data_6VCA # _model_server_result.job_id QkD-j83wZXqKhaLTTHH6Aw _model_server_result.datetime_utc '2025-08-31 01:35:20' _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 6vca # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"O","auth_seq_id":601}' # _entry.id 6VCA # _exptl.entry_id 6VCA _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 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 6VCA _cell.length_a 236.91 _cell.length_b 336.2 _cell.length_c 222.15 _cell.Z_PDB 32 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6VCA _symmetry.cell_setting ? _symmetry.Int_Tables_number 21 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? hexameric 6 author_defined_assembly 1 ? hexameric 6 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,F,G,H,M,N 1 1 C,D,I,J,K,L,O 2 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 6 _struct_asym.id O _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 5 3 2 BMA 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 M NAG 1 G 1 NAG A 550 NAG 4 n M NAG 2 G 2 NAG A 551 NAG 5 n N NAG 1 I 1 NAG B 550 NAG 5 n N NAG 2 I 2 NAG B 551 NAG 5 n N BMA 3 I 3 BMA B 552 BMA # 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 25 A CYS 51 1_555 A SG CYS 31 A CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf2 A SG CYS 327 A CYS 353 1_555 A SG CYS 332 A CYS 358 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf3 A SG CYS 339 A CYS 365 1_555 A SG CYS 361 A CYS 387 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf4 B SG CYS 25 B CYS 51 1_555 B SG CYS 31 B CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf5 B SG CYS 327 B CYS 353 1_555 B SG CYS 332 B CYS 358 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? disulf ? disulf6 B SG CYS 339 B CYS 365 1_555 B SG CYS 361 B CYS 387 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf7 B SG CYS 450 B CYS 476 1_555 B SG CYS 453 B CYS 479 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? disulf ? disulf8 C SG CYS 25 C CYS 51 1_555 C SG CYS 31 C CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? disulf ? disulf9 C SG CYS 327 C CYS 353 1_555 C SG CYS 332 C CYS 358 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? disulf ? disulf10 C SG CYS 339 C CYS 365 1_555 C SG CYS 361 C CYS 387 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? disulf ? disulf11 C SG CYS 450 C CYS 476 1_555 C SG CYS 453 C CYS 479 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.956 ? disulf ? disulf12 D SG CYS 25 D CYS 51 1_555 D SG CYS 31 D CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? disulf ? disulf13 D SG CYS 327 D CYS 353 1_555 D SG CYS 332 D CYS 358 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf14 D SG CYS 339 D CYS 365 1_555 D SG CYS 361 D CYS 387 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? disulf ? disulf15 D SG CYS 450 D CYS 476 1_555 D SG CYS 453 D CYS 479 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf16 E SG CYS 22 H CYS 22 1_555 E SG CYS 96 H CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf17 E SG CYS 146 H CYS 146 1_555 E SG CYS 202 H CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? disulf ? disulf18 F SG CYS 22 L CYS 22 1_555 F SG CYS 90 L CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf19 F SG CYS 138 L CYS 138 1_555 F SG CYS 197 L CYS 197 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf20 G SG CYS 22 E CYS 22 1_555 G SG CYS 96 E CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf21 G SG CYS 146 E CYS 146 1_555 G SG CYS 202 E CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? disulf ? disulf22 H SG CYS 22 F CYS 22 1_555 H SG CYS 90 F CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? disulf ? disulf23 H SG CYS 138 F CYS 138 1_555 H SG CYS 197 F CYS 197 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf24 I SG CYS 22 P CYS 22 1_555 I SG CYS 96 P CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf25 J SG CYS 22 O CYS 22 1_555 J SG CYS 90 O CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf26 K SG CYS 22 K CYS 22 1_555 K SG CYS 96 K CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf27 K SG CYS 146 K CYS 146 1_555 K SG CYS 202 K CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? disulf ? disulf28 L SG CYS 22 J CYS 22 1_555 L SG CYS 90 J CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf29 L SG CYS 138 J CYS 138 1_555 L SG CYS 197 J CYS 197 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? covale ? covale1 A ND2 ASN 285 A ASN 311 1_555 M C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale2 B ND2 ASN 285 B ASN 311 1_555 N C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale3 D ND2 ASN 285 D ASN 311 1_555 O C1 NAG . D NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale4 M O4 NAG . G NAG 1 1_555 M C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale5 N O4 NAG . I NAG 1 1_555 N C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale6 N O4 NAG . I NAG 2 1_555 N C1 BMA . I BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? # _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 6VCA _atom_sites.fract_transf_matrix[1][1] 0.004221 _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] 0.002974 _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] 0.004501 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # _pdbx_nonpoly_scheme.asym_id O _pdbx_nonpoly_scheme.entity_id 6 _pdbx_nonpoly_scheme.mon_id NAG _pdbx_nonpoly_scheme.pdb_strand_id D _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 601 _pdbx_nonpoly_scheme.auth_seq_num 550 _pdbx_nonpoly_scheme.pdb_mon_id NAG _pdbx_nonpoly_scheme.auth_mon_id NAG _pdbx_nonpoly_scheme.pdb_ins_code . # 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 . . . O 6 29.521 47.193 8.179 1 221.72 ? C1 NAG 601 D 1 HETATM 2 C C2 NAG . . . O 6 28.527 46.645 7.119 1 232.59 ? C2 NAG 601 D 1 HETATM 3 C C3 NAG . . . O 6 29.284 45.681 6.191 1 254.2 ? C3 NAG 601 D 1 HETATM 4 C C4 NAG . . . O 6 30.429 46.492 5.579 1 256.62 ? C4 NAG 601 D 1 HETATM 5 C C5 NAG . . . O 6 31.465 46.702 6.682 1 229.75 ? C5 NAG 601 D 1 HETATM 6 C C6 NAG . . . O 6 32.234 48.006 6.447 1 194.91 ? C6 NAG 601 D 1 HETATM 7 C C7 NAG . . . O 6 26.5 45.137 7.192 1 225.31 ? C7 NAG 601 D 1 HETATM 8 C C8 NAG . . . O 6 25.236 44.889 7.966 1 229.89 ? C8 NAG 601 D 1 HETATM 9 N N2 NAG . . . O 6 27.307 46.086 7.722 1 221.72 ? N2 NAG 601 D 1 HETATM 10 O O3 NAG . . . O 6 28.458 45.098 5.177 1 251.65 ? O3 NAG 601 D 1 HETATM 11 O O4 NAG . . . O 6 31.028 45.876 4.428 1 274.64 ? O4 NAG 601 D 1 HETATM 12 O O5 NAG . . . O 6 30.825 46.603 7.983 1 233.97 ? O5 NAG 601 D 1 HETATM 13 O O6 NAG . . . O 6 33.41 48.012 7.265 1 155.34 ? O6 NAG 601 D 1 HETATM 14 O O7 NAG . . . O 6 26.709 44.509 6.157 1 195.7 ? O7 NAG 601 D 1 # _model_server_stats.io_time_ms 226 _model_server_stats.parse_time_ms 77 _model_server_stats.create_model_time_ms 97 _model_server_stats.query_time_ms 435 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #