data_8GD5 # _entry.id 8GD5 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.370 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 8GD5 pdb_00008gd5 10.2210/pdb8gd5/pdb WWPDB D_1000272631 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 8GD5 _pdbx_database_status.recvd_initial_deposition_date 2023-03-03 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Tolbert, W.D.' 1 ? 'Nguyen, D.N.' 2 ? 'Pazgier, M.' 3 ? # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country CH _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev Viruses _citation.journal_id_ASTM ? _citation.journal_id_CSD ? _citation.journal_id_ISSN 1999-4915 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 15 _citation.language ? _citation.page_first ? _citation.page_last ? _citation.title 'Piperidine CD4-Mimetic Compounds Expose Vulnerable Env Epitopes Sensitizing HIV-1-Infected Cells to ADCC.' _citation.year 2023 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.3390/v15051185 _citation.pdbx_database_id_PubMed 37243271 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Ding, S.' 1 ? primary 'Tolbert, W.D.' 2 ? primary 'Zhu, H.' 3 ? primary 'Lee, D.' 4 0000-0002-7322-1512 primary 'Marchitto, L.' 5 ? primary 'Higgins, T.' 6 ? primary 'Zhao, X.' 7 ? primary 'Nguyen, D.' 8 ? primary 'Sherburn, R.' 9 ? primary 'Richard, J.' 10 ? primary 'Gendron-Lepage, G.' 11 ? primary 'Medjahed, H.' 12 ? primary 'Mohammadi, M.' 13 0000-0001-7344-0857 primary 'Abrams, C.' 14 ? primary 'Pazgier, M.' 15 0000-0003-0594-5057 primary 'Smith III, A.B.' 16 ? primary 'Finzi, A.' 17 ? # _cell.angle_alpha 90.00 _cell.angle_alpha_esd ? _cell.angle_beta 90.00 _cell.angle_beta_esd ? _cell.angle_gamma 90.00 _cell.angle_gamma_esd ? _cell.entry_id 8GD5 _cell.details ? _cell.formula_units_Z ? _cell.length_a 63.395 _cell.length_a_esd ? _cell.length_b 66.792 _cell.length_b_esd ? _cell.length_c 92.123 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 4 _cell.reciprocal_angle_alpha ? _cell.reciprocal_angle_beta ? _cell.reciprocal_angle_gamma ? _cell.reciprocal_angle_alpha_esd ? _cell.reciprocal_angle_beta_esd ? _cell.reciprocal_angle_gamma_esd ? _cell.reciprocal_length_a ? _cell.reciprocal_length_b ? _cell.reciprocal_length_c ? _cell.reciprocal_length_a_esd ? _cell.reciprocal_length_b_esd ? _cell.reciprocal_length_c_esd ? _cell.pdbx_unique_axis ? _cell.pdbx_esd_method ? # _symmetry.entry_id 8GD5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' _symmetry.pdbx_full_space_group_name_H-M ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer man 'HIV-1 LM/HS clade A/E CRF01 gp120 core' 39452.723 1 ? H61Y,Q105H,V108I,H375T,N474D,I475M,K476R ? ? 2 non-polymer man 2-acetamido-2-deoxy-beta-D-glucopyranose 221.208 10 ? ? ? ? 3 non-polymer syn '4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID' 238.305 1 ? ? ? ? 4 non-polymer syn '{4-[(3S,5R)-3-[(4-chloro-3-fluorophenyl)carbamoyl]-5-(hydroxymethyl)piperidine-1-carbonyl]piperazin-1-yl}acetic acid' 456.896 1 ? ? ? ? 5 water nat water 18.015 2 ? ? ? ? # _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 ;VPVWKDADTTLFCASDAKAYETEVHNVWATHACVPTDPNPQEIHLENVTENFNMWKNNMVEQMHEDIISLWDQSLQPCVK LTGGSVIKQACPKISFDPIPIHYCTPAGYVILKCNDKNFNGTGPCKNVSSVQCTHGIKPVVSTQLLLNGSLAEEEIIIRS ENLTNNAKTIIVHLNKSVEINCTRPSNGGSGSGGDIRKAYCEINGTKWNKVLKQVTEKLKEHFNNKTIIFQPPSGGDLEI TMHSFNCRGEFFYCNTTQLFNNTCIGNETMKGCNGTITLPCKIKQIINMWQGTGQAMYAPPIDGKINCVSNITGILLTRD GGANNTSNETFRPGGGDMRDNWRSELYKYKVVQIE ; _entity_poly.pdbx_seq_one_letter_code_can ;VPVWKDADTTLFCASDAKAYETEVHNVWATHACVPTDPNPQEIHLENVTENFNMWKNNMVEQMHEDIISLWDQSLQPCVK LTGGSVIKQACPKISFDPIPIHYCTPAGYVILKCNDKNFNGTGPCKNVSSVQCTHGIKPVVSTQLLLNGSLAEEEIIIRS ENLTNNAKTIIVHLNKSVEINCTRPSNGGSGSGGDIRKAYCEINGTKWNKVLKQVTEKLKEHFNNKTIIFQPPSGGDLEI TMHSFNCRGEFFYCNTTQLFNNTCIGNETMKGCNGTITLPCKIKQIINMWQGTGQAMYAPPIDGKINCVSNITGILLTRD GGANNTSNETFRPGGGDMRDNWRSELYKYKVVQIE ; _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 VAL n 1 2 PRO n 1 3 VAL n 1 4 TRP n 1 5 LYS n 1 6 ASP n 1 7 ALA n 1 8 ASP n 1 9 THR n 1 10 THR n 1 11 LEU n 1 12 PHE n 1 13 CYS n 1 14 ALA n 1 15 SER n 1 16 ASP n 1 17 ALA n 1 18 LYS n 1 19 ALA n 1 20 TYR n 1 21 GLU n 1 22 THR n 1 23 GLU n 1 24 VAL n 1 25 HIS n 1 26 ASN n 1 27 VAL n 1 28 TRP n 1 29 ALA n 1 30 THR n 1 31 HIS n 1 32 ALA n 1 33 CYS n 1 34 VAL n 1 35 PRO n 1 36 THR n 1 37 ASP n 1 38 PRO n 1 39 ASN n 1 40 PRO n 1 41 GLN n 1 42 GLU n 1 43 ILE n 1 44 HIS n 1 45 LEU n 1 46 GLU n 1 47 ASN n 1 48 VAL n 1 49 THR n 1 50 GLU n 1 51 ASN n 1 52 PHE n 1 53 ASN n 1 54 MET n 1 55 TRP n 1 56 LYS n 1 57 ASN n 1 58 ASN n 1 59 MET n 1 60 VAL n 1 61 GLU n 1 62 GLN n 1 63 MET n 1 64 HIS n 1 65 GLU n 1 66 ASP n 1 67 ILE n 1 68 ILE n 1 69 SER n 1 70 LEU n 1 71 TRP n 1 72 ASP n 1 73 GLN n 1 74 SER n 1 75 LEU n 1 76 GLN n 1 77 PRO n 1 78 CYS n 1 79 VAL n 1 80 LYS n 1 81 LEU n 1 82 THR n 1 83 GLY n 1 84 GLY n 1 85 SER n 1 86 VAL n 1 87 ILE n 1 88 LYS n 1 89 GLN n 1 90 ALA n 1 91 CYS n 1 92 PRO n 1 93 LYS n 1 94 ILE n 1 95 SER n 1 96 PHE n 1 97 ASP n 1 98 PRO n 1 99 ILE n 1 100 PRO n 1 101 ILE n 1 102 HIS n 1 103 TYR n 1 104 CYS n 1 105 THR n 1 106 PRO n 1 107 ALA n 1 108 GLY n 1 109 TYR n 1 110 VAL n 1 111 ILE n 1 112 LEU n 1 113 LYS n 1 114 CYS n 1 115 ASN n 1 116 ASP n 1 117 LYS n 1 118 ASN n 1 119 PHE n 1 120 ASN n 1 121 GLY n 1 122 THR n 1 123 GLY n 1 124 PRO n 1 125 CYS n 1 126 LYS n 1 127 ASN n 1 128 VAL n 1 129 SER n 1 130 SER n 1 131 VAL n 1 132 GLN n 1 133 CYS n 1 134 THR n 1 135 HIS n 1 136 GLY n 1 137 ILE n 1 138 LYS n 1 139 PRO n 1 140 VAL n 1 141 VAL n 1 142 SER n 1 143 THR n 1 144 GLN n 1 145 LEU n 1 146 LEU n 1 147 LEU n 1 148 ASN n 1 149 GLY n 1 150 SER n 1 151 LEU n 1 152 ALA n 1 153 GLU n 1 154 GLU n 1 155 GLU n 1 156 ILE n 1 157 ILE n 1 158 ILE n 1 159 ARG n 1 160 SER n 1 161 GLU n 1 162 ASN n 1 163 LEU n 1 164 THR n 1 165 ASN n 1 166 ASN n 1 167 ALA n 1 168 LYS n 1 169 THR n 1 170 ILE n 1 171 ILE n 1 172 VAL n 1 173 HIS n 1 174 LEU n 1 175 ASN n 1 176 LYS n 1 177 SER n 1 178 VAL n 1 179 GLU n 1 180 ILE n 1 181 ASN n 1 182 CYS n 1 183 THR n 1 184 ARG n 1 185 PRO n 1 186 SER n 1 187 ASN n 1 188 GLY n 1 189 GLY n 1 190 SER n 1 191 GLY n 1 192 SER n 1 193 GLY n 1 194 GLY n 1 195 ASP n 1 196 ILE n 1 197 ARG n 1 198 LYS n 1 199 ALA n 1 200 TYR n 1 201 CYS n 1 202 GLU n 1 203 ILE n 1 204 ASN n 1 205 GLY n 1 206 THR n 1 207 LYS n 1 208 TRP n 1 209 ASN n 1 210 LYS n 1 211 VAL n 1 212 LEU n 1 213 LYS n 1 214 GLN n 1 215 VAL n 1 216 THR n 1 217 GLU n 1 218 LYS n 1 219 LEU n 1 220 LYS n 1 221 GLU n 1 222 HIS n 1 223 PHE n 1 224 ASN n 1 225 ASN n 1 226 LYS n 1 227 THR n 1 228 ILE n 1 229 ILE n 1 230 PHE n 1 231 GLN n 1 232 PRO n 1 233 PRO n 1 234 SER n 1 235 GLY n 1 236 GLY n 1 237 ASP n 1 238 LEU n 1 239 GLU n 1 240 ILE n 1 241 THR n 1 242 MET n 1 243 HIS n 1 244 SER n 1 245 PHE n 1 246 ASN n 1 247 CYS n 1 248 ARG n 1 249 GLY n 1 250 GLU n 1 251 PHE n 1 252 PHE n 1 253 TYR n 1 254 CYS n 1 255 ASN n 1 256 THR n 1 257 THR n 1 258 GLN n 1 259 LEU n 1 260 PHE n 1 261 ASN n 1 262 ASN n 1 263 THR n 1 264 CYS n 1 265 ILE n 1 266 GLY n 1 267 ASN n 1 268 GLU n 1 269 THR n 1 270 MET n 1 271 LYS n 1 272 GLY n 1 273 CYS n 1 274 ASN n 1 275 GLY n 1 276 THR n 1 277 ILE n 1 278 THR n 1 279 LEU n 1 280 PRO n 1 281 CYS n 1 282 LYS n 1 283 ILE n 1 284 LYS n 1 285 GLN n 1 286 ILE n 1 287 ILE n 1 288 ASN n 1 289 MET n 1 290 TRP n 1 291 GLN n 1 292 GLY n 1 293 THR n 1 294 GLY n 1 295 GLN n 1 296 ALA n 1 297 MET n 1 298 TYR n 1 299 ALA n 1 300 PRO n 1 301 PRO n 1 302 ILE n 1 303 ASP n 1 304 GLY n 1 305 LYS n 1 306 ILE n 1 307 ASN n 1 308 CYS n 1 309 VAL n 1 310 SER n 1 311 ASN n 1 312 ILE n 1 313 THR n 1 314 GLY n 1 315 ILE n 1 316 LEU n 1 317 LEU n 1 318 THR n 1 319 ARG n 1 320 ASP n 1 321 GLY n 1 322 GLY n 1 323 ALA n 1 324 ASN n 1 325 ASN n 1 326 THR n 1 327 SER n 1 328 ASN n 1 329 GLU n 1 330 THR n 1 331 PHE n 1 332 ARG n 1 333 PRO n 1 334 GLY n 1 335 GLY n 1 336 GLY n 1 337 ASP n 1 338 MET n 1 339 ARG n 1 340 ASP n 1 341 ASN n 1 342 TRP n 1 343 ARG n 1 344 SER n 1 345 GLU n 1 346 LEU n 1 347 TYR n 1 348 LYS n 1 349 TYR n 1 350 LYS n 1 351 VAL n 1 352 VAL n 1 353 GLN n 1 354 ILE n 1 355 GLU n # _entity_src_gen.entity_id 1 _entity_src_gen.pdbx_src_id 1 _entity_src_gen.pdbx_alt_source_flag sample _entity_src_gen.pdbx_seq_type 'Biological sequence' _entity_src_gen.pdbx_beg_seq_num 1 _entity_src_gen.pdbx_end_seq_num 355 _entity_src_gen.gene_src_common_name ? _entity_src_gen.gene_src_genus ? _entity_src_gen.pdbx_gene_src_gene 'HIV-1 Env' _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 'Human immunodeficiency virus 1' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 11676 _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 '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 ? _entity_src_gen.pdbx_host_org_atcc ? _entity_src_gen.pdbx_host_org_culture_collection ? _entity_src_gen.pdbx_host_org_cell 'HEK 293 GnT1-' _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 A0A0M3KKW9_9HIV1 _struct_ref.pdbx_db_accession A0A0M3KKW9 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;VWKDADTTLFCASDAKAHETEVHNVWATHACVPTDPNPQEIHLENVTENFNMWKNNMVEQMQEDVISLWDQSLQPCVKLT GGSVIKQACPKISFDPIPIHYCTPAGYVILKCNDKNFNGTGPCKNVSSVQCTHGIKPVVSTQLLLNGSLAEEEIIIRSEN LTNNAKTIIVHLNKSVEINCTRPSNGGSGSGGDIRKAYCEINGTKWNKVLKQVTEKLKEHFNNKTIIFQPPSGGDLEITM HHFNCRGEFFYCNTTQLFNNTCIGNETMKGCNGTITLPCKIKQIINMWQGTGQAMYAPPIDGKINCVSNITGILLTRDGG ANNTSNETFRPGGGNIKDNWRSELYKYKVVQIE ; _struct_ref.pdbx_align_begin 1 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 8GD5 _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 3 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 355 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession A0A0M3KKW9 _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 353 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 44 _struct_ref_seq.pdbx_auth_seq_align_end 492 # 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 8GD5 VAL A 1 ? UNP A0A0M3KKW9 ? ? 'expression tag' 42 1 1 8GD5 PRO A 2 ? UNP A0A0M3KKW9 ? ? 'expression tag' 43 2 1 8GD5 TYR A 20 ? UNP A0A0M3KKW9 HIS 18 'engineered mutation' 61 3 1 8GD5 HIS A 64 ? UNP A0A0M3KKW9 GLN 62 'engineered mutation' 105 4 1 8GD5 ILE A 67 ? UNP A0A0M3KKW9 VAL 65 'engineered mutation' 108 5 1 8GD5 SER A 244 ? UNP A0A0M3KKW9 HIS 242 'engineered mutation' 375 6 1 8GD5 ASP A 337 ? UNP A0A0M3KKW9 ASN 335 'engineered mutation' 474 7 1 8GD5 MET A 338 ? UNP A0A0M3KKW9 ILE 336 'engineered mutation' 475 8 1 8GD5 ARG A 339 ? UNP A0A0M3KKW9 LYS 337 'engineered mutation' 476 9 # 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 EPE non-polymer . '4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID' HEPES 'C8 H18 N2 O4 S' 238.305 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 NAG 'D-saccharide, beta linking' . 2-acetamido-2-deoxy-beta-D-glucopyranose ;N-acetyl-beta-D-glucosamine; 2-acetamido-2-deoxy-beta-D-glucose; 2-acetamido-2-deoxy-D-glucose; 2-acetamido-2-deoxy-glucose; N-ACETYL-D-GLUCOSAMINE ; 'C8 H15 N O6' 221.208 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 Z2O non-polymer . '{4-[(3S,5R)-3-[(4-chloro-3-fluorophenyl)carbamoyl]-5-(hydroxymethyl)piperidine-1-carbonyl]piperazin-1-yl}acetic acid' ? 'C20 H26 Cl F N4 O5' 456.896 # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.entry_id 8GD5 _exptl.crystals_number 1 _exptl.details ? _exptl.method 'X-RAY DIFFRACTION' _exptl.method_details ? # _exptl_crystal.colour ? _exptl_crystal.density_diffrn ? _exptl_crystal.density_Matthews 2.47 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 50.24 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.id 1 _exptl_crystal.preparation ? _exptl_crystal.size_max ? _exptl_crystal.size_mid ? _exptl_crystal.size_min ? _exptl_crystal.size_rad ? _exptl_crystal.colour_lustre ? _exptl_crystal.colour_modifier ? _exptl_crystal.colour_primary ? _exptl_crystal.density_meas ? _exptl_crystal.density_meas_esd ? _exptl_crystal.density_meas_gt ? _exptl_crystal.density_meas_lt ? _exptl_crystal.density_meas_temp ? _exptl_crystal.density_meas_temp_esd ? _exptl_crystal.density_meas_temp_gt ? _exptl_crystal.density_meas_temp_lt ? _exptl_crystal.pdbx_crystal_image_url ? _exptl_crystal.pdbx_crystal_image_format ? _exptl_crystal.pdbx_mosaicity ? _exptl_crystal.pdbx_mosaicity_esd ? _exptl_crystal.pdbx_mosaic_method ? _exptl_crystal.pdbx_mosaic_block_size ? _exptl_crystal.pdbx_mosaic_block_size_esd ? # _exptl_crystal_grow.apparatus ? _exptl_crystal_grow.atmosphere ? _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.details ? _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH 7.5 _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details ;10% PEG 3350 5% PEG 400 0.1 M HEPES pH 7.5 ; _exptl_crystal_grow.pdbx_pH_range ? _exptl_crystal_grow.temp 294 # _diffrn.ambient_environment ? _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.ambient_temp_esd ? _diffrn.crystal_id 1 _diffrn.crystal_support ? _diffrn.crystal_treatment ? _diffrn.details ? _diffrn.id 1 _diffrn.ambient_pressure ? _diffrn.ambient_pressure_esd ? _diffrn.ambient_pressure_gt ? _diffrn.ambient_pressure_lt ? _diffrn.ambient_temp_gt ? _diffrn.ambient_temp_lt ? _diffrn.pdbx_serial_crystal_experiment N # _diffrn_detector.details ? _diffrn_detector.detector PIXEL _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'DECTRIS EIGER X 16M' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2022-06-10 _diffrn_detector.pdbx_frequency ? _diffrn_detector.id ? _diffrn_detector.number_of_axes ? # _diffrn_radiation.collimation ? _diffrn_radiation.diffrn_id 1 _diffrn_radiation.filter_edge ? _diffrn_radiation.inhomogeneity ? _diffrn_radiation.monochromator 'SI (111)' _diffrn_radiation.polarisn_norm ? _diffrn_radiation.polarisn_ratio ? _diffrn_radiation.probe ? _diffrn_radiation.type ? _diffrn_radiation.xray_symbol ? _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_wavelength_list ? _diffrn_radiation.pdbx_wavelength ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_analyzer ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.97946 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.current ? _diffrn_source.details ? _diffrn_source.diffrn_id 1 _diffrn_source.power ? _diffrn_source.size ? _diffrn_source.source SYNCHROTRON _diffrn_source.target ? _diffrn_source.type 'SSRL BEAMLINE BL12-2' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 0.97946 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline BL12-2 _diffrn_source.pdbx_synchrotron_site SSRL # _reflns.B_iso_Wilson_estimate ? _reflns.entry_id 8GD5 _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 2.6 _reflns.d_resolution_low 50 _reflns.details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.number_all ? _reflns.number_obs 10748 _reflns.observed_criterion ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.observed_criterion_I_max ? _reflns.observed_criterion_I_min ? _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.percent_possible_obs 86.1 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 3.7 _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 17.3 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_d_res_high_opt ? _reflns.pdbx_d_res_low_opt ? _reflns.pdbx_d_res_opt_method ? _reflns.phase_calculation_details ? _reflns.pdbx_Rrim_I_all ? _reflns.pdbx_Rpim_I_all 0.090 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 0.94 _reflns.pdbx_CC_star ? _reflns.pdbx_R_split ? _reflns.pdbx_Rmerge_I_obs 0.154 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_CC_split_method ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_1_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_2_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[1] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[2] ? _reflns.pdbx_aniso_diffraction_limit_axis_3_ortho[3] ? _reflns.pdbx_aniso_diffraction_limit_1 ? _reflns.pdbx_aniso_diffraction_limit_2 ? _reflns.pdbx_aniso_diffraction_limit_3 ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_1_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_2_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[1] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[2] ? _reflns.pdbx_aniso_B_tensor_eigenvector_3_ortho[3] ? _reflns.pdbx_aniso_B_tensor_eigenvalue_1 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_2 ? _reflns.pdbx_aniso_B_tensor_eigenvalue_3 ? _reflns.pdbx_orthogonalization_convention ? _reflns.pdbx_percent_possible_ellipsoidal ? _reflns.pdbx_percent_possible_spherical ? _reflns.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns.pdbx_percent_possible_spherical_anomalous ? _reflns.pdbx_redundancy_anomalous ? _reflns.pdbx_CC_half_anomalous ? _reflns.pdbx_absDiff_over_sigma_anomalous ? _reflns.pdbx_percent_possible_anomalous ? _reflns.pdbx_observed_signal_threshold ? _reflns.pdbx_signal_type ? _reflns.pdbx_signal_details ? _reflns.pdbx_signal_software_id ? # _reflns_shell.d_res_high 2.6 _reflns_shell.d_res_low 2.64 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 1.1 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs 562 _reflns_shell.percent_possible_obs ? _reflns_shell.Rmerge_F_all ? _reflns_shell.Rmerge_F_obs ? _reflns_shell.meanI_over_sigI_gt ? _reflns_shell.meanI_over_uI_all ? _reflns_shell.meanI_over_uI_gt ? _reflns_shell.number_measured_gt ? _reflns_shell.number_unique_gt ? _reflns_shell.percent_possible_gt ? _reflns_shell.Rmerge_F_gt ? _reflns_shell.Rmerge_I_gt ? _reflns_shell.pdbx_redundancy 3.1 _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_netI_over_sigmaI_all ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.pdbx_Rrim_I_all ? _reflns_shell.pdbx_Rpim_I_all 0.650 _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.60 _reflns_shell.pdbx_CC_star ? _reflns_shell.pdbx_R_split ? _reflns_shell.percent_possible_all 90.2 _reflns_shell.Rmerge_I_all ? _reflns_shell.Rmerge_I_obs 0.983 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.pdbx_percent_possible_ellipsoidal ? _reflns_shell.pdbx_percent_possible_spherical ? _reflns_shell.pdbx_percent_possible_ellipsoidal_anomalous ? _reflns_shell.pdbx_percent_possible_spherical_anomalous ? _reflns_shell.pdbx_redundancy_anomalous ? _reflns_shell.pdbx_CC_half_anomalous ? _reflns_shell.pdbx_absDiff_over_sigma_anomalous ? _reflns_shell.pdbx_percent_possible_anomalous ? # _refine.aniso_B[1][1] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][2] ? _refine.aniso_B[2][3] ? _refine.aniso_B[3][3] ? _refine.B_iso_max ? _refine.B_iso_mean ? _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.details ? _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 8GD5 _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.ls_abs_structure_details ? _refine.ls_abs_structure_Flack ? _refine.ls_abs_structure_Flack_esd ? _refine.ls_abs_structure_Rogers ? _refine.ls_abs_structure_Rogers_esd ? _refine.ls_d_res_high 2.60 _refine.ls_d_res_low 32.54 _refine.ls_extinction_coef ? _refine.ls_extinction_coef_esd ? _refine.ls_extinction_expression ? _refine.ls_extinction_method ? _refine.ls_goodness_of_fit_all ? _refine.ls_goodness_of_fit_all_esd ? _refine.ls_goodness_of_fit_obs ? _refine.ls_goodness_of_fit_obs_esd ? _refine.ls_hydrogen_treatment ? _refine.ls_matrix_type ? _refine.ls_number_constraints ? _refine.ls_number_parameters ? _refine.ls_number_reflns_all ? _refine.ls_number_reflns_obs 10731 _refine.ls_number_reflns_R_free 497 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 85.21 _refine.ls_percent_reflns_R_free 4.63 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.2213 _refine.ls_R_factor_R_free 0.2742 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.2187 _refine.ls_R_Fsqd_factor_obs ? _refine.ls_R_I_factor_obs ? _refine.ls_redundancy_reflns_all ? _refine.ls_redundancy_reflns_obs ? _refine.ls_restrained_S_all ? _refine.ls_restrained_S_obs ? _refine.ls_shift_over_esd_max ? _refine.ls_shift_over_esd_mean ? _refine.ls_structure_factor_coef ? _refine.ls_weighting_details ? _refine.ls_weighting_scheme ? _refine.ls_wR_factor_all ? _refine.ls_wR_factor_obs ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.solvent_model_details 'FLAT BULK SOLVENT MODEL' _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_R_complete ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 1.37 _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method 'FREE R-VALUE' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values ML _refine.pdbx_R_Free_selection_details ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_solvent_vdw_probe_radii 1.11 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.90 _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error 37.53 _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id 1 _refine.overall_SU_B ? _refine.overall_SU_ML 0.34 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 2668 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 186 _refine_hist.number_atoms_solvent 2 _refine_hist.number_atoms_total 2856 _refine_hist.d_res_high 2.60 _refine_hist.d_res_low 32.54 # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.criterion _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.rejects _refine_ls_restr.type _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function 'X-RAY DIFFRACTION' ? 0.012 ? 2920 ? f_bond_d ? ? 'X-RAY DIFFRACTION' ? 1.360 ? 3964 ? f_angle_d ? ? 'X-RAY DIFFRACTION' ? 12.030 ? 436 ? f_dihedral_angle_d ? ? 'X-RAY DIFFRACTION' ? 0.069 ? 468 ? f_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.010 ? 495 ? f_plane_restr ? ? # loop_ _refine_ls_shell.pdbx_refine_id _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.number_reflns_R_free _refine_ls_shell.number_reflns_R_work _refine_ls_shell.percent_reflns_obs _refine_ls_shell.percent_reflns_R_free _refine_ls_shell.R_factor_all _refine_ls_shell.R_factor_obs _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.R_factor_R_work _refine_ls_shell.redundancy_reflns_all _refine_ls_shell.redundancy_reflns_obs _refine_ls_shell.wR_factor_all _refine_ls_shell.wR_factor_obs _refine_ls_shell.wR_factor_R_free _refine_ls_shell.wR_factor_R_work _refine_ls_shell.pdbx_R_complete _refine_ls_shell.pdbx_total_number_of_bins_used _refine_ls_shell.pdbx_phase_error _refine_ls_shell.pdbx_fsc_work _refine_ls_shell.pdbx_fsc_free _refine_ls_shell.R_factor_R_free 'X-RAY DIFFRACTION' 2.60 2.86 . . 125 2512 86.00 . . . . 0.3028 . . . . . . . . . . . 0.3613 'X-RAY DIFFRACTION' 2.86 3.27 . . 108 2631 88.00 . . . . 0.2627 . . . . . . . . . . . 0.3067 'X-RAY DIFFRACTION' 3.27 4.12 . . 145 2546 86.00 . . . . 0.2346 . . . . . . . . . . . 0.2938 'X-RAY DIFFRACTION' 4.12 32.54 . . 119 2545 81.00 . . . . 0.1918 . . . . . . . . . . . 0.2473 # _struct.entry_id 8GD5 _struct.title 'Crystal Structure of HIV-1 LM/HT Clade A/E CRF01 GP120 Core in Complex with DL-I-102' _struct.pdbx_model_details ? _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag N # _struct_keywords.entry_id 8GD5 _struct_keywords.text 'HIV-1 GP120, CLADE A/E CF01, VIRAL PROTEIN-INHIBITOR complex' _struct_keywords.pdbx_keywords 'VIRAL PROTEIN/INHIBITOR' # 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 2 ? D N N 2 ? E N N 2 ? F N N 2 ? G N N 2 ? H N N 2 ? I N N 2 ? J N N 2 ? K N N 2 ? L N N 3 ? M N N 4 ? N N N 5 ? # loop_ _struct_conf.conf_type_id _struct_conf.id _struct_conf.pdbx_PDB_helix_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_seq_id _struct_conf.pdbx_beg_PDB_ins_code _struct_conf.end_label_comp_id _struct_conf.end_label_asym_id _struct_conf.end_label_seq_id _struct_conf.pdbx_end_PDB_ins_code _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_seq_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.details _struct_conf.pdbx_PDB_helix_length HELX_P HELX_P1 AA1 GLU A 23 ? CYS A 33 ? GLU A 64 CYS A 74 1 ? 11 HELX_P HELX_P2 AA2 ASN A 57 ? LEU A 75 ? ASN A 98 LEU A 116 1 ? 19 HELX_P HELX_P3 AA3 GLY A 205 ? PHE A 223 ? GLY A 335 PHE A 353 1 ? 19 HELX_P HELX_P4 AA4 ASP A 237 ? MET A 242 ? ASP A 368 MET A 373 1 ? 6 HELX_P HELX_P5 AA5 ASP A 337 ? TYR A 347 ? ASP A 474 TYR A 484 1 ? 11 # _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 13 SG ? ? ? 1_555 A CYS 33 SG ? ? A CYS 54 A CYS 74 1_555 ? ? ? ? ? ? ? 2.032 ? ? disulf2 disulf ? ? A CYS 78 SG ? ? ? 1_555 A CYS 91 SG ? ? A CYS 119 A CYS 205 1_555 ? ? ? ? ? ? ? 2.033 ? ? disulf3 disulf ? ? A CYS 104 SG ? ? ? 1_555 A CYS 133 SG ? ? A CYS 218 A CYS 247 1_555 ? ? ? ? ? ? ? 2.055 ? ? disulf4 disulf ? ? A CYS 114 SG ? ? ? 1_555 A CYS 125 SG ? ? A CYS 228 A CYS 239 1_555 ? ? ? ? ? ? ? 2.091 ? ? disulf5 disulf ? ? A CYS 182 SG ? ? ? 1_555 A CYS 201 SG ? ? A CYS 296 A CYS 331 1_555 ? ? ? ? ? ? ? 2.048 ? ? disulf6 disulf ? ? A CYS 247 SG ? ? ? 1_555 A CYS 308 SG ? ? A CYS 378 A CYS 445 1_555 ? ? ? ? ? ? ? 2.035 ? ? disulf7 disulf ? ? A CYS 254 SG ? ? ? 1_555 A CYS 281 SG ? ? A CYS 385 A CYS 418 1_555 ? ? ? ? ? ? ? 2.038 ? ? disulf8 disulf ? ? A CYS 264 SG ? ? ? 1_555 A CYS 273 SG ? ? A CYS 395 A CYS 410 1_555 ? ? ? ? ? ? ? 2.030 ? ? covale1 covale one ? A ASN 120 ND2 ? ? ? 1_555 B NAG . C1 ? ? A ASN 234 A NAG 501 1_555 ? ? ? ? ? ? ? 1.425 ? N-Glycosylation covale2 covale one ? A ASN 127 ND2 ? ? ? 1_555 C NAG . C1 ? ? A ASN 241 A NAG 502 1_555 ? ? ? ? ? ? ? 1.456 ? N-Glycosylation covale3 covale one ? A ASN 148 ND2 ? ? ? 1_555 D NAG . C1 ? ? A ASN 262 A NAG 503 1_555 ? ? ? ? ? ? ? 1.444 ? N-Glycosylation covale4 covale one ? A ASN 162 ND2 ? ? ? 1_555 E NAG . C1 ? ? A ASN 276 A NAG 504 1_555 ? ? ? ? ? ? ? 1.439 ? N-Glycosylation covale5 covale one ? A ASN 175 ND2 ? ? ? 1_555 F NAG . C1 ? ? A ASN 289 A NAG 505 1_555 ? ? ? ? ? ? ? 1.459 ? N-Glycosylation covale6 covale one ? A ASN 181 ND2 ? ? ? 1_555 G NAG . C1 ? ? A ASN 295 A NAG 506 1_555 ? ? ? ? ? ? ? 1.434 ? N-Glycosylation covale7 covale one ? A ASN 204 ND2 ? ? ? 1_555 H NAG . C1 ? ? A ASN 334 A NAG 507 1_555 ? ? ? ? ? ? ? 1.442 ? N-Glycosylation covale8 covale one ? A ASN 255 ND2 ? ? ? 1_555 I NAG . C1 ? ? A ASN 386 A NAG 508 1_555 ? ? ? ? ? ? ? 1.438 ? N-Glycosylation covale9 covale one ? A ASN 311 ND2 ? ? ? 1_555 J NAG . C1 ? ? A ASN 448 A NAG 509 1_555 ? ? ? ? ? ? ? 1.419 ? N-Glycosylation covale10 covale one ? A ASN 324 ND2 ? ? ? 1_555 K NAG . C1 ? ? A ASN 461 A NAG 510 1_555 ? ? ? ? ? ? ? 1.433 ? N-Glycosylation # 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 AA1 ? 5 ? AA2 ? 2 ? AA3 ? 2 ? AA4 ? 4 ? AA5 ? 5 ? AA6 ? 7 ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense AA1 1 2 ? anti-parallel AA1 2 3 ? anti-parallel AA1 3 4 ? anti-parallel AA1 4 5 ? anti-parallel AA2 1 2 ? anti-parallel AA3 1 2 ? anti-parallel AA4 1 2 ? anti-parallel AA4 2 3 ? anti-parallel AA4 3 4 ? anti-parallel AA5 1 2 ? anti-parallel AA5 2 3 ? anti-parallel AA5 4 5 ? parallel AA6 1 2 ? anti-parallel AA6 2 3 ? anti-parallel AA6 4 5 ? anti-parallel AA6 5 6 ? anti-parallel AA6 6 7 ? anti-parallel # loop_ _struct_sheet_range.sheet_id _struct_sheet_range.id _struct_sheet_range.beg_label_comp_id _struct_sheet_range.beg_label_asym_id _struct_sheet_range.beg_label_seq_id _struct_sheet_range.pdbx_beg_PDB_ins_code _struct_sheet_range.end_label_comp_id _struct_sheet_range.end_label_asym_id _struct_sheet_range.end_label_seq_id _struct_sheet_range.pdbx_end_PDB_ins_code _struct_sheet_range.beg_auth_comp_id _struct_sheet_range.beg_auth_asym_id _struct_sheet_range.beg_auth_seq_id _struct_sheet_range.end_auth_comp_id _struct_sheet_range.end_auth_asym_id _struct_sheet_range.end_auth_seq_id AA1 1 TRP A 4 ? ASP A 6 ? TRP A 45 ASP A 47 AA1 2 TYR A 349 ? ILE A 354 ? TYR A 486 ILE A 491 AA1 3 TYR A 109 ? CYS A 114 ? TYR A 223 CYS A 228 AA1 4 VAL A 128 ? VAL A 131 ? VAL A 242 VAL A 245 AA1 5 ILE A 43 ? HIS A 44 ? ILE A 84 HIS A 85 AA2 1 PHE A 12 ? ALA A 14 ? PHE A 53 ALA A 55 AA2 2 HIS A 102 ? CYS A 104 ? HIS A 216 CYS A 218 AA3 1 GLU A 50 ? ASN A 53 ? GLU A 91 ASN A 94 AA3 2 THR A 122 ? CYS A 125 ? THR A 236 CYS A 239 AA4 1 SER A 85 ? LYS A 88 ? SER A 199 LYS A 202 AA4 2 VAL A 79 ? THR A 82 ? VAL A 120 THR A 123 AA4 3 GLN A 295 ? MET A 297 ? GLN A 432 MET A 434 AA4 4 ILE A 286 ? ASN A 288 ? ILE A 423 ASN A 425 AA5 1 LEU A 145 ? LEU A 147 ? LEU A 259 LEU A 261 AA5 2 ILE A 306 ? ARG A 319 ? ILE A 443 ARG A 456 AA5 3 ILE A 170 ? ARG A 184 ? ILE A 284 ARG A 298 AA5 4 ASN A 328 ? PRO A 333 ? ASN A 465 PRO A 470 AA5 5 THR A 227 ? PHE A 230 ? THR A 358 PHE A 361 AA6 1 ILE A 157 ? ARG A 159 ? ILE A 271 ARG A 273 AA6 2 ILE A 170 ? ARG A 184 ? ILE A 284 ARG A 298 AA6 3 ILE A 306 ? ARG A 319 ? ILE A 443 ARG A 456 AA6 4 LYS A 198 ? ASN A 204 ? LYS A 328 ASN A 334 AA6 5 THR A 276 ? LYS A 284 ? THR A 413 LYS A 421 AA6 6 GLU A 250 ? CYS A 254 ? GLU A 381 CYS A 385 AA6 7 HIS A 243 ? CYS A 247 ? HIS A 374 CYS A 378 # loop_ _pdbx_struct_sheet_hbond.sheet_id _pdbx_struct_sheet_hbond.range_id_1 _pdbx_struct_sheet_hbond.range_id_2 _pdbx_struct_sheet_hbond.range_1_label_atom_id _pdbx_struct_sheet_hbond.range_1_label_comp_id _pdbx_struct_sheet_hbond.range_1_label_asym_id _pdbx_struct_sheet_hbond.range_1_label_seq_id _pdbx_struct_sheet_hbond.range_1_PDB_ins_code _pdbx_struct_sheet_hbond.range_1_auth_atom_id _pdbx_struct_sheet_hbond.range_1_auth_comp_id _pdbx_struct_sheet_hbond.range_1_auth_asym_id _pdbx_struct_sheet_hbond.range_1_auth_seq_id _pdbx_struct_sheet_hbond.range_2_label_atom_id _pdbx_struct_sheet_hbond.range_2_label_comp_id _pdbx_struct_sheet_hbond.range_2_label_asym_id _pdbx_struct_sheet_hbond.range_2_label_seq_id _pdbx_struct_sheet_hbond.range_2_PDB_ins_code _pdbx_struct_sheet_hbond.range_2_auth_atom_id _pdbx_struct_sheet_hbond.range_2_auth_comp_id _pdbx_struct_sheet_hbond.range_2_auth_asym_id _pdbx_struct_sheet_hbond.range_2_auth_seq_id AA1 1 2 N LYS A 5 ? N LYS A 46 O GLN A 353 ? O GLN A 490 AA1 2 3 O LYS A 350 ? O LYS A 487 N LEU A 112 ? N LEU A 226 AA1 3 4 N LYS A 113 ? N LYS A 227 O SER A 129 ? O SER A 243 AA1 4 5 O SER A 130 ? O SER A 244 N ILE A 43 ? N ILE A 84 AA2 1 2 N PHE A 12 ? N PHE A 53 O CYS A 104 ? O CYS A 218 AA3 1 2 N PHE A 52 ? N PHE A 93 O GLY A 123 ? O GLY A 237 AA4 1 2 O ILE A 87 ? O ILE A 201 N LYS A 80 ? N LYS A 121 AA4 2 3 N LEU A 81 ? N LEU A 122 O GLN A 295 ? O GLN A 432 AA4 3 4 O ALA A 296 ? O ALA A 433 N ILE A 287 ? N ILE A 424 AA5 1 2 N LEU A 146 ? N LEU A 260 O GLY A 314 ? O GLY A 451 AA5 2 3 O ILE A 312 ? O ILE A 449 N VAL A 178 ? N VAL A 292 AA5 4 5 O GLU A 329 ? O GLU A 466 N THR A 227 ? N THR A 358 AA6 1 2 N ILE A 157 ? N ILE A 271 O HIS A 173 ? O HIS A 287 AA6 2 3 N VAL A 178 ? N VAL A 292 O ILE A 312 ? O ILE A 449 AA6 4 5 N ILE A 203 ? N ILE A 333 O ILE A 277 ? O ILE A 414 AA6 5 6 O LYS A 284 ? O LYS A 421 N PHE A 251 ? N PHE A 382 AA6 6 7 O CYS A 254 ? O CYS A 385 N HIS A 243 ? N HIS A 374 # _atom_sites.entry_id 8GD5 _atom_sites.Cartn_transf_matrix[1][1] ? _atom_sites.Cartn_transf_matrix[1][2] ? _atom_sites.Cartn_transf_matrix[1][3] ? _atom_sites.Cartn_transf_matrix[2][1] ? _atom_sites.Cartn_transf_matrix[2][2] ? _atom_sites.Cartn_transf_matrix[2][3] ? _atom_sites.Cartn_transf_matrix[3][1] ? _atom_sites.Cartn_transf_matrix[3][2] ? _atom_sites.Cartn_transf_matrix[3][3] ? _atom_sites.Cartn_transf_vector[1] ? _atom_sites.Cartn_transf_vector[2] ? _atom_sites.Cartn_transf_vector[3] ? _atom_sites.fract_transf_matrix[1][1] 0.015774 _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] 0.014972 _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] 0.010855 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 _atom_sites.solution_primary ? _atom_sites.solution_secondary ? _atom_sites.solution_hydrogens ? _atom_sites.special_details ? # loop_ _atom_type.symbol C CL F N O 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 VAL 1 42 ? ? ? A . n A 1 2 PRO 2 43 ? ? ? A . n A 1 3 VAL 3 44 44 VAL VAL A . n A 1 4 TRP 4 45 45 TRP TRP A . n A 1 5 LYS 5 46 46 LYS LYS A . n A 1 6 ASP 6 47 47 ASP ASP A . n A 1 7 ALA 7 48 48 ALA ALA A . n A 1 8 ASP 8 49 49 ASP ASP A . n A 1 9 THR 9 50 50 THR THR A . n A 1 10 THR 10 51 51 THR THR A . n A 1 11 LEU 11 52 52 LEU LEU A . n A 1 12 PHE 12 53 53 PHE PHE A . n A 1 13 CYS 13 54 54 CYS CYS A . n A 1 14 ALA 14 55 55 ALA ALA A . n A 1 15 SER 15 56 56 SER SER A . n A 1 16 ASP 16 57 57 ASP ASP A . n A 1 17 ALA 17 58 58 ALA ALA A . n A 1 18 LYS 18 59 59 LYS LYS A . n A 1 19 ALA 19 60 60 ALA ALA A . n A 1 20 TYR 20 61 61 TYR TYR A . n A 1 21 GLU 21 62 62 GLU GLU A . n A 1 22 THR 22 63 63 THR THR A . n A 1 23 GLU 23 64 64 GLU GLU A . n A 1 24 VAL 24 65 65 VAL VAL A . n A 1 25 HIS 25 66 66 HIS HIS A . n A 1 26 ASN 26 67 67 ASN ASN A . n A 1 27 VAL 27 68 68 VAL VAL A . n A 1 28 TRP 28 69 69 TRP TRP A . n A 1 29 ALA 29 70 70 ALA ALA A . n A 1 30 THR 30 71 71 THR THR A . n A 1 31 HIS 31 72 72 HIS HIS A . n A 1 32 ALA 32 73 73 ALA ALA A . n A 1 33 CYS 33 74 74 CYS CYS A . n A 1 34 VAL 34 75 75 VAL VAL A . n A 1 35 PRO 35 76 76 PRO PRO A . n A 1 36 THR 36 77 77 THR THR A . n A 1 37 ASP 37 78 78 ASP ASP A . n A 1 38 PRO 38 79 79 PRO PRO A . n A 1 39 ASN 39 80 80 ASN ASN A . n A 1 40 PRO 40 81 81 PRO PRO A . n A 1 41 GLN 41 82 82 GLN GLN A . n A 1 42 GLU 42 83 83 GLU GLU A . n A 1 43 ILE 43 84 84 ILE ILE A . n A 1 44 HIS 44 85 85 HIS HIS A . n A 1 45 LEU 45 86 86 LEU LEU A . n A 1 46 GLU 46 87 87 GLU GLU A . n A 1 47 ASN 47 88 88 ASN ASN A . n A 1 48 VAL 48 89 89 VAL VAL A . n A 1 49 THR 49 90 90 THR THR A . n A 1 50 GLU 50 91 91 GLU GLU A . n A 1 51 ASN 51 92 92 ASN ASN A . n A 1 52 PHE 52 93 93 PHE PHE A . n A 1 53 ASN 53 94 94 ASN ASN A . n A 1 54 MET 54 95 95 MET MET A . n A 1 55 TRP 55 96 96 TRP TRP A . n A 1 56 LYS 56 97 97 LYS LYS A . n A 1 57 ASN 57 98 98 ASN ASN A . n A 1 58 ASN 58 99 99 ASN ASN A . n A 1 59 MET 59 100 100 MET MET A . n A 1 60 VAL 60 101 101 VAL VAL A . n A 1 61 GLU 61 102 102 GLU GLU A . n A 1 62 GLN 62 103 103 GLN GLN A . n A 1 63 MET 63 104 104 MET MET A . n A 1 64 HIS 64 105 105 HIS HIS A . n A 1 65 GLU 65 106 106 GLU GLU A . n A 1 66 ASP 66 107 107 ASP ASP A . n A 1 67 ILE 67 108 108 ILE ILE A . n A 1 68 ILE 68 109 109 ILE ILE A . n A 1 69 SER 69 110 110 SER SER A . n A 1 70 LEU 70 111 111 LEU LEU A . n A 1 71 TRP 71 112 112 TRP TRP A . n A 1 72 ASP 72 113 113 ASP ASP A . n A 1 73 GLN 73 114 114 GLN GLN A . n A 1 74 SER 74 115 115 SER SER A . n A 1 75 LEU 75 116 116 LEU LEU A . n A 1 76 GLN 76 117 117 GLN GLN A . n A 1 77 PRO 77 118 118 PRO PRO A . n A 1 78 CYS 78 119 119 CYS CYS A . n A 1 79 VAL 79 120 120 VAL VAL A . n A 1 80 LYS 80 121 121 LYS LYS A . n A 1 81 LEU 81 122 122 LEU LEU A . n A 1 82 THR 82 123 123 THR THR A . n A 1 83 GLY 83 124 124 GLY GLY A . n A 1 84 GLY 84 198 198 GLY GLY A . n A 1 85 SER 85 199 199 SER SER A . n A 1 86 VAL 86 200 200 VAL VAL A . n A 1 87 ILE 87 201 201 ILE ILE A . n A 1 88 LYS 88 202 202 LYS LYS A . n A 1 89 GLN 89 203 203 GLN GLN A . n A 1 90 ALA 90 204 204 ALA ALA A . n A 1 91 CYS 91 205 205 CYS CYS A . n A 1 92 PRO 92 206 206 PRO PRO A . n A 1 93 LYS 93 207 207 LYS LYS A . n A 1 94 ILE 94 208 208 ILE ILE A . n A 1 95 SER 95 209 209 SER SER A . n A 1 96 PHE 96 210 210 PHE PHE A . n A 1 97 ASP 97 211 211 ASP ASP A . n A 1 98 PRO 98 212 212 PRO PRO A . n A 1 99 ILE 99 213 213 ILE ILE A . n A 1 100 PRO 100 214 214 PRO PRO A . n A 1 101 ILE 101 215 215 ILE ILE A . n A 1 102 HIS 102 216 216 HIS HIS A . n A 1 103 TYR 103 217 217 TYR TYR A . n A 1 104 CYS 104 218 218 CYS CYS A . n A 1 105 THR 105 219 219 THR THR A . n A 1 106 PRO 106 220 220 PRO PRO A . n A 1 107 ALA 107 221 221 ALA ALA A . n A 1 108 GLY 108 222 222 GLY GLY A . n A 1 109 TYR 109 223 223 TYR TYR A . n A 1 110 VAL 110 224 224 VAL VAL A . n A 1 111 ILE 111 225 225 ILE ILE A . n A 1 112 LEU 112 226 226 LEU LEU A . n A 1 113 LYS 113 227 227 LYS LYS A . n A 1 114 CYS 114 228 228 CYS CYS A . n A 1 115 ASN 115 229 229 ASN ASN A . n A 1 116 ASP 116 230 230 ASP ASP A . n A 1 117 LYS 117 231 231 LYS LYS A . n A 1 118 ASN 118 232 232 ASN ASN A . n A 1 119 PHE 119 233 233 PHE PHE A . n A 1 120 ASN 120 234 234 ASN ASN A . n A 1 121 GLY 121 235 235 GLY GLY A . n A 1 122 THR 122 236 236 THR THR A . n A 1 123 GLY 123 237 237 GLY GLY A . n A 1 124 PRO 124 238 238 PRO PRO A . n A 1 125 CYS 125 239 239 CYS CYS A . n A 1 126 LYS 126 240 240 LYS LYS A . n A 1 127 ASN 127 241 241 ASN ASN A . n A 1 128 VAL 128 242 242 VAL VAL A . n A 1 129 SER 129 243 243 SER SER A . n A 1 130 SER 130 244 244 SER SER A . n A 1 131 VAL 131 245 245 VAL VAL A . n A 1 132 GLN 132 246 246 GLN GLN A . n A 1 133 CYS 133 247 247 CYS CYS A . n A 1 134 THR 134 248 248 THR THR A . n A 1 135 HIS 135 249 249 HIS HIS A . n A 1 136 GLY 136 250 250 GLY GLY A . n A 1 137 ILE 137 251 251 ILE ILE A . n A 1 138 LYS 138 252 252 LYS LYS A . n A 1 139 PRO 139 253 253 PRO PRO A . n A 1 140 VAL 140 254 254 VAL VAL A . n A 1 141 VAL 141 255 255 VAL VAL A . n A 1 142 SER 142 256 256 SER SER A . n A 1 143 THR 143 257 257 THR THR A . n A 1 144 GLN 144 258 258 GLN GLN A . n A 1 145 LEU 145 259 259 LEU LEU A . n A 1 146 LEU 146 260 260 LEU LEU A . n A 1 147 LEU 147 261 261 LEU LEU A . n A 1 148 ASN 148 262 262 ASN ASN A . n A 1 149 GLY 149 263 263 GLY GLY A . n A 1 150 SER 150 264 264 SER SER A . n A 1 151 LEU 151 265 265 LEU LEU A . n A 1 152 ALA 152 266 266 ALA ALA A . n A 1 153 GLU 153 267 267 GLU GLU A . n A 1 154 GLU 154 268 268 GLU GLU A . n A 1 155 GLU 155 269 269 GLU GLU A . n A 1 156 ILE 156 270 270 ILE ILE A . n A 1 157 ILE 157 271 271 ILE ILE A . n A 1 158 ILE 158 272 272 ILE ILE A . n A 1 159 ARG 159 273 273 ARG ARG A . n A 1 160 SER 160 274 274 SER SER A . n A 1 161 GLU 161 275 275 GLU GLU A . n A 1 162 ASN 162 276 276 ASN ASN A . n A 1 163 LEU 163 277 277 LEU LEU A . n A 1 164 THR 164 278 278 THR THR A . n A 1 165 ASN 165 279 279 ASN ASN A . n A 1 166 ASN 166 280 280 ASN ASN A . n A 1 167 ALA 167 281 281 ALA ALA A . n A 1 168 LYS 168 282 282 LYS LYS A . n A 1 169 THR 169 283 283 THR THR A . n A 1 170 ILE 170 284 284 ILE ILE A . n A 1 171 ILE 171 285 285 ILE ILE A . n A 1 172 VAL 172 286 286 VAL VAL A . n A 1 173 HIS 173 287 287 HIS HIS A . n A 1 174 LEU 174 288 288 LEU LEU A . n A 1 175 ASN 175 289 289 ASN ASN A . n A 1 176 LYS 176 290 290 LYS LYS A . n A 1 177 SER 177 291 291 SER SER A . n A 1 178 VAL 178 292 292 VAL VAL A . n A 1 179 GLU 179 293 293 GLU GLU A . n A 1 180 ILE 180 294 294 ILE ILE A . n A 1 181 ASN 181 295 295 ASN ASN A . n A 1 182 CYS 182 296 296 CYS CYS A . n A 1 183 THR 183 297 297 THR THR A . n A 1 184 ARG 184 298 298 ARG ARG A . n A 1 185 PRO 185 299 299 PRO PRO A . n A 1 186 SER 186 300 300 SER SER A . n A 1 187 ASN 187 301 301 ASN ASN A . n A 1 188 GLY 188 318 ? ? ? A . n A 1 189 GLY 189 319 ? ? ? A . n A 1 190 SER 190 320 ? ? ? A . n A 1 191 GLY 191 321 ? ? ? A . n A 1 192 SER 192 322 ? ? ? A . n A 1 193 GLY 193 323 ? ? ? A . n A 1 194 GLY 194 324 ? ? ? A . n A 1 195 ASP 195 325 325 ASP ASP A . n A 1 196 ILE 196 326 326 ILE ILE A . n A 1 197 ARG 197 327 327 ARG ARG A . n A 1 198 LYS 198 328 328 LYS LYS A . n A 1 199 ALA 199 329 329 ALA ALA A . n A 1 200 TYR 200 330 330 TYR TYR A . n A 1 201 CYS 201 331 331 CYS CYS A . n A 1 202 GLU 202 332 332 GLU GLU A . n A 1 203 ILE 203 333 333 ILE ILE A . n A 1 204 ASN 204 334 334 ASN ASN A . n A 1 205 GLY 205 335 335 GLY GLY A . n A 1 206 THR 206 336 336 THR THR A . n A 1 207 LYS 207 337 337 LYS LYS A . n A 1 208 TRP 208 338 338 TRP TRP A . n A 1 209 ASN 209 339 339 ASN ASN A . n A 1 210 LYS 210 340 340 LYS LYS A . n A 1 211 VAL 211 341 341 VAL VAL A . n A 1 212 LEU 212 342 342 LEU LEU A . n A 1 213 LYS 213 343 343 LYS LYS A . n A 1 214 GLN 214 344 344 GLN GLN A . n A 1 215 VAL 215 345 345 VAL VAL A . n A 1 216 THR 216 346 346 THR THR A . n A 1 217 GLU 217 347 347 GLU GLU A . n A 1 218 LYS 218 348 348 LYS LYS A . n A 1 219 LEU 219 349 349 LEU LEU A . n A 1 220 LYS 220 350 350 LYS LYS A . n A 1 221 GLU 221 351 351 GLU GLU A . n A 1 222 HIS 222 352 352 HIS HIS A . n A 1 223 PHE 223 353 353 PHE PHE A . n A 1 224 ASN 224 354 354 ASN ASN A . n A 1 225 ASN 225 355 355 ASN ASN A . n A 1 226 LYS 226 357 357 LYS LYS A . n A 1 227 THR 227 358 358 THR THR A . n A 1 228 ILE 228 359 359 ILE ILE A . n A 1 229 ILE 229 360 360 ILE ILE A . n A 1 230 PHE 230 361 361 PHE PHE A . n A 1 231 GLN 231 362 362 GLN GLN A . n A 1 232 PRO 232 363 363 PRO PRO A . n A 1 233 PRO 233 364 364 PRO PRO A . n A 1 234 SER 234 365 365 SER SER A . n A 1 235 GLY 235 366 366 GLY GLY A . n A 1 236 GLY 236 367 367 GLY GLY A . n A 1 237 ASP 237 368 368 ASP ASP A . n A 1 238 LEU 238 369 369 LEU LEU A . n A 1 239 GLU 239 370 370 GLU GLU A . n A 1 240 ILE 240 371 371 ILE ILE A . n A 1 241 THR 241 372 372 THR THR A . n A 1 242 MET 242 373 373 MET MET A . n A 1 243 HIS 243 374 374 HIS HIS A . n A 1 244 SER 244 375 375 SER SER A . n A 1 245 PHE 245 376 376 PHE PHE A . n A 1 246 ASN 246 377 377 ASN ASN A . n A 1 247 CYS 247 378 378 CYS CYS A . n A 1 248 ARG 248 379 379 ARG ARG A . n A 1 249 GLY 249 380 380 GLY GLY A . n A 1 250 GLU 250 381 381 GLU GLU A . n A 1 251 PHE 251 382 382 PHE PHE A . n A 1 252 PHE 252 383 383 PHE PHE A . n A 1 253 TYR 253 384 384 TYR TYR A . n A 1 254 CYS 254 385 385 CYS CYS A . n A 1 255 ASN 255 386 386 ASN ASN A . n A 1 256 THR 256 387 387 THR THR A . n A 1 257 THR 257 388 388 THR THR A . n A 1 258 GLN 258 389 389 GLN GLN A . n A 1 259 LEU 259 390 390 LEU LEU A . n A 1 260 PHE 260 391 391 PHE PHE A . n A 1 261 ASN 261 392 392 ASN ASN A . n A 1 262 ASN 262 393 393 ASN ASN A . n A 1 263 THR 263 394 394 THR THR A . n A 1 264 CYS 264 395 395 CYS CYS A . n A 1 265 ILE 265 402 ? ? ? A . n A 1 266 GLY 266 403 ? ? ? A . n A 1 267 ASN 267 404 ? ? ? A . n A 1 268 GLU 268 405 ? ? ? A . n A 1 269 THR 269 406 ? ? ? A . n A 1 270 MET 270 407 ? ? ? A . n A 1 271 LYS 271 408 408 LYS LYS A . n A 1 272 GLY 272 409 409 GLY GLY A . n A 1 273 CYS 273 410 410 CYS CYS A . n A 1 274 ASN 274 411 411 ASN ASN A . n A 1 275 GLY 275 412 412 GLY GLY A . n A 1 276 THR 276 413 413 THR THR A . n A 1 277 ILE 277 414 414 ILE ILE A . n A 1 278 THR 278 415 415 THR THR A . n A 1 279 LEU 279 416 416 LEU LEU A . n A 1 280 PRO 280 417 417 PRO PRO A . n A 1 281 CYS 281 418 418 CYS CYS A . n A 1 282 LYS 282 419 419 LYS LYS A . n A 1 283 ILE 283 420 420 ILE ILE A . n A 1 284 LYS 284 421 421 LYS LYS A . n A 1 285 GLN 285 422 422 GLN GLN A . n A 1 286 ILE 286 423 423 ILE ILE A . n A 1 287 ILE 287 424 424 ILE ILE A . n A 1 288 ASN 288 425 425 ASN ASN A . n A 1 289 MET 289 426 426 MET MET A . n A 1 290 TRP 290 427 427 TRP TRP A . n A 1 291 GLN 291 428 428 GLN GLN A . n A 1 292 GLY 292 429 429 GLY GLY A . n A 1 293 THR 293 430 430 THR THR A . n A 1 294 GLY 294 431 431 GLY GLY A . n A 1 295 GLN 295 432 432 GLN GLN A . n A 1 296 ALA 296 433 433 ALA ALA A . n A 1 297 MET 297 434 434 MET MET A . n A 1 298 TYR 298 435 435 TYR TYR A . n A 1 299 ALA 299 436 436 ALA ALA A . n A 1 300 PRO 300 437 437 PRO PRO A . n A 1 301 PRO 301 438 438 PRO PRO A . n A 1 302 ILE 302 439 439 ILE ILE A . n A 1 303 ASP 303 440 440 ASP ASP A . n A 1 304 GLY 304 441 441 GLY GLY A . n A 1 305 LYS 305 442 442 LYS LYS A . n A 1 306 ILE 306 443 443 ILE ILE A . n A 1 307 ASN 307 444 444 ASN ASN A . n A 1 308 CYS 308 445 445 CYS CYS A . n A 1 309 VAL 309 446 446 VAL VAL A . n A 1 310 SER 310 447 447 SER SER A . n A 1 311 ASN 311 448 448 ASN ASN A . n A 1 312 ILE 312 449 449 ILE ILE A . n A 1 313 THR 313 450 450 THR THR A . n A 1 314 GLY 314 451 451 GLY GLY A . n A 1 315 ILE 315 452 452 ILE ILE A . n A 1 316 LEU 316 453 453 LEU LEU A . n A 1 317 LEU 317 454 454 LEU LEU A . n A 1 318 THR 318 455 455 THR THR A . n A 1 319 ARG 319 456 456 ARG ARG A . n A 1 320 ASP 320 457 457 ASP ASP A . n A 1 321 GLY 321 458 458 GLY GLY A . n A 1 322 GLY 322 459 459 GLY GLY A . n A 1 323 ALA 323 460 460 ALA ALA A . n A 1 324 ASN 324 461 461 ASN ASN A . n A 1 325 ASN 325 462 462 ASN ASN A . n A 1 326 THR 326 463 463 THR THR A . n A 1 327 SER 327 464 464 SER SER A . n A 1 328 ASN 328 465 465 ASN ASN A . n A 1 329 GLU 329 466 466 GLU GLU A . n A 1 330 THR 330 467 467 THR THR A . n A 1 331 PHE 331 468 468 PHE PHE A . n A 1 332 ARG 332 469 469 ARG ARG A . n A 1 333 PRO 333 470 470 PRO PRO A . n A 1 334 GLY 334 471 471 GLY GLY A . n A 1 335 GLY 335 472 472 GLY GLY A . n A 1 336 GLY 336 473 473 GLY GLY A . n A 1 337 ASP 337 474 474 ASP ASP A . n A 1 338 MET 338 475 475 MET MET A . n A 1 339 ARG 339 476 476 ARG ARG A . n A 1 340 ASP 340 477 477 ASP ASP A . n A 1 341 ASN 341 478 478 ASN ASN A . n A 1 342 TRP 342 479 479 TRP TRP A . n A 1 343 ARG 343 480 480 ARG ARG A . n A 1 344 SER 344 481 481 SER SER A . n A 1 345 GLU 345 482 482 GLU GLU A . n A 1 346 LEU 346 483 483 LEU LEU A . n A 1 347 TYR 347 484 484 TYR TYR A . n A 1 348 LYS 348 485 485 LYS LYS A . n A 1 349 TYR 349 486 486 TYR TYR A . n A 1 350 LYS 350 487 487 LYS LYS A . n A 1 351 VAL 351 488 488 VAL VAL A . n A 1 352 VAL 352 489 489 VAL VAL A . n A 1 353 GLN 353 490 490 GLN GLN A . n A 1 354 ILE 354 491 491 ILE ILE A . n A 1 355 GLU 355 492 492 GLU GLU A . n # _pdbx_contact_author.id 2 _pdbx_contact_author.email Marzena.Pazgier@usuhs.edu _pdbx_contact_author.name_first Marzena _pdbx_contact_author.name_last Pazgier _pdbx_contact_author.name_mi ? _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0003-0594-5057 # 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 NAG 1 501 501 NAG NAG A . C 2 NAG 1 502 502 NAG NAG A . D 2 NAG 1 503 503 NAG NAG A . E 2 NAG 1 504 504 NAG NAG A . F 2 NAG 1 505 505 NAG NAG A . G 2 NAG 1 506 506 NAG NAG A . H 2 NAG 1 507 507 NAG NAG A . I 2 NAG 1 508 508 NAG NAG A . J 2 NAG 1 509 510 NAG NAG A . K 2 NAG 1 510 511 NAG NAG A . L 3 EPE 1 511 513 EPE EPE A . M 4 Z2O 1 512 1 Z2O MW0 A . N 5 HOH 1 601 2 HOH HOH A . N 5 HOH 2 602 1 HOH HOH A . # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # _pdbx_audit_revision_history.ordinal 1 _pdbx_audit_revision_history.data_content_type 'Structure model' _pdbx_audit_revision_history.major_revision 1 _pdbx_audit_revision_history.minor_revision 0 _pdbx_audit_revision_history.revision_date 2023-06-07 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _software.citation_id _software.classification _software.compiler_name _software.compiler_version _software.contact_author _software.contact_author_email _software.date _software.description _software.dependencies _software.hardware _software.language _software.location _software.mods _software.name _software.os _software.os_version _software.type _software.version _software.pdbx_ordinal ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? '(1.19.1_4122: ???)' 1 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? HKL-3000 ? ? ? . 2 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? HKL-3000 ? ? ? . 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? . 4 # _pdbx_entry_details.entry_id 8GD5 _pdbx_entry_details.has_ligand_of_interest Y _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? # loop_ _pdbx_validate_torsion.id _pdbx_validate_torsion.PDB_model_num _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.PDB_ins_code _pdbx_validate_torsion.label_alt_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi 1 1 ASN A 80 ? ? -116.68 74.16 2 1 ASP A 211 ? ? -169.53 109.15 3 1 CYS A 239 ? ? -161.10 119.71 4 1 GLN A 258 ? ? 71.29 -53.51 5 1 GLU A 268 ? ? -127.88 -103.92 6 1 ASN A 276 ? ? 179.90 92.99 7 1 PRO A 364 ? ? -36.74 161.31 8 1 SER A 365 ? ? -118.78 69.57 9 1 PHE A 391 ? ? -92.47 51.46 # 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 VAL 42 ? A VAL 1 2 1 Y 1 A PRO 43 ? A PRO 2 3 1 Y 1 A GLY 318 ? A GLY 188 4 1 Y 1 A GLY 319 ? A GLY 189 5 1 Y 1 A SER 320 ? A SER 190 6 1 Y 1 A GLY 321 ? A GLY 191 7 1 Y 1 A SER 322 ? A SER 192 8 1 Y 1 A GLY 323 ? A GLY 193 9 1 Y 1 A GLY 324 ? A GLY 194 10 1 Y 1 A ILE 402 ? A ILE 265 11 1 Y 1 A GLY 403 ? A GLY 266 12 1 Y 1 A ASN 404 ? A ASN 267 13 1 Y 1 A GLU 405 ? A GLU 268 14 1 Y 1 A THR 406 ? A THR 269 15 1 Y 1 A MET 407 ? A MET 270 # _pdbx_audit_support.funding_organization 'National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)' _pdbx_audit_support.country 'United States' _pdbx_audit_support.grant_number R01AI129769 _pdbx_audit_support.ordinal 1 # 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 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_instance_feature.ordinal 1 _pdbx_entity_instance_feature.comp_id Z2O _pdbx_entity_instance_feature.asym_id ? _pdbx_entity_instance_feature.seq_num ? _pdbx_entity_instance_feature.auth_comp_id Z2O _pdbx_entity_instance_feature.auth_asym_id ? _pdbx_entity_instance_feature.auth_seq_num ? _pdbx_entity_instance_feature.feature_type 'SUBJECT OF INVESTIGATION' _pdbx_entity_instance_feature.details ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 2-acetamido-2-deoxy-beta-D-glucopyranose NAG 3 '4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID' EPE 4 '{4-[(3S,5R)-3-[(4-chloro-3-fluorophenyl)carbamoyl]-5-(hydroxymethyl)piperidine-1-carbonyl]piperazin-1-yl}acetic acid' Z2O 5 water HOH # _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.accession_code 6ONF _pdbx_initial_refinement_model.details ? # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support 'gel filtration' _pdbx_struct_assembly_auth_evidence.details ? #