data_6SOZ # _model_server_result.job_id Hl1peJ7eRvfdzcQv93u-Sw _model_server_result.datetime_utc '2024-11-05 19:47:29' _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 6soz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":401}' # _entry.id 6SOZ # _exptl.entry_id 6SOZ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 6 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 111.45 _cell.angle_gamma 90 _cell.entry_id 6SOZ _cell.length_a 128.18 _cell.length_b 117.87 _cell.length_c 134.55 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6SOZ _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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,J,K _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 6 G N N ? 6 H N N ? 6 I N N ? 6 J N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 4 oligosaccharide 5 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 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 4 3 2 MAN NAG C1 O1 . O4 HO4 . sing 3 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . 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 4 n D NAG 1 D 1 NAG A 351 NAG 4 n D NAG 2 D 2 NAG A 352 NAG 4 n D MAN 3 D 3 MAN A 353 MAN 4 n E NAG 1 E 1 NAG A 355 NAG 4 n E NAG 2 E 2 NAG A 356 NAG 4 n E MAN 3 E 3 MAN A 357 MAN 5 n F NAG 1 F 1 NAG B 341 NAG 5 n F NAG 2 F 2 NAG B 342 NAG # 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 34 A CYS 34 1_555 A SG CYS 161 A CYS 161 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 84 A CYS 84 1_555 A SG CYS 312 A CYS 312 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? disulf ? disulf3 A SG CYS 144 A CYS 144 1_555 A SG CYS 215 A CYS 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf4 B SG CYS 34 B CYS 34 1_555 B SG CYS 161 B CYS 161 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf5 B SG CYS 84 B CYS 84 1_555 B SG CYS 311 B CYS 311 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf6 B SG CYS 144 B CYS 144 1_555 B SG CYS 215 B CYS 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf7 B SG CYS 230 B CYS 230 1_555 B SG CYS 247 B CYS 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? disulf ? disulf8 C SG CYS 7 C CYS 9 1_555 C SG CYS 46 C CYS 48 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf9 C SG CYS 17 C CYS 19 1_555 C SG CYS 37 C CYS 39 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf10 C SG CYS 116 C CYS 118 1_555 C SG CYS 192 C CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf11 C SG CYS 135 C CYS 137 1_555 C SG CYS 329 C CYS 331 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf12 C SG CYS 156 C CYS 158 1_555 C SG CYS 172 C CYS 174 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf13 C SG CYS 159 C CYS 161 1_555 C SG CYS 177 C CYS 179 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf14 C SG CYS 169 C CYS 171 1_555 C SG CYS 175 C CYS 177 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf15 C SG CYS 225 C CYS 227 1_555 C SG CYS 239 C CYS 241 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf16 C SG CYS 343 C CYS 345 1_555 C SG CYS 375 C CYS 377 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf17 C SG CYS 353 C CYS 355 1_555 C SG CYS 366 C CYS 368 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? disulf ? disulf18 C SG CYS 400 C CYS 402 1_555 C SG CYS 672 C CYS 674 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf19 C SG CYS 416 C CYS 418 1_555 C SG CYS 635 C CYS 637 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf20 C SG CYS 448 C CYS 450 1_555 C SG CYS 521 C CYS 523 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf21 C SG CYS 472 C CYS 474 1_555 C SG CYS 663 C CYS 665 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf22 C SG CYS 482 C CYS 484 1_555 C SG CYS 496 C CYS 498 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf23 C SG CYS 493 C CYS 495 1_555 C SG CYS 504 C CYS 506 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf24 C SG CYS 561 C CYS 563 1_555 C SG CYS 575 C CYS 577 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? covale ? covale1 A ND2 ASN 26 A ASN 26 1_555 G C1 NAG . A NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale2 A ND2 ASN 110 A ASN 110 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale3 A ND2 ASN 235 A ASN 235 1_555 H C1 NAG . A NAG 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale4 A ND2 ASN 250 A ASN 250 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale5 