data_6CW6 # _model_server_result.job_id NcopKsEFeDHQSqc1JXu0CA _model_server_result.datetime_utc '2024-11-07 22:41:20' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 6cw6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":306}' # _entry.id 6CW6 # _exptl.entry_id 6CW6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 605.844 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (2S,3S,4R)-N-OCTANOYL-1-[(ALPHA-D-GALACTOPYRANOSYL)OXY]-2-AMINO-OCTADECANE-3,4-DIOL _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 6CW6 _cell.length_a 78.641 _cell.length_b 190.354 _cell.length_c 150.785 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6CW6 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _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 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # _struct_asym.details ? _struct_asym.entity_id 7 _struct_asym.id H _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 5 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 5 3 1 FUC NAG C1 O1 . O6 HO6 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 5 n E NAG 1 E 1 NAG A 511 NAG 5 n E NAG 2 E 2 NAG A 512 NAG 5 n E FUC 3 E 3 FUC A 513 FUC # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_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_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order disulf ? disulf1 A SG CYS 104 A CYS 104 1_555 A SG CYS 168 A CYS 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf2 A SG CYS 208 A CYS 208 1_555 A SG CYS 263 A CYS 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? disulf ? disulf3 B SG CYS 25 B CYS 25 1_555 B SG CYS 80 B CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf4 C SG CYS 24 C CYS 23 1_555 C SG CYS 91 C CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? disulf ? disulf5 C SG CYS 138 C CYS 137 1_555 C SG CYS 188 C CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf6 C SG CYS 163 C CYS 162 1_555 D SG CYS 169 D CYS 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf7 D SG CYS 24 D CYS 23 1_555 D SG CYS 92 D CYS 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.009 ? disulf ? disulf8 D SG CYS 143 D CYS 142 1_555 D SG CYS 208 D CYS 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.003 ? covale ? covale1 A ND2 ASN 20 A ASN 20 1_555 F C1 NAG . A NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale2 A ND2 ASN 42 A ASN 42 1_555 G C1 NAG . A NAG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale3 A ND2 ASN 165 A ASN 165 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale4 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale5 E O6 NAG . E NAG 1 1_555 E C1 FUC . E FUC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.462 ? # _chem_comp.formula 'C32 H63 N O9' _chem_comp.formula_weight 605.844 _chem_comp.id PBS _chem_comp.mon_nstd_flag . _chem_comp.name (2S,3S,4R)-N-OCTANOYL-1-[(ALPHA-D-GALACTOPYRANOSYL)OXY]-2-AMINO-OCTADECANE-3,4-DIOL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag C17 C16 PBS sing 288 n n C17 H171 PBS sing 289 n n C17 H172 PBS sing 290 n n C17 H173 PBS sing 291 n n C16 C15 PBS sing 292 n n C16 H161 PBS sing 293 n n C16 H162 PBS sing 294 n n C15 C14 PBS sing 295 n n C15 H151 PBS sing 296 n n C15 H152 PBS sing 297 n n C14 C13 PBS sing 298 n n C14 H141 PBS sing 299 n n C14 H142 PBS sing 300 n n C13 C12 PBS sing 301 n n C13 H131 PBS sing 302 n n C13 H132 PBS sing 303 n n C12 C11 PBS sing 304 n n C12 H121 PBS sing 305 n n C12 H122 PBS sing 306 n n C11 C10 PBS sing 307 n n C11 H111 PBS sing 308 n n C11 H112 PBS sing 309 n n C10 C9 PBS sing 310 n n C10 H101 PBS sing 311 n n C10 H102 PBS sing 312 n n C9 C8 PBS sing 313 n n C9 H91 PBS sing 314 n n C9 H92 PBS sing 315 n n C8 C7 PBS sing 316 n n C8 H81 PBS sing 317 n n C8 H82 PBS sing 318 n n C7 C6 PBS sing 319 n n C7 H71 PBS sing 320 n n C7 H72 PBS sing 321 n n C6 C5 PBS sing 322 n n C6 H61 PBS sing 323 n n C6 H62 PBS sing 324 n n C5 C4 PBS sing 325 n n C5 H51 PBS sing 326 n n C5 H52 PBS sing 327 n n C4 C3 PBS sing 328 n n C4 H41 PBS sing 329 n n C4 H42 PBS sing 330 n n C3 O32 PBS sing 331 n n C3 C2 PBS sing 332 n n C3 H3 PBS sing 333 n n O32 H32 PBS sing 334 n n C2 O1 PBS sing 335 n n C2 C1 PBS sing 336 n n C2 H2 PBS sing 337 n n O1 HO1 PBS sing 338 n n C1 N PBS sing 339 n n C1 C PBS sing 340 n n C1 H1 PBS sing 341 n n N C18 PBS sing 342 n n N HN PBS sing 343 n n C18 O2 PBS doub 344 n n C18 C19 PBS sing 345 n n C19 C20 PBS sing 346 n n C19 H191 PBS sing 347 n n C19 H192 PBS sing 348 n n C20 C21 PBS sing 349 n n C20 H201 PBS sing 350 n n C20 H202 PBS sing 351 n n C21 C22 PBS sing 352 n n C21 H211 PBS sing 353 n n C21 H212 PBS sing 354 n n C22 C23 PBS sing 355 n n C22 H221 PBS sing 356 n n C22 H222 PBS sing 357 n n C23 C24 PBS sing 358 n n C23 H231 PBS sing 359 n n C23 H232 PBS sing 360 n n C24 C25 PBS sing 361 n n C24 H241 PBS sing 362 n n C24 H242 PBS sing 363 n n C25 H251 PBS sing 364 n n C25 H252 PBS sing 365 n n C25 H253 PBS sing 366 n n C OC1 PBS sing 367 n n C H1A PBS sing 368 n n C H2A PBS sing 369 n n OC1 CG1 PBS sing 370 n n CG1 OG PBS sing 371 n n CG1 CG2 PBS sing 372 n n CG1 HG1 PBS sing 373 n n OG CG PBS sing 374 n n CG CG5 PBS sing 375 n n CG CG4 PBS sing 376 n n CG HG PBS sing 377 n n CG5 OG6 PBS sing 378 n n CG5 HG51 PBS sing 379 n n CG5 HG52 PBS sing 380 n n OG6 HG6 PBS sing 381 n n CG4 OG5 PBS sing 382 n n CG4 CG3 PBS sing 383 n n CG4 HG4 PBS sing 384 n n OG5 HG5 PBS sing 385 n n CG3 OG4 PBS sing 386 n n CG3 CG2 PBS sing 387 n n CG3 HG3 PBS sing 388 n n OG4 H4 PBS sing 389 n n CG2 OG3 PBS sing 390 n n CG2 HG2 PBS sing 391 n n OG3 H5 PBS sing 392 n n # _atom_sites.entry_id 6CW6 _atom_sites.fract_transf_matrix[1][1] 0.012716 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.005253 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.006632 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_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_ins_code F 6 NAG A 1 301 500 NAG NAG . G 6 NAG A 1 302 501 NAG NAG . H 7 PBS A 1 306 501 PBS PBS . I 8 PLM A 1 307 502 PLM PLM . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C C17 PBS . . . H 7 -44.007 -32.625 7.776 1 30.09 ? C17 PBS 306 A 1 HETATM 2 C C16 PBS . . . H 7 -45.185 -31.671 7.977 1 30.23 ? C16 PBS 306 A 1 HETATM 3 C C15 PBS . . . H 7 -44.722 -30.202 8.082 1 30.22 ? C15 PBS 306 A 1 HETATM 4 C C14 PBS . . . H 7 -45.651 -29.451 9.05 1 29.99 ? C14 PBS 306 A 1 HETATM 5 C C13 PBS . . . H 7 -45.654 -27.928 8.841 1 29.94 ? C13 PBS 306 A 1 HETATM 6 C C12 PBS . . . H 7 -46.827 -27.296 9.644 1 30.16 ? C12 PBS 306 A 1 HETATM 7 C C11 PBS . . . H 7 -46.399 -26.084 10.489 1 29.95 ? C11 PBS 306 A 1 HETATM 8 C C10 PBS . . . H 7 -47.513 -25.623 11.472 1 30.04 ? C10 PBS 306 A 1 HETATM 9 C C9 PBS . . . H 7 -46.946 -25.647 12.905 1 30.67 ? C9 PBS 306 A 1 HETATM 10 C C8 PBS . . . H 7 -47.849 -24.981 13.953 1 29.88 ? C8 PBS 306 A 1 HETATM 11 C C7 PBS . . . H 7 -49.15 -25.757 14.127 1 29.62 ? C7 PBS 306 A 1 HETATM 12 C C6 PBS . . . H 7 -49.651 -25.722 15.588 1 28.72 ? C6 PBS 306 A 1 HETATM 13 C C5 PBS . . . H 7 -49.432 -27.092 16.287 1 28.34 ? C5 PBS 306 A 1 HETATM 14 C C4 PBS . . . H 7 -50.53 -27.437 17.318 1 27.39 ? C4 PBS 306 A 1 HETATM 15 C C3 PBS . . . H 7 -51.941 -27.599 16.707 1 26.44 ? C3 PBS 306 A 1 HETATM 16 O O32 PBS . . . H 7 -51.895 -28.44 15.555 1 25.25 ? O32 PBS 306 A 1 HETATM 17 C C2 PBS . . . H 7 -52.942 -28.216 17.704 1 26.17 ? C2 PBS 306 A 1 HETATM 18 O O1 PBS . . . H 7 -52.582 -29.572 17.877 1 25.64 ? O1 PBS 306 A 1 HETATM 19 C C1 PBS . . . H 7 -52.982 -27.532 19.102 1 26.81 ? C1 PBS 306 A 1 HETATM 20 N N PBS . . . H 7 -53.229 -26.072 18.978 1 27.23 ? N PBS 306 A 1 HETATM 21 C C18 PBS . . . H 7 -53.008 -25.217 20.012 1 28.88 ? C18 PBS 306 A 1 HETATM 22 O O2 PBS . . . H 7 -52.558 -25.556 21.114 1 29.72 ? O2 PBS 306 A 1 HETATM 23 C C19 PBS . . . H 7 -53.127 -23.715 19.685 1 29.66 ? C19 PBS 306 A 1 HETATM 24 C C20 PBS . . . H 7 -51.662 -23.386 19.551 1 30.95 ? C20 PBS 306 A 1 HETATM 25 C C21 PBS . . . H 7 -51.397 -22.158 18.701 1 31.84 ? C21 PBS 306 A 1 HETATM 26 C C22 PBS . . . H 7 -49.872 -22.214 18.66 1 33.2 ? C22 PBS 306 A 1 HETATM 27 C C23 PBS . . . H 7 -49.345 -21.04 17.868 1 34.34 ? C23 PBS 306 A 1 HETATM 28 C C24 PBS . . . H 7 -47.822 -21.259 17.833 1 35.18 ? C24 PBS 306 A 1 HETATM 29 C C25 PBS . . . H 7 -47.136 -19.941 18.249 1 35.97 ? C25 PBS 306 A 1 HETATM 30 C C PBS . . . H 7 -54 -28.157 20.048 1 26.99 ? C PBS 306 A 1 HETATM 31 O OC1 PBS . . . H 7 -55.211 -28.144 19.31 1 26.46 ? OC1 PBS 306 A 1 HETATM 32 C CG1 PBS . . . H 7 -56.277 -28.843 19.91 1 26.14 ? CG1 PBS 306 A 1 HETATM 33 O OG PBS . . . H 7 -56.642 -28.288 21.191 1 26.29 ? OG PBS 306 A 1 HETATM 34 C CG PBS . . . H 7 -57.094 -26.924 21.17 1 27.03 ? CG PBS 306 A 1 HETATM 35 C CG5 PBS . . . H 7 -57.5 -26.615 22.602 1 27.73 ? CG5 PBS 306 A 1 HETATM 36 O OG6 PBS . . . H 7 -56.332 -26.04 23.199 1 28.01 ? OG6 PBS 306 A 1 HETATM 37 C CG4 PBS . . . H 7 -58.294 -26.813 20.26 1 26.33 ? CG4 PBS 306 A 1 HETATM 38 O OG5 PBS . . . H 7 -59.345 -27.572 20.822 1 26.88 ? OG5 PBS 306 A 1 HETATM 39 C CG3 PBS . . . H 7 -57.986 -27.351 18.886 1 25.96 ? CG3 PBS 306 A 1 HETATM 40 O OG4 PBS . . . H 7 -59.197 -27.411 18.128 1 27.09 ? OG4 PBS 306 A 1 HETATM 41 C CG2 PBS . . . H 7 -57.44 -28.758 18.951 1 26.13 ? CG2 PBS 306 A 1 HETATM 42 O OG3 PBS . . . H 7 -57.011 -29.168 17.628 1 25.2 ? OG3 PBS 306 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 347 _model_server_stats.encode_time_ms 14 _model_server_stats.element_count 42 #