf.conf_type_id _struct_conf.id _struct_conf.pdbx_PDB_helix_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_seq_id _struct_conf.pdbx_beg_PDB_ins_code _struct_conf.end_label_comp_id _struct_conf.end_label_asym_id _struct_conf.end_label_seq_id _struct_conf.pdbx_end_PDB_ins_code _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_seq_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.details _struct_conf.pdbx_PDB_helix_length HELX_P HELX_P1 1 GLU A 3 ? GLY A 17 ? GLU A 3 GLY A 17 1 ? 15 HELX_P HELX_P2 2 SER A 41 ? GLY A 43 ? SER A 41 GLY A 43 5 ? 3 HELX_P HELX_P3 3 PRO A 53 ? HIS A 66 ? PRO A 53 HIS A 66 1 ? 14 HELX_P HELX_P4 4 ASN A 70 ? GLN A 76 ? ASN A 70 GLN A 76 1 ? 7 HELX_P HELX_P5 5 TRP A 82 ? SER A 93 ? TRP A 82 SER A 93 1 ? 12 HELX_P HELX_P6 6 ASP A 111 ? ASP A 132 ? ASP A 111 ASP A 132 1 ? 22 HELX_P HELX_P7 7 ASP A 132 ? GLY A 140 ? ASP A 132 GLY A 140 1 ? 9 HELX_P HELX_P8 8 VAL A 145 ? ALA A 152 ? VAL A 145 ALA A 152 1 ? 8 HELX_P HELX_P9 9 ASP A 162 ? HIS A 174 ? ASP A 162 HIS A 174 1 ? 13 HELX_P HELX_P10 10 ASP A 189 ? MET A 193 ? ASP A 189 MET A 193 5 ? 5 HELX_P HELX_P11 11 LEU A 224 ? CYS A 244 ? LEU A 224 CYS A 244 1 ? 21 HELX_P HELX_P12 12 HIS A 264 ? LEU A 272 ? HIS A 264 LEU A 272 1 ? 9 HELX_P HELX_P13 13 ASP A 290 ? PHE A 294 ? ASP A 290 PHE A 294 5 ? 5 HELX_P HELX_P14 14 ASP A 295 ? LYS A 297 ? ASP A 295 LYS A 297 5 ? 3 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 6 ? B ? 2 ? C ? 2 ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense A 1 2 ? anti-parallel A 2 3 ? anti-parallel A 3 4 ? parallel A 4 5 ? anti-parallel A 5 6 ? anti-parallel B 1 2 ? anti-parallel C 1 2 ? anti-parallel # loop_ _struct_sheet_range.sheet_id _struct_sheet_range.id _struct_sheet_range.beg_label_comp_id _struct_sheet_range.beg_label_asym_id _struct_sheet_range.beg_label_seq_id _struct_sheet_range.pdbx_beg_PDB_ins_code _struct_sheet_range.end_label_comp_id _struct_sheet_range.end_label_asym_id _struct_sheet_range.end_label_seq_id _struct_sheet_range.pdbx_end_PDB_ins_code _struct_sheet_range.beg_auth_comp_id _struct_sheet_range.beg_auth_asym_id _struct_sheet_range.beg_auth_seq_id _struct_sheet_range.end_auth_comp_id _struct_sheet_range.end_auth_asym_id _struct_sheet_range.end_auth_seq_id A 1 HIS A 18 ? PRO A 21 ? HIS A 18 PRO A 21 A 2 GLY A 27 ? ASP A 39 ? GLY A 27 ASP A 39 A 3 GLU A 247 ? TYR A 261 ? GLU A 247 TYR A 261 A 4 LYS A 210 ? ASP A 221 ? LYS A 210 ASP A 221 A 5 HIS A 199 ? ASN A 207 ? HIS A 199 ASN A 207 A 6 ILE A 181 ? SER A 183 ? ILE A 181 SER A 183 B 1 TRP A 153 ? HIS A 154 ? TRP A 153 HIS A 154 B 2 THR A 160 ? ILE A 161 ? THR A 160 ILE A 161 C 1 THR A 281 ? LEU A 284 ? THR A 281 LEU A 284 C 2 ILE A 299 ? LEU A 302 ? ILE A 299 LEU A 302 # loop_ _pdbx_struct_sheet_hbond.sheet_id _pdbx_struct_sheet_hbond.range_id_1 _pdbx_struct_sheet_hbond.range_id_2 _pdbx_struct_sheet_hbond.range_1_label_atom_id _pdbx_struct_sheet_hbond.range_1_label_comp_id _pdbx_struct_sheet_hbond.range_1_label_asym_id _pdbx_struct_sheet_hbond.range_1_label_seq_id _pdbx_struct_sheet_hbond.range_1_PDB_ins_code _pdbx_struct_sheet_hbond.range_1_auth_atom_id _pdbx_struct_sheet_hbond.range_1_auth_comp_id _pdbx_struct_sheet_hbond.range_1_auth_asym_id _pdbx_struct_sheet_hbond.range_1_auth_seq_id _pdbx_struct_sheet_hbond.range_2_label_atom_id _pdbx_struct_sheet_hbond.range_2_label_comp_id _pdbx_struct_sheet_hbond.range_2_label_asym_id _pdbx_struct_sheet_hbond.range_2_label_seq_id _pdbx_struct_sheet_hbond.range_2_PDB_ins_code _pdbx_struct_sheet_hbond.range_2_auth_atom_id _pdbx_struct_sheet_hbond.range_2_auth_comp_id _pdbx_struct_sheet_hbond.range_2_auth_asym_id _pdbx_struct_sheet_hbond.range_2_auth_seq_id A 1 2 N HIS A 18 ? N HIS A 18 O SER A 30 ? O SER A 30 A 2 3 N MET A 36 ? N MET A 36 O HIS A 253 ? O HIS A 253 A 3 4 O THR A 254 ? O THR A 254 N GLN A 217 ? N GLN A 217 A 4 5 O SER A 212 ? O SER A 212 N TYR A 205 ? N TYR A 205 A 5 6 O TYR A 202 ? O TYR A 202 N VAL A 182 ? N VAL A 182 B 1 2 N TRP A 153 ? N TRP A 153 O ILE A 161 ? O ILE A 161 C 1 2 N GLN A 283 ? N GLN A 283 O LYS A 300 ? O LYS A 300 # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software ? ? ? ? 4 'BINDING SITE FOR RESIDUE PO4 A 319' AC2 Software ? ? ? ? 15 'BINDING SITE FOR RESIDUE UMP A 317' AC3 Software ? ? ? ? 6 'BINDING SITE FOR RESIDUE C16 A 318' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 4 HIS A 77 ? HIS A 77 . ? 1_555 ? 2 AC1 4 ASP A 295 ? ASP A 295 . ? 1_555 ? 3 AC1 4 MET A 296 ? MET A 296 . ? 1_555 ? 4 AC1 4 LYS A 297 ? LYS A 297 . ? 1_555 ? 5 AC2 15 ARG A 23 ? ARG A 23 . ? 1_555 ? 6 AC2 15 ARG A 178 ? ARG A 178 . ? 10_554 ? 7 AC2 15 ARG A 179 ? ARG A 179 . ? 10_554 ? 8 AC2 15 CYS A 198 ? CYS A 198 . ? 1_555 ? 9 AC2 15 HIS A 199 ? HIS A 199 . ? 1_555 ? 10 AC2 15 GLN A 217 ? GLN A 217 . ? 1_555 ? 11 AC2 15 ARG A 218 ? ARG A 218 . ? 1_555 ? 12 AC2 15 SER A 219 ? SER A 219 . ? 1_555 ? 13 AC2 15 ALA A 220 ? ALA A 220 . ? 1_555 ? 14 AC2 15 ASP A 221 ? ASP A 221 . ? 1_555 ? 15 AC2 15 GLY A 225 ? GLY A 225 . ? 1_555 ? 16 AC2 15 ASN A 229 ? ASN A 229 . ? 1_555 ? 17 AC2 15 HIS A 259 ? HIS A 259 . ? 1_555 ? 18 AC2 15 TYR A 261 ? TYR A 261 . ? 1_555 ? 19 AC2 15 C16 D . ? C16 A 318 . ? 1_555 ? 20 AC3 6 ILE A 81 ? ILE A 81 . ? 1_555 ? 21 AC3 6 GLU A 84 ? GLU A 84 . ? 1_555 ? 22 AC3 6 LEU A 224 ? LEU A 224 . ? 1_555 ? 23 AC3 6 PHE A 228 ? PHE A 228 . ? 1_555 ? 24 AC3 6 ASN A 229 ? ASN A 229 . ? 1_555 ? 25 AC3 6 UMP C . ? UMP A 317 . ? 1_555 ? # _database_PDB_matrix.entry_id 3BNZ _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 3BNZ _atom_sites.fract_transf_matrix[1][1] 0.013061 _atom_sites.fract_transf_matrix[1][2] 0.007541 _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] 0.015082 _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] 0.004693 _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 # 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 MET 1 1 1 MET MET A . n A 1 2 LEU 2 2 2 LEU LEU A . n A 1 3 GLU 3 3 3 GLU GLU A . n A 1 4 GLN 4 4 4 GLN GLN A . n A 1 5 PRO 5 5 5 PRO PRO A . n A 1 6 TYR 6 6 6 TYR TYR A . n A 1 7 LEU 7 7 7 LEU LEU A . n A 1 8 ASP 8 8 8 ASP ASP A . n A 1 9 LEU 9 9 9 LEU LEU A . n A 1 10 ALA 10 10 10 ALA ALA A . n A 1 11 LYS 11 11 11 LYS LYS A . n A 1 12 LYS 12 12 12 LYS LYS A . n A 1 13 VAL 13 13 13 VAL VAL A . n A 1 14 LEU 14 14 14 LEU LEU A . n A 1 15 ASP 15 15 15 ASP ASP A . n A 1 16 GLU 16 16 16 GLU GLU A . n A 1 17 GLY 17 17 17 GLY GLY A . n A 1 18 HIS 18 18 18 HIS HIS A . n A 1 19 PHE 19 19 19 PHE PHE A . n A 1 20 LYS 20 20 20 LYS LYS A . n A 1 21 PRO 21 21 21 PRO PRO A . n A 1 22 ASP 22 22 22 ASP ASP A . n A 1 23 ARG 23 23 23 ARG ARG A . n A 1 24 THR 24 24 24 THR THR A . n A 1 25 HIS 25 25 25 HIS HIS A . n A 1 26 THR 26 26 26 THR THR A . n A 1 27 GLY 27 27 27 GLY GLY A . n A 1 28 THR 28 28 28 THR THR A . n A 1 29 TYR 29 29 29 TYR TYR A . n A 1 30 SER 30 30 30 SER SER A . n A 1 31 ILE 31 31 31 ILE ILE A . n A 1 32 PHE 32 32 32 PHE PHE A . n A 1 33 GLY 33 33 33 GLY GLY A . n A 1 34 HIS 34 34 34 HIS HIS A . n A 1 35 GLN 35 35 35 GLN GLN A . n A 1 36 MET 36 36 36 MET MET A . n A 1 37 ARG 37 37 37 ARG ARG A . n A 1 38 PHE 38 38 38 PHE PHE A . n A 1 39 ASP 39 39 39 ASP ASP A . n A 1 40 LEU 40 40 40 LEU LEU A . n A 1 41 SER 41 41 41 SER SER A . n A 1 42 LYS 42 42 42 LYS LYS A . n A 1 43 GLY 43 43 43 GLY GLY A . n A 1 44 PHE 44 44 44 PHE PHE A . n A 1 45 PRO 45 45 45 PRO PRO A . n A 1 46 LEU 46 46 46 LEU LEU A . n A 1 47 LEU 47 47 47 LEU LEU A . n A 1 48 THR 48 48 48 THR THR A . n A 1 49 THR 49 49 49 THR THR A . n A 1 50 LYS 50 50 50 LYS LYS A . n A 1 51 LYS 51 51 51 LYS LYS A . n A 1 52 VAL 52 52 52 VAL VAL A . n A 1 53 PRO 53 53 53 PRO PRO A . n A 1 54 PHE 54 54 54 PHE PHE A . n A 1 55 GLY 55 55 55 GLY GLY A . n A 1 56 LEU 56 56 56 LEU LEU A . n A 1 57 ILE 57 57 57 ILE ILE A . n A 1 58 LYS 58 58 58 LYS LYS A . n A 1 59 SER 59 59 59 SER SER A . n A 1 60 GLU 60 60 60 GLU GLU A . n A 1 61 LEU 61 61 61 LEU LEU A . n A 1 62 LEU 62 62 62 LEU LEU A . n A 1 63 TRP 63 63 63 TRP TRP A . n A 1 64 PHE 64 64 64 PHE PHE A . n A 1 65 LEU 65 65 65 LEU LEU A . n A 1 66 HIS 66 66 66 HIS HIS A . n A 1 67 GLY 67 67 67 GLY GLY A . n A 1 68 ASP 68 68 68 ASP ASP A . n A 1 69 THR 69 69 69 THR THR A . n A 1 70 ASN 70 70 70 ASN ASN A . n A 1 71 ILE 71 71 71 ILE ILE A . n A 1 72 ARG 72 72 72 ARG ARG A . n A 1 73 PHE 73 73 73 PHE PHE A . n A 1 74 LEU 74 74 74 LEU LEU A . n A 1 75 LEU 75 75 75 LEU LEU A . n A 1 76 GLN 76 76 76 GLN GLN A . n A 1 77 HIS 77 77 77 HIS HIS A . n A 1 78 ARG 78 78 78 ARG ARG A . n A 1 79 ASN 79 79 79 ASN ASN A . n A 1 80 HIS 80 80 80 HIS HIS A . n A 1 81 ILE 81 81 81 ILE ILE A . n A 1 82 TRP 82 82 82 TRP TRP A . n A 1 83 ASP 83 83 83 ASP ASP A . n A 1 84 GLU 84 84 84 GLU GLU A . n A 1 85 TRP 85 85 85 TRP TRP A . n A 1 86 ALA 86 86 86 ALA ALA A . n A 1 87 PHE 87 87 87 PHE PHE A . n A 1 88 GLU 88 88 88 GLU GLU A . n A 1 89 LYS 89 89 89 LYS LYS A . n A 1 90 TRP 90 90 90 TRP TRP A . n A 1 91 VAL 91 91 91 VAL VAL A . n A 1 92 LYS 92 92 92 LYS LYS A . n A 1 93 SER 93 93 93 SER SER A . n A 1 94 ASP 94 94 94 ASP ASP A . n A 1 95 GLU 95 95 95 GLU GLU A . n A 1 96 TYR 96 96 96 TYR TYR A . n A 1 97 HIS 97 97 97 HIS HIS A . n A 1 98 GLY 98 98 98 GLY GLY A . n A 1 99 PRO 99 99 ? ? ? A . n A 1 100 ASP 100 100 100 ASP ASP A . n A 1 101 MET 101 101 101 MET MET A . n A 1 102 THR 102 102 102 THR THR A . n A 1 103 ASP 103 103 ? ? ? A . n A 1 104 PHE 104 104 104 PHE PHE A . n A 1 105 GLY 105 105 105 GLY GLY A . n A 1 106 HIS 106 106 106 HIS HIS A . n A 1 107 ARG 107 107 107 ARG ARG A . n A 1 108 SER 108 108 108 SER SER A . n A 1 109 GLN 109 109 109 GLN GLN A . n A 1 110 LYS 110 110 110 LYS LYS A . n A 1 111 ASP 111 111 111 ASP ASP A . n A 1 112 PRO 112 112 112 PRO PRO A . n A 1 113 GLU 113 113 113 GLU GLU A . n A 1 114 PHE 114 114 114 PHE PHE A . n A 1 115 ALA 115 115 115 ALA ALA A . n A 1 116 ALA 116 116 116 ALA ALA A . n A 1 117 VAL 117 117 117 VAL VAL A . n A 1 118 TYR 118 118 118 TYR TYR A . n A 1 119 HIS 119 119 119 HIS HIS A . n A 1 120 GLU 120 120 120 GLU GLU A . n A 1 121 GLU 121 121 121 GLU GLU A . n A 1 122 MET 122 122 122 MET MET A . n A 1 123 ALA 123 123 123 ALA ALA A . n A 1 124 LYS 124 124 124 LYS LYS A . n A 1 125 PHE 125 125 125 PHE PHE A . n A 1 126 ASP 126 126 126 ASP ASP A . n A 1 127 ASP 127 127 127 ASP ASP A . n A 1 128 ARG 128 128 128 ARG ARG A . n A 1 129 VAL 129 129 129 VAL VAL A . n A 1 130 LEU 130 130 130 LEU LEU A . n A 1 131 HIS 131 131 131 HIS HIS A . n A 1 132 ASP 132 132 132 ASP ASP A . n A 1 133 ASP 133 133 133 ASP ASP A . n A 1 134 ALA 134 134 134 ALA ALA A . n A 1 135 PHE 135 135 135 PHE PHE A . n A 1 136 ALA 136 136 136 ALA ALA A . n A 1 137 ALA 137 137 137 ALA ALA A . n A 1 138 LYS 138 138 138 LYS LYS A . n A 1 139 TYR 139 139 139 TYR TYR A . n A 1 140 GLY 140 140 140 GLY GLY A . n A 1 141 ASP 141 141 141 ASP ASP A . n A 1 142 LEU 142 142 142 LEU LEU A . n A 1 143 GLY 143 143 143 GLY GLY A . n A 1 144 LEU 144 144 144 LEU LEU A . n A 1 145 VAL 145 145 145 VAL VAL A . n A 1 146 TYR 146 146 146 TYR TYR A . n A 1 147 GLY 147 147 147 GLY GLY A . n A 1 148 SER 148 148 148 SER SER A . n A 1 149 GLN 149 149 149 GLN GLN A . n A 1 150 TRP 150 150 150 TRP TRP A . n A 1 151 ARG 151 151 151 ARG ARG A . n A 1 152 ALA 152 152 152 ALA ALA A . n A 1 153 TRP 153 153 153 TRP TRP A . n A 1 154 HIS 154 154 154 HIS HIS A . n A 1 155 THR 155 155 155 THR THR A . n A 1 156 SER 156 156 156 SER SER A . n A 1 157 LYS 157 157 157 LYS LYS A . n A 1 158 GLY 158 158 158 GLY GLY A . n A 1 159 ASP 159 159 159 ASP ASP A . n A 1 160 THR 160 160 160 THR THR A . n A 1 161 ILE 161 161 161 ILE ILE A . n A 1 162 ASP 162 162 162 ASP ASP A . n A 1 163 GLN 163 163 163 GLN GLN A . n A 1 164 LEU 164 164 164 LEU LEU A . n A 1 165 GLY 165 165 165 GLY GLY A . n A 1 166 ASP 166 166 166 ASP ASP A . n A 1 167 VAL 167 167 167 VAL VAL A . n A 1 168 ILE 168 168 168 ILE ILE A . n A 1 169 GLU 169 169 169 GLU GLU A . n A 1 170 GLN 170 170 170 GLN GLN A . n A 1 171 ILE 171 171 171 ILE ILE A . n A 1 172 LYS 172 172 172 LYS LYS A . n A 1 173 THR 173 173 173 THR THR A . n A 1 174 HIS 174 174 174 HIS HIS A . n A 1 175 PRO 175 175 175 PRO PRO A . n A 1 176 TYR 176 176 176 TYR TYR A . n A 1 177 SER 177 177 177 SER SER A . n A 1 178 ARG 178 178 178 ARG ARG A . n A 1 179 ARG 179 179 179 ARG ARG A . n A 1 180 LEU 180 180 180 LEU LEU A . n A 1 181 ILE 181 181 181 ILE ILE A . n A 1 182 VAL 182 182 182 VAL VAL A . n A 1 183 SER 183 183 183 SER SER A . n A 1 184 ALA 184 184 184 ALA ALA A . n A 1 185 TRP 185 185 185 TRP TRP A . n A 1 186 ASN 186 186 186 ASN ASN A . n A 1 187 PRO 187 187 187 PRO PRO A . n A 1 188 GLU 188 188 188 GLU GLU A . n A 1 189 ASP 189 189 189 ASP ASP A . n A 1 190 VAL 190 190 190 VAL VAL A . n A 1 191 PRO 191 191 191 PRO PRO A . n A 1 192 THR 192 192 192 THR THR A . n A 1 193 MET 193 193 193 MET MET A . n A 1 194 ALA 194 194 194 ALA ALA A . n A 1 195 LEU 195 195 195 LEU LEU A . n A 1 196 PRO 196 196 196 PRO PRO A . n A 1 197 PRO 197 197 197 PRO PRO A . n A 1 198 CYS 198 198 198 CYS CYS A . n A 1 199 HIS 199 199 199 HIS HIS A . n A 1 200 THR 200 200 200 THR THR A . n A 1 201 LEU 201 201 201 LEU LEU A . n A 1 202 TYR 202 202 202 TYR TYR A . n A 1 203 GLN 203 203 203 GLN GLN A . n A 1 204 PHE 204 204 204 PHE PHE A . n A 1 205 TYR 205 205 205 TYR TYR A . n A 1 206 VAL 206 206 206 VAL VAL A . n A 1 207 ASN 207 207 207 ASN ASN A . n A 1 208 ASP 208 208 208 ASP ASP A . n A 1 209 GLY 209 209 209 GLY GLY A . n A 1 210 LYS 210 210 210 LYS LYS A . n A 1 211 LEU 211 211 211 LEU LEU A . n A 1 212 SER 212 212 212 SER SER A . n A 1 213 LEU 213 213 213 LEU LEU A . n A 1 214 GLN 214 214 214 GLN GLN A . n A 1 215 LEU 215 215 215 LEU LEU A . n A 1 216 TYR 216 216 216 TYR TYR A . n A 1 217 GLN 217 217 217 GLN GLN A . n A 1 218 ARG 218 218 218 ARG ARG A . n A 1 219 SER 219 219 219 SER SER A . n A 1 220 ALA 220 220 220 ALA ALA A . n A 1 221 ASP 221 221 221 ASP ASP A . n A 1 222 ILE 222 222 222 ILE ILE A . n A 1 223 PHE 223 223 223 PHE PHE A . n A 1 224 LEU 224 224 224 LEU LEU A . n A 1 225 GLY 225 225 225 GLY GLY A . n A 1 226 VAL 226 226 226 VAL VAL A . n A 1 227 PRO 227 227 227 PRO PRO A . n A 1 228 PHE 228 228 228 PHE PHE A . n A 1 229 ASN 229 229 229 ASN ASN A . n A 1 230 ILE 230 230 230 ILE ILE A . n A 1 231 ALA 231 231 231 ALA ALA A . n A 1 232 SER 232 232 232 SER SER A . n A 1 233 TYR 233 233 233 TYR TYR A . n A 1 234 ALA 234 234 234 ALA ALA A . n A 1 235 LEU 235 235 235 LEU LEU A . n A 1 236 LEU 236 236 236 LEU LEU A . n A 1 237 THR 237 237 237 THR THR A . n A 1 238 HIS 238 238 238 HIS HIS A . n A 1 239 LEU 239 239 239 LEU LEU A . n A 1 240 VAL 240 240 240 VAL VAL A . n A 1 241 ALA 241 241 241 ALA ALA A . n A 1 242 HIS 242 242 242 HIS HIS A . n A 1 243 GLU 243 243 243 GLU GLU A . n A 1 244 CYS 244 244 244 CYS CYS A . n A 1 245 GLY 245 245 245 GLY GLY A . n A 1 246 LEU 246 246 246 LEU LEU A . n A 1 247 GLU 247 247 247 GLU GLU A . n A 1 248 VAL 248 248 248 VAL VAL A . n A 1 249 GLY 249 249 249 GLY GLY A . n A 1 250 GLU 250 250 250 GLU GLU A . n A 1 251 PHE 251 251 251 PHE PHE A . n A 1 252 ILE 252 252 252 ILE ILE A . n A 1 253 HIS 253 253 253 HIS HIS A . n A 1 254 THR 254 254 254 THR THR A . n A 1 255 PHE 255 255 255 PHE PHE A . n A 1 256 GLY 256 256 256 GLY GLY A . n A 1 257 ASP 257 257 257 ASP ASP A . n A 1 258 ALA 258 258 258 ALA ALA A . n A 1 259 HIS 259 259 259 HIS HIS A . n A 1 260 LEU 260 260 260 LEU LEU A . n A 1 261 TYR 261 261 261 TYR TYR A . n A 1 262 VAL 262 262 262 VAL VAL A . n A 1 263 ASN 263 263 263 ASN ASN A . n A 1 264 HIS 264 264 264 HIS HIS A . n A 1 265 LEU 265 265 265 LEU LEU A . n A 1 266 ASP 266 266 266 ASP ASP A . n A 1 267 GLN 267 267 267 GLN GLN A . n A 1 268 ILE 268 268 268 ILE ILE A . n A 1 269 LYS 269 269 269 LYS LYS A . n A 1 270 GLU 270 270 270 GLU GLU A . n A 1 271 GLN 271 271 271 GLN GLN A . n A 1 272 LEU 272 272 272 LEU LEU A . n A 1 273 SER 273 273 273 SER SER A . n A 1 274 ARG 274 274 274 ARG ARG A . n A 1 275 THR 275 275 275 THR THR A . n A 1 276 PRO 276 276 276 PRO PRO A . n A 1 277 ARG 277 277 277 ARG ARG A . n A 1 278 PRO 278 278 278 PRO PRO A . n A 1 279 ALA 279 279 279 ALA ALA A . n A 1 280 PRO 280 280 280 PRO PRO A . n A 1 281 THR 281 281 281 THR THR A . n A 1 282 LEU 282 282 282 LEU LEU A . n A 1 283 GLN 283 283 283 GLN GLN A . n A 1 284 LEU 284 284 284 LEU LEU A . n A 1 285 ASN 285 285 285 ASN ASN A . n A 1 286 PRO 286 286 286 PRO PRO A . n A 1 287 ASP 287 287 287 ASP ASP A . n A 1 288 LYS 288 288 288 LYS LYS A . n A 1 289 HIS 289 289 289 HIS HIS A . n A 1 290 ASP 290 290 290 ASP ASP A . n A 1 291 ILE 291 291 291 ILE ILE A . n A 1 292 PHE 292 292 292 PHE PHE A . n A 1 293 ASP 293 293 293 ASP ASP A . n A 1 294 PHE 294 294 294 PHE PHE A . n A 1 295 ASP 295 295 295 ASP ASP A . n A 1 296 MET 296 296 296 MET MET A . n A 1 297 LYS 297 297 297 LYS LYS A . n A 1 298 ASP 298 298 298 ASP ASP A . n A 1 299 ILE 299 299 299 ILE ILE A . n A 1 300 LYS 300 300 300 LYS LYS A . n A 1 301 LEU 301 301 301 LEU LEU A . n A 1 302 LEU 302 302 302 LEU LEU A . n A 1 303 ASN 303 303 303 ASN ASN A . n A 1 304 TYR 304 304 304 TYR TYR A . n A 1 305 ASP 305 305 305 ASP ASP A . n A 1 306 PRO 306 306 306 PRO PRO A . n A 1 307 TYR 307 307 307 TYR TYR A . n A 1 308 PRO 308 308 308 PRO PRO A . n A 1 309 ALA 309 309 309 ALA ALA A . n A 1 310 ILE 310 310 310 ILE ILE A . n A 1 311 LYS 311 311 311 LYS LYS A . n A 1 312 ALA 312 312 312 ALA ALA A . n A 1 313 PRO 313 313 313 PRO PRO A . n A 1 314 VAL 314 314 314 VAL VAL A . n A 1 315 ALA 315 315 ? ? ? A . n A 1 316 VAL 316 316 ? ? ? A . n # 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 1 319 1 PO4 PO4 A . C 3 UMP 1 317 317 UMP UMP A . D 4 C16 1 318 318 C16 C16 A . E 5 HOH 1 320 1 HOH HOH A . E 5 HOH 2 321 2 HOH HOH A . E 5 HOH 3 322 3 HOH HOH A . E 5 HOH 4 323 4 HOH HOH A . E 5 HOH 5 324 5 HOH HOH A . E 5 HOH 6 325 6 HOH HOH A . E 5 HOH 7 326 7 HOH HOH A . E 5 HOH 8 327 8 HOH HOH A . E 5 HOH 9 328 9 HOH HOH A . E 5 HOH 10 329 10 HOH HOH A . E 5 HOH 11 330 11 HOH HOH A . E 5 HOH 12 331 12 HOH HOH A . E 5 HOH 13 332 13 HOH HOH A . E 5 HOH 14 333 14 HOH HOH A . E 5 HOH 15 334 15 HOH HOH A . E 5 HOH 16 335 16 HOH HOH A . E 5 HOH 17 336 17 HOH HOH A . E 5 HOH 18 337 18 HOH HOH A . E 5 HOH 19 338 19 HOH HOH A . E 5 HOH 20 339 20 HOH HOH A . E 5 HOH 21 340 21 HOH HOH A . E 5 HOH 22 341 22 HOH HOH A . E 5 HOH 23 342 23 HOH HOH A . E 5 HOH 24 343 24 HOH HOH A . E 5 HOH 25 344 25 HOH HOH A . E 5 HOH 26 345 26 HOH HOH A . E 5 HOH 27 346 27 HOH HOH A . E 5 HOH 28 347 28 HOH HOH A . E 5 HOH 29 348 29 HOH HOH A . E 5 HOH 30 349 30 HOH HOH A . E 5 HOH 31 350 31 HOH HOH A . E 5 HOH 32 351 32 HOH HOH A . E 5 HOH 33 352 33 HOH HOH A . E 5 HOH 34 353 34 HOH HOH A . E 5 HOH 35 354 35 HOH HOH A . E 5 HOH 36 355 36 HOH HOH A . E 5 HOH 37 356 37 HOH HOH A . E 5 HOH 38 357 38 HOH HOH A . E 5 HOH 39 358 39 HOH HOH A . E 5 HOH 40 359 40 HOH HOH A . E 5 HOH 41 360 41 HOH HOH A . E 5 HOH 42 361 42 HOH HOH A . E 5 HOH 43 362 43 HOH HOH A . E 5 HOH 44 363 44 HOH HOH A . E 5 HOH 45 364 45 HOH HOH A . E 5 HOH 46 365 46 HOH HOH A . E 5 HOH 47 366 47 HOH HOH A . E 5 HOH 48 367 48 HOH HOH A . E 5 HOH 49 368 49 HOH HOH A . E 5 HOH 50 369 50 HOH HOH A . E 5 HOH 51 370 51 HOH HOH A . E 5 HOH 52 371 52 HOH HOH A . E 5 HOH 53 372 53 HOH HOH A . E 5 HOH 54 373 54 HOH HOH A . E 5 HOH 55 374 55 HOH HOH A . E 5 HOH 56 375 56 HOH HOH A . E 5 HOH 57 376 57 HOH HOH A . E 5 HOH 58 377 58 HOH HOH A . E 5 HOH 59 378 59 HOH HOH A . E 5 HOH 60 379 60 HOH HOH A . E 5 HOH 61 380 61 HOH HOH A . E 5 HOH 62 381 62 HOH HOH A . E 5 HOH 63 382 63 HOH HOH A . E 5 HOH 64 383 64 HOH HOH A . E 5 HOH 65 384 65 HOH HOH A . E 5 HOH 66 385 66 HOH HOH A . E 5 HOH 67 386 67 HOH HOH A . E 5 HOH 68 387 68 HOH HOH A . E 5 HOH 69 388 69 HOH HOH A . E 5 HOH 70 389 70 HOH HOH A . E 5 HOH 71 390 71 HOH HOH A . E 5 HOH 72 391 72 HOH HOH A . E 5 HOH 73 392 73 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 dimeric _pdbx_struct_assembly.oligomeric_count 2 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 6270 ? 1 MORE -36 ? 1 'SSA (A^2)' 25950 ? # 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' 10_554 -y,-x,-z-1/6 0.5000000000 -0.8660254038 0.0000000000 0.0000000000 -0.8660254038 -0.5000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 -35.5121666667 # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2008-12-16 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2013-07-24 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Database references' # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal REFMAC refinement 5.2.0005 ? 1 ADSC 'data collection' Quantum ? 2 MOSFLM 'data reduction' . ? 3 SCALA 'data scaling' . ? 4 MOLREP phasing . ? 5 # 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 PRO 99 ? A PRO 99 2 1 Y 1 A ASP 103 ? A ASP 103 3 1 Y 1 A ALA 315 ? A ALA 315 4 1 Y 1 A VAL 316 ? A VAL 316 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'PHOSPHATE ION' PO4 3 ;2'-DEOXYURIDINE 5'-MONOPHOSPHATE ; UMP 4 '4-(4-methyl-1,3-dioxo-1,3-dihydro-2H-isoindol-2-yl)benzonitrile' C16 5 water HOH #