B ND2 ASN 26 B ASN 26 1_555 I C1 NAG . B NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale6 B ND2 ASN 110 B ASN 110 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? covale ? covale7 B ND2 ASN 234 B ASN 234 1_555 J C1 NAG . B NAG 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale8 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.406 sing covale ? covale9 D O4 NAG . D NAG 2 1_555 D C1 MAN . D MAN 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.422 ? covale ? covale10 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale11 E O4 NAG . E NAG 2 1_555 E C1 MAN . E MAN 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale12 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? metalc ? metalc1 C OD1 ASP 390 C ASP 392 1_555 K FE FE . C FE 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.92 ? metalc ? metalc2 C OH TYR 424 C TYR 426 1_555 K FE FE . C FE 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.108 ? metalc ? metalc3 C OH TYR 515 C TYR 517 1_555 K FE FE . C FE 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.779 ? metalc ? metalc4 C NE2 HIS 583 C HIS 585 1_555 K FE FE . C FE 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.67 ? # _chem_comp.formula 'C8 H15 N O6' _chem_comp.formula_weight 221.208 _chem_comp.id NAG _chem_comp.mon_nstd_flag . _chem_comp.name 2-acetamido-2-deoxy-beta-D-glucopyranose _chem_comp.type 'd-saccharide, beta linking' _chem_comp.pdbx_synonyms 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 # 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 C1 C2 NAG sing 259 n n C1 O1 NAG sing 260 n n C1 O5 NAG sing 261 n n C1 H1 NAG sing 262 n n C2 C3 NAG sing 263 n n C2 N2 NAG sing 264 n n C2 H2 NAG sing 265 n n C3 C4 NAG sing 266 n n C3 O3 NAG sing 267 n n C3 H3 NAG sing 268 n n C4 C5 NAG sing 269 n n C4 O4 NAG sing 270 n n C4 H4 NAG sing 271 n n C5 C6 NAG sing 272 n n C5 O5 NAG sing 273 n n C5 H5 NAG sing 274 n n C6 O6 NAG sing 275 n n C6 H61 NAG sing 276 n n C6 H62 NAG sing 277 n n C7 C8 NAG sing 278 n n C7 N2 NAG sing 279 n n C7 O7 NAG doub 280 n n C8 H81 NAG sing 281 n n C8 H82 NAG sing 282 n n C8 H83 NAG sing 283 n n N2 HN2 NAG sing 284 n n O1 HO1 NAG sing 285 n n O3 HO3 NAG sing 286 n n O4 HO4 NAG sing 287 n n O6 HO6 NAG sing 288 n n # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.identifier _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version NAG DGlcpNAcb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 NAG N-acetyl-b-D-glucopyranosamine 'COMMON NAME' GMML 1 NAG b-D-GlcpNAc 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 NAG GlcNAc 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 6SOZ _atom_sites.fract_transf_matrix[1][1] 0.007802 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003065 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008484 _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] 0.007985 _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 G 6 NAG A 1 401 350 NAG NAG . H 6 NAG A 1 405 354 NAG NAG . I 6 NAG B 1 401 340 NAG NAG . J 6 NAG B 1 404 343 NAG NAG . K 7 FE C 1 701 1 FE FE . # 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 C1 NAG . . . G 6 57.802 0.315 -85.174 1 220.69 ? C1 NAG 401 A 1 HETATM 2 C C2 NAG . . . G 6 58.983 0.682 -84.272 1 220.33 ? C2 NAG 401 A 1 HETATM 3 C C3 NAG . . . G 6 59.216 2.196 -84.26 1 220.21 ? C3 NAG 401 A 1 HETATM 4 C C4 NAG . . . G 6 57.902 2.984 -84.218 1 222.28 ? C4 NAG 401 A 1 HETATM 5 C C5 NAG . . . G 6 56.947 2.587 -85.345 1 223.28 ? C5 NAG 401 A 1 HETATM 6 C C6 NAG . . . G 6 56.829 3.643 -86.418 1 224.37 ? C6 NAG 401 A 1 HETATM 7 C C7 NAG . . . G 6 57.851 0.201 -82.079 1 216.74 ? C7 NAG 401 A 1 HETATM 8 C C8 NAG . . . G 6 58.156 0.168 -80.61 1 215.4 ? C8 NAG 401 A 1 HETATM 9 N N2 NAG . . . G 6 58.924 0.169 -82.903 1 218.96 ? N2 NAG 401 A 1 HETATM 10 O O3 NAG . . . G 6 60.003 2.562 -85.392 1 218.09 ? O3 NAG 401 A 1 HETATM 11 O O4 NAG . . . G 6 57.241 2.884 -82.958 1 222.47 ? O4 NAG 401 A 1 HETATM 12 O O5 NAG . . . G 6 57.415 1.404 -86.013 1 222.53 ? O5 NAG 401 A 1 HETATM 13 O O6 NAG . . . G 6 57.956 3.614 -87.289 1 223.89 ? O6 NAG 401 A 1 HETATM 14 O O7 NAG . . . G 6 56.701 0.272 -82.498 1 216.71 ? O7 NAG 401 A 1 # _model_server_stats.io_time_ms 28 _model_server_stats.parse_time_ms 23 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 308 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #