data_2YGQ # _entry.id 2YGQ # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.329 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 2YGQ PDBE EBI-48079 WWPDB D_1290048079 # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.content_type _pdbx_database_related.details PDB 2YGO unspecified 'WIF DOMAIN-EGF-LIKE DOMAIN 1 OF HUMAN WNT INHIBITORY FACTOR 1 IN COMPLEX WITH 1,2- DIPALMITOYLPHOSPHATIDYLCHOLINE' PDB 2YGP unspecified 'WIF DOMAIN-EGF-LIKE DOMAIN 1 MET77TRP OF HUMAN WNT INHIBITORY FACTOR 1 IN COMPLEX WITH 1,2- DIPALMITOYLPHOSPHATIDYLCHOLINE' PDB 2YGN unspecified 'WIF DOMAIN OF HUMAN WNT INHIBITORY FACTOR 1 IN COMPLEX WITH 1,2-DIPALMITOYLPHOSPHATIDYLCHOLINE' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 2YGQ _pdbx_database_status.deposit_site PDBE _pdbx_database_status.process_site PDBE _pdbx_database_status.SG_entry . _pdbx_database_status.recvd_initial_deposition_date 2011-04-19 _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Malinauskas, T.' 1 'Aricescu, A.R.' 2 'Lu, W.' 3 'Siebold, C.' 4 'Jones, E.Y.' 5 # _citation.id primary _citation.title 'Modular Mechanism of Wnt Signaling Inhibition by Wnt Inhibitory Factor 1' _citation.journal_abbrev Nat.Struct.Mol.Biol. _citation.journal_volume 18 _citation.page_first 886 _citation.page_last ? _citation.year 2011 _citation.journal_id_ASTM ? _citation.country US _citation.journal_id_ISSN 1545-9993 _citation.journal_id_CSD ? _citation.book_publisher ? _citation.pdbx_database_id_PubMed 21743455 _citation.pdbx_database_id_DOI 10.1038/NSMB.2081 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Malinauskas, T.' 1 ? primary 'Aricescu, A.R.' 2 ? primary 'Lu, W.' 3 ? primary 'Siebold, C.' 4 ? primary 'Jones, E.Y.' 5 ? # _cell.entry_id 2YGQ _cell.length_a 178.007 _cell.length_b 178.007 _cell.length_c 178.007 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 90.00 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2YGQ _symmetry.space_group_name_H-M 'I 21 3' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 199 # 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 'WNT INHIBITORY FACTOR 1' 35401.625 1 ? ? 'WIF DOMAIN-EGF-LIKE DOMAINS 1-5, RESIDUES 35-346' ? 2 branched man '1,3,4,6-tetra-O-sulfo-beta-D-fructofuranose-(2-1)-2,3,4,6-tetra-O-sulfonato-alpha-D-glucopyranose' 982.803 1 ? ? ? ? 3 non-polymer syn 1,2-DIACYL-SN-GLYCERO-3-PHOSHOCHOLINE 734.039 1 ? ? ? ? 4 non-polymer man 2-acetamido-2-deoxy-beta-D-glucopyranose 221.208 2 ? ? ? ? 5 non-polymer man alpha-L-fucopyranose 164.156 1 ? ? ? ? # loop_ _entity_name_com.entity_id _entity_name_com.name 1 WIF-1 2 'sucrose octasulfate' # _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 ;ETGSLYLWIDAHQARVLIGFEEDILIVSEGKMAPFTHDFRKAQQRMPAIPVNIHSMNFTWQAAGQAEYFYEFLSLRSLDK GIMADPTVNVPLLGTVPHKASVVQVGFPCLGKQDGVAAFEVDVIVMNSEGNTILKTPQNAIFFKTCQQAECPGGCRNGGF CNERRICECPDGFHGPHCEKALCTPRCMNGGLCVTPGFCICPPGFYGVNCDKANCSTTCFNGGTCFYPGKCICPPGLEGE QCEISKCPQPCRNGGKCIGKSKCKCSKGYQGDLCSKPVCEPGCGAHGTCHEPNKCQCQEGWHGRHCNKRYEASLIGTKHH HHHH ; _entity_poly.pdbx_seq_one_letter_code_can ;ETGSLYLWIDAHQARVLIGFEEDILIVSEGKMAPFTHDFRKAQQRMPAIPVNIHSMNFTWQAAGQAEYFYEFLSLRSLDK GIMADPTVNVPLLGTVPHKASVVQVGFPCLGKQDGVAAFEVDVIVMNSEGNTILKTPQNAIFFKTCQQAECPGGCRNGGF CNERRICECPDGFHGPHCEKALCTPRCMNGGLCVTPGFCICPPGFYGVNCDKANCSTTCFNGGTCFYPGKCICPPGLEGE QCEISKCPQPCRNGGKCIGKSKCKCSKGYQGDLCSKPVCEPGCGAHGTCHEPNKCQCQEGWHGRHCNKRYEASLIGTKHH HHHH ; _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 GLU n 1 2 THR n 1 3 GLY n 1 4 SER n 1 5 LEU n 1 6 TYR n 1 7 LEU n 1 8 TRP n 1 9 ILE n 1 10 ASP n 1 11 ALA n 1 12 HIS n 1 13 GLN n 1 14 ALA n 1 15 ARG n 1 16 VAL n 1 17 LEU n 1 18 ILE n 1 19 GLY n 1 20 PHE n 1 21 GLU n 1 22 GLU n 1 23 ASP n 1 24 ILE n 1 25 LEU n 1 26 ILE n 1 27 VAL n 1 28 SER n 1 29 GLU n 1 30 GLY n 1 31 LYS n 1 32 MET n 1 33 ALA n 1 34 PRO n 1 35 PHE n 1 36 THR n 1 37 HIS n 1 38 ASP n 1 39 PHE n 1 40 ARG n 1 41 LYS n 1 42 ALA n 1 43 GLN n 1 44 GLN n 1 45 ARG n 1 46 MET n 1 47 PRO n 1 48 ALA n 1 49 ILE n 1 50 PRO n 1 51 VAL n 1 52 ASN n 1 53 ILE n 1 54 HIS n 1 55 SER n 1 56 MET n 1 57 ASN n 1 58 PHE n 1 59 THR n 1 60 TRP n 1 61 GLN n 1 62 ALA n 1 63 ALA n 1 64 GLY n 1 65 GLN n 1 66 ALA n 1 67 GLU n 1 68 TYR n 1 69 PHE n 1 70 TYR n 1 71 GLU n 1 72 PHE n 1 73 LEU n 1 74 SER n 1 75 LEU n 1 76 ARG n 1 77 SER n 1 78 LEU n 1 79 ASP n 1 80 LYS n 1 81 GLY n 1 82 ILE n 1 83 MET n 1 84 ALA n 1 85 ASP n 1 86 PRO n 1 87 THR n 1 88 VAL n 1 89 ASN n 1 90 VAL n 1 91 PRO n 1 92 LEU n 1 93 LEU n 1 94 GLY n 1 95 THR n 1 96 VAL n 1 97 PRO n 1 98 HIS n 1 99 LYS n 1 100 ALA n 1 101 SER n 1 102 VAL n 1 103 VAL n 1 104 GLN n 1 105 VAL n 1 106 GLY n 1 107 PHE n 1 108 PRO n 1 109 CYS n 1 110 LEU n 1 111 GLY n 1 112 LYS n 1 113 GLN n 1 114 ASP n 1 115 GLY n 1 116 VAL n 1 117 ALA n 1 118 ALA n 1 119 PHE n 1 120 GLU n 1 121 VAL n 1 122 ASP n 1 123 VAL n 1 124 ILE n 1 125 VAL n 1 126 MET n 1 127 ASN n 1 128 SER n 1 129 GLU n 1 130 GLY n 1 131 ASN n 1 132 THR n 1 133 ILE n 1 134 LEU n 1 135 LYS n 1 136 THR n 1 137 PRO n 1 138 GLN n 1 139 ASN n 1 140 ALA n 1 141 ILE n 1 142 PHE n 1 143 PHE n 1 144 LYS n 1 145 THR n 1 146 CYS n 1 147 GLN n 1 148 GLN n 1 149 ALA n 1 150 GLU n 1 151 CYS n 1 152 PRO n 1 153 GLY n 1 154 GLY n 1 155 CYS n 1 156 ARG n 1 157 ASN n 1 158 GLY n 1 159 GLY n 1 160 PHE n 1 161 CYS n 1 162 ASN n 1 163 GLU n 1 164 ARG n 1 165 ARG n 1 166 ILE n 1 167 CYS n 1 168 GLU n 1 169 CYS n 1 170 PRO n 1 171 ASP n 1 172 GLY n 1 173 PHE n 1 174 HIS n 1 175 GLY n 1 176 PRO n 1 177 HIS n 1 178 CYS n 1 179 GLU n 1 180 LYS n 1 181 ALA n 1 182 LEU n 1 183 CYS n 1 184 THR n 1 185 PRO n 1 186 ARG n 1 187 CYS n 1 188 MET n 1 189 ASN n 1 190 GLY n 1 191 GLY n 1 192 LEU n 1 193 CYS n 1 194 VAL n 1 195 THR n 1 196 PRO n 1 197 GLY n 1 198 PHE n 1 199 CYS n 1 200 ILE n 1 201 CYS n 1 202 PRO n 1 203 PRO n 1 204 GLY n 1 205 PHE n 1 206 TYR n 1 207 GLY n 1 208 VAL n 1 209 ASN n 1 210 CYS n 1 211 ASP n 1 212 LYS n 1 213 ALA n 1 214 ASN n 1 215 CYS n 1 216 SER n 1 217 THR n 1 218 THR n 1 219 CYS n 1 220 PHE n 1 221 ASN n 1 222 GLY n 1 223 GLY n 1 224 THR n 1 225 CYS n 1 226 PHE n 1 227 TYR n 1 228 PRO n 1 229 GLY n 1 230 LYS n 1 231 CYS n 1 232 ILE n 1 233 CYS n 1 234 PRO n 1 235 PRO n 1 236 GLY n 1 237 LEU n 1 238 GLU n 1 239 GLY n 1 240 GLU n 1 241 GLN n 1 242 CYS n 1 243 GLU n 1 244 ILE n 1 245 SER n 1 246 LYS n 1 247 CYS n 1 248 PRO n 1 249 GLN n 1 250 PRO n 1 251 CYS n 1 252 ARG n 1 253 ASN n 1 254 GLY n 1 255 GLY n 1 256 LYS n 1 257 CYS n 1 258 ILE n 1 259 GLY n 1 260 LYS n 1 261 SER n 1 262 LYS n 1 263 CYS n 1 264 LYS n 1 265 CYS n 1 266 SER n 1 267 LYS n 1 268 GLY n 1 269 TYR n 1 270 GLN n 1 271 GLY n 1 272 ASP n 1 273 LEU n 1 274 CYS n 1 275 SER n 1 276 LYS n 1 277 PRO n 1 278 VAL n 1 279 CYS n 1 280 GLU n 1 281 PRO n 1 282 GLY n 1 283 CYS n 1 284 GLY n 1 285 ALA n 1 286 HIS n 1 287 GLY n 1 288 THR n 1 289 CYS n 1 290 HIS n 1 291 GLU n 1 292 PRO n 1 293 ASN n 1 294 LYS n 1 295 CYS n 1 296 GLN n 1 297 CYS n 1 298 GLN n 1 299 GLU n 1 300 GLY n 1 301 TRP n 1 302 HIS n 1 303 GLY n 1 304 ARG n 1 305 HIS n 1 306 CYS n 1 307 ASN n 1 308 LYS n 1 309 ARG n 1 310 TYR n 1 311 GLU n 1 312 ALA n 1 313 SER n 1 314 LEU n 1 315 ILE n 1 316 GLY n 1 317 THR n 1 318 LYS n 1 319 HIS n 1 320 HIS n 1 321 HIS n 1 322 HIS n 1 323 HIS n 1 324 HIS 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 HUMAN _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 'HOMO SAPIENS' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 9606 _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 HUMAN _entity_src_gen.pdbx_host_org_scientific_name 'HOMO SAPIENS' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 9606 _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 'N-ACETYLGLUCOSAMINYLTRANSFERASE I-NEGATIVE HEK 293S GNTI(-)CELLS' _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 PHLSEC _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 WIF1_HUMAN _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin ? _struct_ref.pdbx_db_accession Q9Y5W5 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 2YGQ _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 4 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 315 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q9Y5W5 _struct_ref_seq.db_align_beg 35 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 346 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 35 _struct_ref_seq.pdbx_auth_seq_align_end 346 # loop_ _struct_ref_seq_dif.align_id _struct_ref_seq_dif.pdbx_pdb_id_code _struct_ref_seq_dif.mon_id _struct_ref_seq_dif.pdbx_pdb_strand_id _struct_ref_seq_dif.seq_num _struct_ref_seq_dif.pdbx_pdb_ins_code _struct_ref_seq_dif.pdbx_seq_db_name _struct_ref_seq_dif.pdbx_seq_db_accession_code _struct_ref_seq_dif.db_mon_id _struct_ref_seq_dif.pdbx_seq_db_seq_num _struct_ref_seq_dif.details _struct_ref_seq_dif.pdbx_auth_seq_num _struct_ref_seq_dif.pdbx_ordinal 1 2YGQ GLU A 1 ? UNP Q9Y5W5 ? ? 'expression tag' 32 1 1 2YGQ THR A 2 ? UNP Q9Y5W5 ? ? 'expression tag' 33 2 1 2YGQ GLY A 3 ? UNP Q9Y5W5 ? ? 'expression tag' 34 3 1 2YGQ LYS A 135 ? UNP Q9Y5W5 GLN 166 variant 166 4 1 2YGQ GLY A 316 ? UNP Q9Y5W5 ? ? 'expression tag' 347 5 1 2YGQ THR A 317 ? UNP Q9Y5W5 ? ? 'expression tag' 348 6 1 2YGQ LYS A 318 ? UNP Q9Y5W5 ? ? 'expression tag' 349 7 1 2YGQ HIS A 319 ? UNP Q9Y5W5 ? ? 'expression tag' 350 8 1 2YGQ HIS A 320 ? UNP Q9Y5W5 ? ? 'expression tag' 351 9 1 2YGQ HIS A 321 ? UNP Q9Y5W5 ? ? 'expression tag' 352 10 1 2YGQ HIS A 322 ? UNP Q9Y5W5 ? ? 'expression tag' 353 11 1 2YGQ HIS A 323 ? UNP Q9Y5W5 ? ? 'expression tag' 354 12 1 2YGQ HIS A 324 ? UNP Q9Y5W5 ? ? 'expression tag' 355 13 # 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 FUC 'L-saccharide, alpha linking' . alpha-L-fucopyranose ? 'C6 H12 O5' 164.156 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 GU4 'D-saccharide, alpha linking' n 2,3,4,6-tetra-O-sulfonato-alpha-D-glucopyranose ? 'C6 H12 O18 S4' 500.409 HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.162 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 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 NAG 'D-saccharide, beta linking' . 2-acetamido-2-deoxy-beta-D-glucopyranose ? 'C8 H15 N O6' 221.208 PCF non-polymer . 1,2-DIACYL-SN-GLYCERO-3-PHOSHOCHOLINE ? 'C40 H80 N O8 P' 734.039 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 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 YYJ 'D-saccharide, beta linking' n 1,3,4,6-tetra-O-sulfo-beta-D-fructofuranose ? 'C6 H12 O18 S4' 500.409 # _exptl.entry_id 2YGQ _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 8.53 _exptl_crystal.density_percent_sol 82 _exptl_crystal.description NONE # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method ? _exptl_crystal_grow.temp ? _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 5.7 _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.pdbx_details '0.75 M SODIUM SUCCINATE PH 5.7, 35 MG/ML SUCROSE OCTASULFATE' # _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 CCD' _diffrn_detector.pdbx_collection_date ? _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 0.976 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'DIAMOND BEAMLINE I03' _diffrn_source.pdbx_synchrotron_site Diamond _diffrn_source.pdbx_synchrotron_beamline I03 _diffrn_source.pdbx_wavelength 0.976 _diffrn_source.pdbx_wavelength_list ? # _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.entry_id 2YGQ _reflns.observed_criterion_sigma_I 0.0 _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 40.00 _reflns.d_resolution_high 3.95 _reflns.number_obs 8403 _reflns.number_all ? _reflns.percent_possible_obs 99.9 _reflns.pdbx_Rmerge_I_obs 0.10 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI 27.20 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 11.1 # _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_ordinal 1 _reflns_shell.d_res_high 3.95 _reflns_shell.d_res_low 4.09 _reflns_shell.percent_possible_all 99.8 _reflns_shell.Rmerge_I_obs 0.87 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 2.80 _reflns_shell.pdbx_redundancy 10.9 # _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.entry_id 2YGQ _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.ls_number_reflns_obs 8048 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0.00 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 39.804 _refine.ls_d_res_high 3.951 _refine.ls_percent_reflns_obs 95.96 _refine.ls_R_factor_obs 0.2985 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.2970 _refine.ls_R_factor_R_free 0.3306 _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 382 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean ? _refine.aniso_B[1][1] 0.0000 _refine.aniso_B[2][2] 0.0000 _refine.aniso_B[3][3] 0.0000 _refine.aniso_B[1][2] 0.0000 _refine.aniso_B[1][3] 0.0000 _refine.aniso_B[2][3] 0.0000 _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.solvent_model_param_ksol 0.310 _refine.solvent_model_param_bsol 184.367 _refine.pdbx_solvent_vdw_probe_radii 1.10 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.83 _refine.pdbx_ls_cross_valid_method ? _refine.details ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values ML _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.overall_SU_ML 0.63 _refine.pdbx_overall_phase_error 29.84 _refine.overall_SU_B ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 1826 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 143 _refine_hist.number_atoms_solvent 0 _refine_hist.number_atoms_total 1969 _refine_hist.d_res_high 3.951 _refine_hist.d_res_low 39.804 # 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 f_bond_d 0.014 ? ? 2027 'X-RAY DIFFRACTION' ? f_angle_d 2.087 ? ? 2742 'X-RAY DIFFRACTION' ? f_dihedral_angle_d 28.521 ? ? 833 'X-RAY DIFFRACTION' ? f_chiral_restr 0.122 ? ? 291 'X-RAY DIFFRACTION' ? f_plane_restr 0.011 ? ? 343 'X-RAY DIFFRACTION' ? # loop_ _refine_ls_shell.pdbx_refine_id _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_R_work _refine_ls_shell.R_factor_R_work _refine_ls_shell.percent_reflns_obs _refine_ls_shell.R_factor_R_free _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.number_reflns_R_free _refine_ls_shell.number_reflns_all _refine_ls_shell.R_factor_all 'X-RAY DIFFRACTION' . 3.9508 4.5218 2415 0.3165 91.00 0.3202 . . 110 . . 'X-RAY DIFFRACTION' . 4.5218 5.6944 2566 0.2834 97.00 0.2810 . . 131 . . 'X-RAY DIFFRACTION' . 5.6944 39.8056 2685 0.2975 99.00 0.3578 . . 141 . . # _struct.entry_id 2YGQ _struct.title ;WIF domain-epidermal growth factor (EGF)-like domains 1-3 of human Wnt inhibitory factor 1 in complex with 1,2- dipalmitoylphosphatidylcholine ; _struct.pdbx_descriptor 'WNT INHIBITORY FACTOR 1' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 2YGQ _struct_keywords.pdbx_keywords 'SIGNALING PROTEIN' _struct_keywords.text 'SIGNALING PROTEIN, WNT SIGNALING PATHWAY, WNT ANTAGONIST, MORPHOGEN, CANCER, GLYCOSAMINOGLYCAN' # 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 4 ? F N N 5 ? # _struct_biol.id 1 # 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 ASP A 10 ? ILE A 18 ? ASP A 41 ILE A 49 1 ? 9 HELX_P HELX_P2 2 PRO A 34 ? HIS A 37 ? PRO A 65 HIS A 68 5 ? 4 HELX_P HELX_P3 3 ASP A 38 ? ARG A 45 ? ASP A 69 ARG A 76 1 ? 8 # _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 109 SG ? ? ? 1_555 A CYS 146 SG ? ? A CYS 140 A CYS 177 1_555 ? ? ? ? ? ? ? 2.039 ? ? disulf2 disulf ? ? A CYS 151 SG ? ? ? 1_555 A CYS 161 SG ? ? A CYS 182 A CYS 192 1_555 ? ? ? ? ? ? ? 2.033 ? ? disulf3 disulf ? ? A CYS 155 SG ? ? ? 1_555 A CYS 167 SG ? ? A CYS 186 A CYS 198 1_555 ? ? ? ? ? ? ? 2.033 ? ? disulf4 disulf ? ? A CYS 169 SG ? ? ? 1_555 A CYS 178 SG ? ? A CYS 200 A CYS 209 1_555 ? ? ? ? ? ? ? 2.032 ? ? disulf5 disulf ? ? A CYS 183 SG ? ? ? 1_555 A CYS 193 SG ? ? A CYS 214 A CYS 224 1_555 ? ? ? ? ? ? ? 2.019 ? ? disulf6 disulf ? ? A CYS 187 SG ? ? ? 1_555 A CYS 199 SG ? ? A CYS 218 A CYS 230 1_555 ? ? ? ? ? ? ? 2.038 ? ? disulf7 disulf ? ? A CYS 201 SG ? ? ? 1_555 A CYS 210 SG ? ? A CYS 232 A CYS 241 1_555 ? ? ? ? ? ? ? 2.035 ? ? disulf8 disulf ? ? A CYS 215 SG ? ? ? 1_555 A CYS 225 SG ? ? A CYS 246 A CYS 256 1_555 ? ? ? ? ? ? ? 2.029 ? ? disulf9 disulf ? ? A CYS 219 SG ? ? ? 1_555 A CYS 231 SG ? ? A CYS 250 A CYS 262 1_555 ? ? ? ? ? ? ? 2.033 ? ? disulf10 disulf ? ? A CYS 233 SG ? ? ? 1_555 A CYS 242 SG ? ? A CYS 264 A CYS 273 1_555 ? ? ? ? ? ? ? 2.032 ? ? covale1 covale one ? A ASN 57 ND2 ? ? ? 1_555 D NAG . C1 ? ? A ASN 88 A NAG 1276 1_555 ? ? ? ? ? ? ? 1.447 ? N-Glycosylation covale2 covale one ? A ASN 214 ND2 ? ? ? 1_555 E NAG . C1 ? ? A ASN 245 A NAG 1277 1_555 ? ? ? ? ? ? ? 1.467 ? N-Glycosylation covale3 covale one ? A THR 224 OG1 ? ? ? 1_555 F FUC . C1 ? ? A THR 255 A FUC 1278 1_555 ? ? ? ? ? ? ? 1.437 ? O-Glycosylation covale4 covale both ? B GU4 . C1 ? ? ? 1_555 B YYJ . O2 ? ? B GU4 1 B YYJ 2 1_555 ? ? ? ? ? ? ? 1.437 sing ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference disulf ? ? covale ? ? # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details AA ? 6 ? AB ? 4 ? AC ? 2 ? AD ? 2 ? AE ? 2 ? AF ? 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 AA 1 2 ? anti-parallel AA 2 3 ? anti-parallel AA 3 4 ? anti-parallel AA 4 5 ? anti-parallel AA 5 6 ? anti-parallel AB 1 2 ? anti-parallel AB 2 3 ? anti-parallel AB 3 4 ? anti-parallel AC 1 2 ? anti-parallel AD 1 2 ? anti-parallel AE 1 2 ? anti-parallel AF 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 AA 1 LYS A 31 ? MET A 32 ? LYS A 62 MET A 63 AA 2 ILE A 24 ? SER A 28 ? ILE A 55 SER A 59 AA 3 LEU A 5 ? ILE A 9 ? LEU A 36 ILE A 40 AA 4 SER A 55 ? ALA A 62 ? SER A 86 ALA A 93 AA 5 SER A 101 ? GLY A 106 ? SER A 132 GLY A 137 AA 6 THR A 87 ? VAL A 88 ? THR A 118 VAL A 119 AB 1 LEU A 93 ? THR A 95 ? LEU A 124 THR A 126 AB 2 PHE A 69 ? SER A 74 ? PHE A 100 SER A 105 AB 3 ASP A 122 ? MET A 126 ? ASP A 153 MET A 157 AB 4 THR A 132 ? LYS A 135 ? THR A 163 LYS A 166 AC 1 GLY A 115 ? GLU A 120 ? GLY A 146 GLU A 151 AC 2 ILE A 141 ? CYS A 146 ? ILE A 172 CYS A 177 AD 1 PHE A 160 ? CYS A 161 ? PHE A 191 CYS A 192 AD 2 CYS A 167 ? GLU A 168 ? CYS A 198 GLU A 199 AE 1 PHE A 173 ? HIS A 174 ? PHE A 204 HIS A 205 AE 2 LYS A 180 ? ALA A 181 ? LYS A 211 ALA A 212 AF 1 LEU A 192 ? CYS A 193 ? LEU A 223 CYS A 224 AF 2 CYS A 199 ? ILE A 200 ? CYS A 230 ILE A 231 # 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 AA 1 2 N LYS A 31 ? N LYS A 62 O SER A 28 ? O SER A 59 AA 2 3 N VAL A 27 ? N VAL A 58 O LEU A 7 ? O LEU A 38 AA 3 4 N TRP A 8 ? N TRP A 39 O THR A 59 ? O THR A 90 AA 4 5 N TRP A 60 ? N TRP A 91 O SER A 101 ? O SER A 132 AA 5 6 N GLY A 106 ? N GLY A 137 O THR A 87 ? O THR A 118 AB 1 2 N GLY A 94 ? N GLY A 125 O TYR A 70 ? O TYR A 101 AB 2 3 N LEU A 73 ? N LEU A 104 O ASP A 122 ? O ASP A 153 AB 3 4 O VAL A 125 ? O VAL A 156 N ILE A 133 ? N ILE A 164 AC 1 2 N PHE A 119 ? N PHE A 150 O PHE A 142 ? O PHE A 173 AD 1 2 N PHE A 160 ? N PHE A 191 O GLU A 168 ? O GLU A 199 AE 1 2 N HIS A 174 ? N HIS A 205 O LYS A 180 ? O LYS A 211 AF 1 2 N LEU A 192 ? N LEU A 223 O ILE A 200 ? O ILE A 231 # _database_PDB_matrix.entry_id 2YGQ _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 2YGQ _atom_sites.fract_transf_matrix[1][1] 0.005618 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.005618 _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] 0.005618 _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 GLU 1 32 ? ? ? A . n A 1 2 THR 2 33 ? ? ? A . n A 1 3 GLY 3 34 34 GLY GLY A . n A 1 4 SER 4 35 35 SER SER A . n A 1 5 LEU 5 36 36 LEU LEU A . n A 1 6 TYR 6 37 37 TYR TYR A . n A 1 7 LEU 7 38 38 LEU LEU A . n A 1 8 TRP 8 39 39 TRP TRP A . n A 1 9 ILE 9 40 40 ILE ILE A . n A 1 10 ASP 10 41 41 ASP ASP A . n A 1 11 ALA 11 42 42 ALA ALA A . n A 1 12 HIS 12 43 43 HIS HIS A . n A 1 13 GLN 13 44 44 GLN GLN A . n A 1 14 ALA 14 45 45 ALA ALA A . n A 1 15 ARG 15 46 46 ARG ARG A . n A 1 16 VAL 16 47 47 VAL VAL A . n A 1 17 LEU 17 48 48 LEU LEU A . n A 1 18 ILE 18 49 49 ILE ILE A . n A 1 19 GLY 19 50 50 GLY GLY A . n A 1 20 PHE 20 51 51 PHE PHE A . n A 1 21 GLU 21 52 52 GLU GLU A . n A 1 22 GLU 22 53 53 GLU GLU A . n A 1 23 ASP 23 54 54 ASP ASP A . n A 1 24 ILE 24 55 55 ILE ILE A . n A 1 25 LEU 25 56 56 LEU LEU A . n A 1 26 ILE 26 57 57 ILE ILE A . n A 1 27 VAL 27 58 58 VAL VAL A . n A 1 28 SER 28 59 59 SER SER A . n A 1 29 GLU 29 60 60 GLU GLU A . n A 1 30 GLY 30 61 61 GLY GLY A . n A 1 31 LYS 31 62 62 LYS LYS A . n A 1 32 MET 32 63 63 MET MET A . n A 1 33 ALA 33 64 64 ALA ALA A . n A 1 34 PRO 34 65 65 PRO PRO A . n A 1 35 PHE 35 66 66 PHE PHE A . n A 1 36 THR 36 67 67 THR THR A . n A 1 37 HIS 37 68 68 HIS HIS A . n A 1 38 ASP 38 69 69 ASP ASP A . n A 1 39 PHE 39 70 70 PHE PHE A . n A 1 40 ARG 40 71 71 ARG ARG A . n A 1 41 LYS 41 72 72 LYS LYS A . n A 1 42 ALA 42 73 73 ALA ALA A . n A 1 43 GLN 43 74 74 GLN GLN A . n A 1 44 GLN 44 75 75 GLN GLN A . n A 1 45 ARG 45 76 76 ARG ARG A . n A 1 46 MET 46 77 77 MET MET A . n A 1 47 PRO 47 78 78 PRO PRO A . n A 1 48 ALA 48 79 79 ALA ALA A . n A 1 49 ILE 49 80 80 ILE ILE A . n A 1 50 PRO 50 81 81 PRO PRO A . n A 1 51 VAL 51 82 82 VAL VAL A . n A 1 52 ASN 52 83 83 ASN ASN A . n A 1 53 ILE 53 84 84 ILE ILE A . n A 1 54 HIS 54 85 85 HIS HIS A . n A 1 55 SER 55 86 86 SER SER A . n A 1 56 MET 56 87 87 MET MET A . n A 1 57 ASN 57 88 88 ASN ASN A . n A 1 58 PHE 58 89 89 PHE PHE A . n A 1 59 THR 59 90 90 THR THR A . n A 1 60 TRP 60 91 91 TRP TRP A . n A 1 61 GLN 61 92 92 GLN GLN A . n A 1 62 ALA 62 93 93 ALA ALA A . n A 1 63 ALA 63 94 94 ALA ALA A . n A 1 64 GLY 64 95 95 GLY GLY A . n A 1 65 GLN 65 96 96 GLN GLN A . n A 1 66 ALA 66 97 97 ALA ALA A . n A 1 67 GLU 67 98 98 GLU GLU A . n A 1 68 TYR 68 99 99 TYR TYR A . n A 1 69 PHE 69 100 100 PHE PHE A . n A 1 70 TYR 70 101 101 TYR TYR A . n A 1 71 GLU 71 102 102 GLU GLU A . n A 1 72 PHE 72 103 103 PHE PHE A . n A 1 73 LEU 73 104 104 LEU LEU A . n A 1 74 SER 74 105 105 SER SER A . n A 1 75 LEU 75 106 106 LEU LEU A . n A 1 76 ARG 76 107 107 ARG ARG A . n A 1 77 SER 77 108 108 SER SER A . n A 1 78 LEU 78 109 109 LEU LEU A . n A 1 79 ASP 79 110 110 ASP ASP A . n A 1 80 LYS 80 111 111 LYS LYS A . n A 1 81 GLY 81 112 112 GLY GLY A . n A 1 82 ILE 82 113 113 ILE ILE A . n A 1 83 MET 83 114 114 MET MET A . n A 1 84 ALA 84 115 115 ALA ALA A . n A 1 85 ASP 85 116 116 ASP ASP A . n A 1 86 PRO 86 117 117 PRO PRO A . n A 1 87 THR 87 118 118 THR THR A . n A 1 88 VAL 88 119 119 VAL VAL A . n A 1 89 ASN 89 120 120 ASN ASN A . n A 1 90 VAL 90 121 121 VAL VAL A . n A 1 91 PRO 91 122 122 PRO PRO A . n A 1 92 LEU 92 123 123 LEU LEU A . n A 1 93 LEU 93 124 124 LEU LEU A . n A 1 94 GLY 94 125 125 GLY GLY A . n A 1 95 THR 95 126 126 THR THR A . n A 1 96 VAL 96 127 127 VAL VAL A . n A 1 97 PRO 97 128 128 PRO PRO A . n A 1 98 HIS 98 129 129 HIS HIS A . n A 1 99 LYS 99 130 130 LYS LYS A . n A 1 100 ALA 100 131 131 ALA ALA A . n A 1 101 SER 101 132 132 SER SER A . n A 1 102 VAL 102 133 133 VAL VAL A . n A 1 103 VAL 103 134 134 VAL VAL A . n A 1 104 GLN 104 135 135 GLN GLN A . n A 1 105 VAL 105 136 136 VAL VAL A . n A 1 106 GLY 106 137 137 GLY GLY A . n A 1 107 PHE 107 138 138 PHE PHE A . n A 1 108 PRO 108 139 139 PRO PRO A . n A 1 109 CYS 109 140 140 CYS CYS A . n A 1 110 LEU 110 141 141 LEU LEU A . n A 1 111 GLY 111 142 142 GLY GLY A . n A 1 112 LYS 112 143 143 LYS LYS A . n A 1 113 GLN 113 144 144 GLN GLN A . n A 1 114 ASP 114 145 145 ASP ASP A . n A 1 115 GLY 115 146 146 GLY GLY A . n A 1 116 VAL 116 147 147 VAL VAL A . n A 1 117 ALA 117 148 148 ALA ALA A . n A 1 118 ALA 118 149 149 ALA ALA A . n A 1 119 PHE 119 150 150 PHE PHE A . n A 1 120 GLU 120 151 151 GLU GLU A . n A 1 121 VAL 121 152 152 VAL VAL A . n A 1 122 ASP 122 153 153 ASP ASP A . n A 1 123 VAL 123 154 154 VAL VAL A . n A 1 124 ILE 124 155 155 ILE ILE A . n A 1 125 VAL 125 156 156 VAL VAL A . n A 1 126 MET 126 157 157 MET MET A . n A 1 127 ASN 127 158 158 ASN ASN A . n A 1 128 SER 128 159 159 SER SER A . n A 1 129 GLU 129 160 160 GLU GLU A . n A 1 130 GLY 130 161 161 GLY GLY A . n A 1 131 ASN 131 162 162 ASN ASN A . n A 1 132 THR 132 163 163 THR THR A . n A 1 133 ILE 133 164 164 ILE ILE A . n A 1 134 LEU 134 165 165 LEU LEU A . n A 1 135 LYS 135 166 166 LYS LYS A . n A 1 136 THR 136 167 167 THR THR A . n A 1 137 PRO 137 168 168 PRO PRO A . n A 1 138 GLN 138 169 169 GLN GLN A . n A 1 139 ASN 139 170 170 ASN ASN A . n A 1 140 ALA 140 171 171 ALA ALA A . n A 1 141 ILE 141 172 172 ILE ILE A . n A 1 142 PHE 142 173 173 PHE PHE A . n A 1 143 PHE 143 174 174 PHE PHE A . n A 1 144 LYS 144 175 175 LYS LYS A . n A 1 145 THR 145 176 176 THR THR A . n A 1 146 CYS 146 177 177 CYS CYS A . n A 1 147 GLN 147 178 178 GLN GLN A . n A 1 148 GLN 148 179 179 GLN GLN A . n A 1 149 ALA 149 180 180 ALA ALA A . n A 1 150 GLU 150 181 181 GLU GLU A . n A 1 151 CYS 151 182 182 CYS CYS A . n A 1 152 PRO 152 183 183 PRO PRO A . n A 1 153 GLY 153 184 184 GLY GLY A . n A 1 154 GLY 154 185 185 GLY GLY A . n A 1 155 CYS 155 186 186 CYS CYS A . n A 1 156 ARG 156 187 187 ARG ARG A . n A 1 157 ASN 157 188 188 ASN ASN A . n A 1 158 GLY 158 189 189 GLY GLY A . n A 1 159 GLY 159 190 190 GLY GLY A . n A 1 160 PHE 160 191 191 PHE PHE A . n A 1 161 CYS 161 192 192 CYS CYS A . n A 1 162 ASN 162 193 193 ASN ASN A . n A 1 163 GLU 163 194 194 GLU GLU A . n A 1 164 ARG 164 195 195 ARG ARG A . n A 1 165 ARG 165 196 196 ARG ARG A . n A 1 166 ILE 166 197 197 ILE ILE A . n A 1 167 CYS 167 198 198 CYS CYS A . n A 1 168 GLU 168 199 199 GLU GLU A . n A 1 169 CYS 169 200 200 CYS CYS A . n A 1 170 PRO 170 201 201 PRO PRO A . n A 1 171 ASP 171 202 202 ASP ASP A . n A 1 172 GLY 172 203 203 GLY GLY A . n A 1 173 PHE 173 204 204 PHE PHE A . n A 1 174 HIS 174 205 205 HIS HIS A . n A 1 175 GLY 175 206 206 GLY GLY A . n A 1 176 PRO 176 207 207 PRO PRO A . n A 1 177 HIS 177 208 208 HIS HIS A . n A 1 178 CYS 178 209 209 CYS CYS A . n A 1 179 GLU 179 210 210 GLU GLU A . n A 1 180 LYS 180 211 211 LYS LYS A . n A 1 181 ALA 181 212 212 ALA ALA A . n A 1 182 LEU 182 213 213 LEU LEU A . n A 1 183 CYS 183 214 214 CYS CYS A . n A 1 184 THR 184 215 215 THR THR A . n A 1 185 PRO 185 216 216 PRO PRO A . n A 1 186 ARG 186 217 217 ARG ARG A . n A 1 187 CYS 187 218 218 CYS CYS A . n A 1 188 MET 188 219 219 MET MET A . n A 1 189 ASN 189 220 220 ASN ASN A . n A 1 190 GLY 190 221 221 GLY GLY A . n A 1 191 GLY 191 222 222 GLY GLY A . n A 1 192 LEU 192 223 223 LEU LEU A . n A 1 193 CYS 193 224 224 CYS CYS A . n A 1 194 VAL 194 225 225 VAL VAL A . n A 1 195 THR 195 226 226 THR THR A . n A 1 196 PRO 196 227 227 PRO PRO A . n A 1 197 GLY 197 228 228 GLY GLY A . n A 1 198 PHE 198 229 229 PHE PHE A . n A 1 199 CYS 199 230 230 CYS CYS A . n A 1 200 ILE 200 231 231 ILE ILE A . n A 1 201 CYS 201 232 232 CYS CYS A . n A 1 202 PRO 202 233 233 PRO PRO A . n A 1 203 PRO 203 234 234 PRO PRO A . n A 1 204 GLY 204 235 235 GLY GLY A . n A 1 205 PHE 205 236 236 PHE PHE A . n A 1 206 TYR 206 237 237 TYR TYR A . n A 1 207 GLY 207 238 238 GLY GLY A . n A 1 208 VAL 208 239 239 VAL VAL A . n A 1 209 ASN 209 240 240 ASN ASN A . n A 1 210 CYS 210 241 241 CYS CYS A . n A 1 211 ASP 211 242 242 ASP ASP A . n A 1 212 LYS 212 243 243 LYS LYS A . n A 1 213 ALA 213 244 244 ALA ALA A . n A 1 214 ASN 214 245 245 ASN ASN A . n A 1 215 CYS 215 246 246 CYS CYS A . n A 1 216 SER 216 247 247 SER SER A . n A 1 217 THR 217 248 248 THR THR A . n A 1 218 THR 218 249 249 THR THR A . n A 1 219 CYS 219 250 250 CYS CYS A . n A 1 220 PHE 220 251 251 PHE PHE A . n A 1 221 ASN 221 252 252 ASN ASN A . n A 1 222 GLY 222 253 253 GLY GLY A . n A 1 223 GLY 223 254 254 GLY GLY A . n A 1 224 THR 224 255 255 THR THR A . n A 1 225 CYS 225 256 256 CYS CYS A . n A 1 226 PHE 226 257 257 PHE PHE A . n A 1 227 TYR 227 258 258 TYR TYR A . n A 1 228 PRO 228 259 259 PRO PRO A . n A 1 229 GLY 229 260 260 GLY GLY A . n A 1 230 LYS 230 261 261 LYS LYS A . n A 1 231 CYS 231 262 262 CYS CYS A . n A 1 232 ILE 232 263 263 ILE ILE A . n A 1 233 CYS 233 264 264 CYS CYS A . n A 1 234 PRO 234 265 265 PRO PRO A . n A 1 235 PRO 235 266 266 PRO PRO A . n A 1 236 GLY 236 267 267 GLY GLY A . n A 1 237 LEU 237 268 268 LEU LEU A . n A 1 238 GLU 238 269 269 GLU GLU A . n A 1 239 GLY 239 270 270 GLY GLY A . n A 1 240 GLU 240 271 271 GLU GLU A . n A 1 241 GLN 241 272 272 GLN GLN A . n A 1 242 CYS 242 273 273 CYS CYS A . n A 1 243 GLU 243 274 274 GLU GLU A . n A 1 244 ILE 244 275 ? ? ? A . n A 1 245 SER 245 276 ? ? ? A . n A 1 246 LYS 246 277 ? ? ? A . n A 1 247 CYS 247 278 ? ? ? A . n A 1 248 PRO 248 279 ? ? ? A . n A 1 249 GLN 249 280 ? ? ? A . n A 1 250 PRO 250 281 ? ? ? A . n A 1 251 CYS 251 282 ? ? ? A . n A 1 252 ARG 252 283 ? ? ? A . n A 1 253 ASN 253 284 ? ? ? A . n A 1 254 GLY 254 285 ? ? ? A . n A 1 255 GLY 255 286 ? ? ? A . n A 1 256 LYS 256 287 ? ? ? A . n A 1 257 CYS 257 288 ? ? ? A . n A 1 258 ILE 258 289 ? ? ? A . n A 1 259 GLY 259 290 ? ? ? A . n A 1 260 LYS 260 291 ? ? ? A . n A 1 261 SER 261 292 ? ? ? A . n A 1 262 LYS 262 293 ? ? ? A . n A 1 263 CYS 263 294 ? ? ? A . n A 1 264 LYS 264 295 ? ? ? A . n A 1 265 CYS 265 296 ? ? ? A . n A 1 266 SER 266 297 ? ? ? A . n A 1 267 LYS 267 298 ? ? ? A . n A 1 268 GLY 268 299 ? ? ? A . n A 1 269 TYR 269 300 ? ? ? A . n A 1 270 GLN 270 301 ? ? ? A . n A 1 271 GLY 271 302 ? ? ? A . n A 1 272 ASP 272 303 ? ? ? A . n A 1 273 LEU 273 304 ? ? ? A . n A 1 274 CYS 274 305 ? ? ? A . n A 1 275 SER 275 306 ? ? ? A . n A 1 276 LYS 276 307 ? ? ? A . n A 1 277 PRO 277 308 ? ? ? A . n A 1 278 VAL 278 309 ? ? ? A . n A 1 279 CYS 279 310 ? ? ? A . n A 1 280 GLU 280 311 ? ? ? A . n A 1 281 PRO 281 312 ? ? ? A . n A 1 282 GLY 282 313 ? ? ? A . n A 1 283 CYS 283 314 ? ? ? A . n A 1 284 GLY 284 315 ? ? ? A . n A 1 285 ALA 285 316 ? ? ? A . n A 1 286 HIS 286 317 ? ? ? A . n A 1 287 GLY 287 318 ? ? ? A . n A 1 288 THR 288 319 ? ? ? A . n A 1 289 CYS 289 320 ? ? ? A . n A 1 290 HIS 290 321 ? ? ? A . n A 1 291 GLU 291 322 ? ? ? A . n A 1 292 PRO 292 323 ? ? ? A . n A 1 293 ASN 293 324 ? ? ? A . n A 1 294 LYS 294 325 ? ? ? A . n A 1 295 CYS 295 326 ? ? ? A . n A 1 296 GLN 296 327 ? ? ? A . n A 1 297 CYS 297 328 ? ? ? A . n A 1 298 GLN 298 329 ? ? ? A . n A 1 299 GLU 299 330 ? ? ? A . n A 1 300 GLY 300 331 ? ? ? A . n A 1 301 TRP 301 332 ? ? ? A . n A 1 302 HIS 302 333 ? ? ? A . n A 1 303 GLY 303 334 ? ? ? A . n A 1 304 ARG 304 335 ? ? ? A . n A 1 305 HIS 305 336 ? ? ? A . n A 1 306 CYS 306 337 ? ? ? A . n A 1 307 ASN 307 338 ? ? ? A . n A 1 308 LYS 308 339 ? ? ? A . n A 1 309 ARG 309 340 ? ? ? A . n A 1 310 TYR 310 341 ? ? ? A . n A 1 311 GLU 311 342 ? ? ? A . n A 1 312 ALA 312 343 ? ? ? A . n A 1 313 SER 313 344 ? ? ? A . n A 1 314 LEU 314 345 ? ? ? A . n A 1 315 ILE 315 346 ? ? ? A . n A 1 316 GLY 316 347 ? ? ? A . n A 1 317 THR 317 348 ? ? ? A . n A 1 318 LYS 318 349 ? ? ? A . n A 1 319 HIS 319 350 ? ? ? A . n A 1 320 HIS 320 351 ? ? ? A . n A 1 321 HIS 321 352 ? ? ? A . n A 1 322 HIS 322 353 ? ? ? A . n A 1 323 HIS 323 354 ? ? ? A . n A 1 324 HIS 324 355 ? ? ? 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 C 3 PCF 1 1275 1275 PCF PCF A . D 4 NAG 1 1276 1276 NAG NAG A . E 4 NAG 1 1277 1277 NAG NAG A . F 5 FUC 1 1278 1278 FUC FUC A . # _pdbx_molecule_features.prd_id PRD_900013 _pdbx_molecule_features.name 'sucrose octasulfate' _pdbx_molecule_features.type Oligosaccharide _pdbx_molecule_features.class 'Substrate analog' _pdbx_molecule_features.details 'oligosaccharide with reducing-end-to-reducing-end glycosidic bond' # _pdbx_molecule.instance_id 1 _pdbx_molecule.prd_id PRD_900013 _pdbx_molecule.asym_id B # loop_ _pdbx_struct_mod_residue.id _pdbx_struct_mod_residue.label_asym_id _pdbx_struct_mod_residue.label_comp_id _pdbx_struct_mod_residue.label_seq_id _pdbx_struct_mod_residue.auth_asym_id _pdbx_struct_mod_residue.auth_comp_id _pdbx_struct_mod_residue.auth_seq_id _pdbx_struct_mod_residue.PDB_ins_code _pdbx_struct_mod_residue.parent_comp_id _pdbx_struct_mod_residue.details 1 A ASN 57 A ASN 88 ? ASN 'GLYCOSYLATION SITE' 2 A ASN 214 A ASN 245 ? ASN 'GLYCOSYLATION SITE' 3 A THR 224 A THR 255 ? THR 'GLYCOSYLATION SITE' # _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 trimeric _pdbx_struct_assembly.oligomeric_count 3 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F # 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)' 14990 ? 1 MORE -81.4 ? 1 'SSA (A^2)' 37340 ? # 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' 9_555 y,z,x 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 3 'crystal symmetry operation' 5_555 z,x,y 0.0000000000 0.0000000000 1.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2011-07-13 2 'Structure model' 1 1 2011-08-17 3 'Structure model' 2 0 2020-07-29 # loop_ _pdbx_audit_revision_details.ordinal _pdbx_audit_revision_details.revision_ordinal _pdbx_audit_revision_details.data_content_type _pdbx_audit_revision_details.provider _pdbx_audit_revision_details.type _pdbx_audit_revision_details.description _pdbx_audit_revision_details.details 1 1 'Structure model' repository 'Initial release' ? ? 2 3 'Structure model' repository Remediation 'Carbohydrate remediation' ? # 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' 'Database references' 2 3 'Structure model' 'Atomic model' 3 3 'Structure model' 'Data collection' 4 3 'Structure model' 'Derived calculations' 5 3 'Structure model' 'Non-polymer description' 6 3 'Structure model' Other 7 3 'Structure model' 'Structure summary' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 3 'Structure model' atom_site 2 3 'Structure model' atom_site_anisotrop 3 3 'Structure model' chem_comp 4 3 'Structure model' entity 5 3 'Structure model' entity_name_com 6 3 'Structure model' pdbx_branch_scheme 7 3 'Structure model' pdbx_chem_comp_identifier 8 3 'Structure model' pdbx_database_status 9 3 'Structure model' pdbx_entity_branch 10 3 'Structure model' pdbx_entity_branch_descriptor 11 3 'Structure model' pdbx_entity_branch_link 12 3 'Structure model' pdbx_entity_branch_list 13 3 'Structure model' pdbx_entity_nonpoly 14 3 'Structure model' pdbx_molecule_features 15 3 'Structure model' pdbx_nonpoly_scheme 16 3 'Structure model' struct_asym 17 3 'Structure model' struct_conn 18 3 'Structure model' struct_site 19 3 'Structure model' struct_site_gen # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 3 'Structure model' '_atom_site.B_iso_or_equiv' 2 3 'Structure model' '_atom_site.Cartn_x' 3 3 'Structure model' '_atom_site.Cartn_y' 4 3 'Structure model' '_atom_site.Cartn_z' 5 3 'Structure model' '_atom_site.auth_asym_id' 6 3 'Structure model' '_atom_site.auth_atom_id' 7 3 'Structure model' '_atom_site.auth_comp_id' 8 3 'Structure model' '_atom_site.auth_seq_id' 9 3 'Structure model' '_atom_site.label_asym_id' 10 3 'Structure model' '_atom_site.label_atom_id' 11 3 'Structure model' '_atom_site.label_comp_id' 12 3 'Structure model' '_atom_site.label_entity_id' 13 3 'Structure model' '_atom_site.type_symbol' 14 3 'Structure model' '_atom_site_anisotrop.U[1][1]' 15 3 'Structure model' '_atom_site_anisotrop.U[1][2]' 16 3 'Structure model' '_atom_site_anisotrop.U[1][3]' 17 3 'Structure model' '_atom_site_anisotrop.U[2][2]' 18 3 'Structure model' '_atom_site_anisotrop.U[2][3]' 19 3 'Structure model' '_atom_site_anisotrop.U[3][3]' 20 3 'Structure model' '_atom_site_anisotrop.pdbx_auth_asym_id' 21 3 'Structure model' '_atom_site_anisotrop.pdbx_auth_atom_id' 22 3 'Structure model' '_atom_site_anisotrop.pdbx_auth_comp_id' 23 3 'Structure model' '_atom_site_anisotrop.pdbx_auth_seq_id' 24 3 'Structure model' '_atom_site_anisotrop.pdbx_label_asym_id' 25 3 'Structure model' '_atom_site_anisotrop.pdbx_label_atom_id' 26 3 'Structure model' '_atom_site_anisotrop.pdbx_label_comp_id' 27 3 'Structure model' '_atom_site_anisotrop.type_symbol' 28 3 'Structure model' '_chem_comp.formula' 29 3 'Structure model' '_chem_comp.formula_weight' 30 3 'Structure model' '_chem_comp.id' 31 3 'Structure model' '_chem_comp.mon_nstd_flag' 32 3 'Structure model' '_chem_comp.name' 33 3 'Structure model' '_chem_comp.type' 34 3 'Structure model' '_entity.formula_weight' 35 3 'Structure model' '_entity.pdbx_description' 36 3 'Structure model' '_entity.pdbx_number_of_molecules' 37 3 'Structure model' '_entity.src_method' 38 3 'Structure model' '_entity.type' 39 3 'Structure model' '_pdbx_database_status.status_code_sf' 40 3 'Structure model' '_struct_asym.entity_id' # _pdbx_refine_tls.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls.id 1 _pdbx_refine_tls.details ? _pdbx_refine_tls.method refined _pdbx_refine_tls.origin_x 30.9997 _pdbx_refine_tls.origin_y 4.4045 _pdbx_refine_tls.origin_z 14.9562 _pdbx_refine_tls.T[1][1] 1.1011 _pdbx_refine_tls.T[2][2] 1.0649 _pdbx_refine_tls.T[3][3] 1.1069 _pdbx_refine_tls.T[1][2] 0.0253 _pdbx_refine_tls.T[1][3] 0.2386 _pdbx_refine_tls.T[2][3] 0.0784 _pdbx_refine_tls.L[1][1] 1.7200 _pdbx_refine_tls.L[2][2] 1.9007 _pdbx_refine_tls.L[3][3] 1.8936 _pdbx_refine_tls.L[1][2] -0.7670 _pdbx_refine_tls.L[1][3] -0.6516 _pdbx_refine_tls.L[2][3] -1.1107 _pdbx_refine_tls.S[1][1] -0.0460 _pdbx_refine_tls.S[1][2] -0.3552 _pdbx_refine_tls.S[1][3] -0.2610 _pdbx_refine_tls.S[2][1] 0.6898 _pdbx_refine_tls.S[2][2] 0.1429 _pdbx_refine_tls.S[2][3] 0.1029 _pdbx_refine_tls.S[3][1] -0.2222 _pdbx_refine_tls.S[3][2] 0.3645 _pdbx_refine_tls.S[3][3] -0.0867 # _pdbx_refine_tls_group.pdbx_refine_id 'X-RAY DIFFRACTION' _pdbx_refine_tls_group.id 1 _pdbx_refine_tls_group.refine_tls_id 1 _pdbx_refine_tls_group.beg_auth_asym_id ? _pdbx_refine_tls_group.beg_auth_seq_id ? _pdbx_refine_tls_group.beg_label_asym_id ? _pdbx_refine_tls_group.beg_label_seq_id ? _pdbx_refine_tls_group.end_auth_asym_id ? _pdbx_refine_tls_group.end_auth_seq_id ? _pdbx_refine_tls_group.end_label_asym_id ? _pdbx_refine_tls_group.end_label_seq_id ? _pdbx_refine_tls_group.selection ? _pdbx_refine_tls_group.selection_details ALL # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal PHENIX refinement '(PHENIX.REFINE: 1.7_650)' ? 1 DENZO 'data reduction' . ? 2 SCALEPACK 'data scaling' . ? 3 PHASER phasing . ? 4 # _pdbx_entry_details.entry_id 2YGQ _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ;ISOFORM Q166K. THE N-TERMINAL THREE AMINO ACID RESIDUES (ETG) AND C-TERMINAL NINE AMINO ACID RESIDUES (GTKHHHHHH) OF THE CRYSTALLISATION CONSTRUCT ARE DERIVED FROM THE PHLSEC VECTOR. ; _pdbx_entry_details.has_ligand_of_interest ? # _pdbx_validate_rmsd_bond.id 1 _pdbx_validate_rmsd_bond.PDB_model_num 1 _pdbx_validate_rmsd_bond.auth_atom_id_1 CD _pdbx_validate_rmsd_bond.auth_asym_id_1 A _pdbx_validate_rmsd_bond.auth_comp_id_1 PRO _pdbx_validate_rmsd_bond.auth_seq_id_1 78 _pdbx_validate_rmsd_bond.PDB_ins_code_1 ? _pdbx_validate_rmsd_bond.label_alt_id_1 ? _pdbx_validate_rmsd_bond.auth_atom_id_2 N _pdbx_validate_rmsd_bond.auth_asym_id_2 A _pdbx_validate_rmsd_bond.auth_comp_id_2 PRO _pdbx_validate_rmsd_bond.auth_seq_id_2 78 _pdbx_validate_rmsd_bond.PDB_ins_code_2 ? _pdbx_validate_rmsd_bond.label_alt_id_2 ? _pdbx_validate_rmsd_bond.bond_value 1.648 _pdbx_validate_rmsd_bond.bond_target_value 1.474 _pdbx_validate_rmsd_bond.bond_deviation 0.174 _pdbx_validate_rmsd_bond.bond_standard_deviation 0.014 _pdbx_validate_rmsd_bond.linker_flag N # loop_ _pdbx_validate_torsion.id _pdbx_validate_torsion.PDB_model_num _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.PDB_ins_code _pdbx_validate_torsion.label_alt_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi 1 1 ARG A 76 ? ? -64.09 2.13 2 1 GLN A 92 ? ? -172.88 138.86 3 1 ILE A 113 ? ? -94.93 -61.81 4 1 GLN A 169 ? ? -30.66 123.88 5 1 PHE A 229 ? ? 62.26 -179.01 6 1 PHE A 257 ? ? -131.84 -32.66 7 1 CYS A 273 ? ? 63.46 82.11 # 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 GLU 32 ? A GLU 1 2 1 Y 1 A THR 33 ? A THR 2 3 1 Y 1 A ILE 275 ? A ILE 244 4 1 Y 1 A SER 276 ? A SER 245 5 1 Y 1 A LYS 277 ? A LYS 246 6 1 Y 1 A CYS 278 ? A CYS 247 7 1 Y 1 A PRO 279 ? A PRO 248 8 1 Y 1 A GLN 280 ? A GLN 249 9 1 Y 1 A PRO 281 ? A PRO 250 10 1 Y 1 A CYS 282 ? A CYS 251 11 1 Y 1 A ARG 283 ? A ARG 252 12 1 Y 1 A ASN 284 ? A ASN 253 13 1 Y 1 A GLY 285 ? A GLY 254 14 1 Y 1 A GLY 286 ? A GLY 255 15 1 Y 1 A LYS 287 ? A LYS 256 16 1 Y 1 A CYS 288 ? A CYS 257 17 1 Y 1 A ILE 289 ? A ILE 258 18 1 Y 1 A GLY 290 ? A GLY 259 19 1 Y 1 A LYS 291 ? A LYS 260 20 1 Y 1 A SER 292 ? A SER 261 21 1 Y 1 A LYS 293 ? A LYS 262 22 1 Y 1 A CYS 294 ? A CYS 263 23 1 Y 1 A LYS 295 ? A LYS 264 24 1 Y 1 A CYS 296 ? A CYS 265 25 1 Y 1 A SER 297 ? A SER 266 26 1 Y 1 A LYS 298 ? A LYS 267 27 1 Y 1 A GLY 299 ? A GLY 268 28 1 Y 1 A TYR 300 ? A TYR 269 29 1 Y 1 A GLN 301 ? A GLN 270 30 1 Y 1 A GLY 302 ? A GLY 271 31 1 Y 1 A ASP 303 ? A ASP 272 32 1 Y 1 A LEU 304 ? A LEU 273 33 1 Y 1 A CYS 305 ? A CYS 274 34 1 Y 1 A SER 306 ? A SER 275 35 1 Y 1 A LYS 307 ? A LYS 276 36 1 Y 1 A PRO 308 ? A PRO 277 37 1 Y 1 A VAL 309 ? A VAL 278 38 1 Y 1 A CYS 310 ? A CYS 279 39 1 Y 1 A GLU 311 ? A GLU 280 40 1 Y 1 A PRO 312 ? A PRO 281 41 1 Y 1 A GLY 313 ? A GLY 282 42 1 Y 1 A CYS 314 ? A CYS 283 43 1 Y 1 A GLY 315 ? A GLY 284 44 1 Y 1 A ALA 316 ? A ALA 285 45 1 Y 1 A HIS 317 ? A HIS 286 46 1 Y 1 A GLY 318 ? A GLY 287 47 1 Y 1 A THR 319 ? A THR 288 48 1 Y 1 A CYS 320 ? A CYS 289 49 1 Y 1 A HIS 321 ? A HIS 290 50 1 Y 1 A GLU 322 ? A GLU 291 51 1 Y 1 A PRO 323 ? A PRO 292 52 1 Y 1 A ASN 324 ? A ASN 293 53 1 Y 1 A LYS 325 ? A LYS 294 54 1 Y 1 A CYS 326 ? A CYS 295 55 1 Y 1 A GLN 327 ? A GLN 296 56 1 Y 1 A CYS 328 ? A CYS 297 57 1 Y 1 A GLN 329 ? A GLN 298 58 1 Y 1 A GLU 330 ? A GLU 299 59 1 Y 1 A GLY 331 ? A GLY 300 60 1 Y 1 A TRP 332 ? A TRP 301 61 1 Y 1 A HIS 333 ? A HIS 302 62 1 Y 1 A GLY 334 ? A GLY 303 63 1 Y 1 A ARG 335 ? A ARG 304 64 1 Y 1 A HIS 336 ? A HIS 305 65 1 Y 1 A CYS 337 ? A CYS 306 66 1 Y 1 A ASN 338 ? A ASN 307 67 1 Y 1 A LYS 339 ? A LYS 308 68 1 Y 1 A ARG 340 ? A ARG 309 69 1 Y 1 A TYR 341 ? A TYR 310 70 1 Y 1 A GLU 342 ? A GLU 311 71 1 Y 1 A ALA 343 ? A ALA 312 72 1 Y 1 A SER 344 ? A SER 313 73 1 Y 1 A LEU 345 ? A LEU 314 74 1 Y 1 A ILE 346 ? A ILE 315 75 1 Y 1 A GLY 347 ? A GLY 316 76 1 Y 1 A THR 348 ? A THR 317 77 1 Y 1 A LYS 349 ? A LYS 318 78 1 Y 1 A HIS 350 ? A HIS 319 79 1 Y 1 A HIS 351 ? A HIS 320 80 1 Y 1 A HIS 352 ? A HIS 321 81 1 Y 1 A HIS 353 ? A HIS 322 82 1 Y 1 A HIS 354 ? A HIS 323 83 1 Y 1 A HIS 355 ? A HIS 324 # loop_ _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_mon_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.hetero B 2 GU4 1 B GU4 1 A SCR 1279 n B 2 YYJ 2 B YYJ 2 A SCR 1279 n # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version _pdbx_chem_comp_identifier.identifier FUC 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1.0 LFucpa FUC 'COMMON NAME' GMML 1.0 a-L-fucopyranose FUC 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1.0 a-L-Fucp FUC 'SNFG CARBOHYDRATE SYMBOL' GMML 1.0 Fuc GU4 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1.0 'DGlcp[2S,3S,4S,6S]a' GU4 'COMMON NAME' GMML 1.0 2-sulfo-3-sulfo-4-sulfo-6-sulfo-a-D-glucopyranose GU4 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1.0 a-D-Glcp2SO33SO34SO36SO3 NAG 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1.0 DGlcpNAcb NAG 'COMMON NAME' GMML 1.0 N-acetyl-b-D-glucopyranosamine NAG 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1.0 b-D-GlcpNAc NAG 'SNFG CARBOHYDRATE SYMBOL' GMML 1.0 GlcNAc # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_descriptor.ordinal _pdbx_entity_branch_descriptor.entity_id _pdbx_entity_branch_descriptor.descriptor _pdbx_entity_branch_descriptor.type _pdbx_entity_branch_descriptor.program _pdbx_entity_branch_descriptor.program_version 1 2 ;WURCS=2.0/2,2,1/[ha122h-2b_2-5_1*OSO/3=O/3=O_3*OSO/3=O/3=O_4*OSO/3=O/3=O_6*OSO/3=O/3=O][a2122h-1a_1-5_2*OSO/3=O/3=O_3*OSO/3=O/3=O_4*OSO/3=O/3=O_6*OSO/3=O/3=O]/1-2/a2-b1 ; WURCS PDB2Glycan 1.1.0 2 2 '[][b-D-Fruf1SO33SO34SO36SO3]{[(2+1)][a-D-Glcp2SO33SO34SO36SO3]{}}' LINUCS PDB-CARE ? # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 1 _pdbx_entity_branch_link.comp_id_1 GU4 _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.entity_branch_list_num_2 2 _pdbx_entity_branch_link.comp_id_2 YYJ _pdbx_entity_branch_link.atom_id_2 O2 _pdbx_entity_branch_link.leaving_atom_id_2 HO2 _pdbx_entity_branch_link.value_order sing _pdbx_entity_branch_link.details ? # loop_ _pdbx_entity_branch_list.entity_id _pdbx_entity_branch_list.comp_id _pdbx_entity_branch_list.num _pdbx_entity_branch_list.hetero 2 GU4 1 n 2 YYJ 2 n # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 3 1,2-DIACYL-SN-GLYCERO-3-PHOSHOCHOLINE PCF 4 2-acetamido-2-deoxy-beta-D-glucopyranose NAG 5 alpha-L-fucopyranose FUC #