data_3WJL # _model_server_result.job_id Ji8ZWbD79Jn10Tlmy6xtOQ _model_server_result.datetime_utc '2024-11-14 15:53:06' _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 3wjl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":1001}' # _entry.id 3WJL # _exptl.entry_id 3WJL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 5 _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 3WJL _cell.length_a 156.71 _cell.length_b 260.2 _cell.length_c 56.86 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3WJL _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 ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_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 5 _struct_asym.id F _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 3 oligosaccharide 4 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 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 3 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 3 4 3 MAN BMA C1 O1 . O6 HO6 . sing 4 ? 3 5 4 NAG MAN C1 O1 . O2 HO2 . sing 5 ? 3 6 5 GAL NAG C1 O1 . O4 HO4 . sing 6 ? 3 7 3 MAN BMA C1 O1 . O3 HO3 . sing 7 ? 3 8 7 NAG MAN C1 O1 . O2 HO2 . sing 8 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 9 ? 4 3 2 BMA NAG C1 O1 . O4 HO4 . sing 10 ? 4 4 3 MAN BMA C1 O1 . O6 HO6 . sing 11 ? 4 5 4 NAG MAN C1 O1 . O2 HO2 . sing 12 ? 4 6 5 GAL NAG C1 O1 . O4 HO4 . sing 13 ? 4 7 3 MAN BMA C1 O1 . O3 HO3 . sing 14 ? 4 8 7 NAG MAN C1 O1 . O2 HO2 . sing 15 ? 4 9 1 FUL 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 3 n D NAG 1 D 1 NAG A 1001 NAG 3 n D NAG 2 D 2 NAG A 1002 NAG 3 n D BMA 3 D 3 BMA A 1003 BMA 3 n D MAN 4 D 4 MAN A 1004 MAN 3 n D NAG 5 D 5 NAG A 1005 NAG 3 n D GAL 6 D 6 GAL A 1007 GAL 3 n D MAN 7 D 7 MAN A 1006 MAN 3 n D NAG 8 D 8 NAG A 1009 NAG 4 n E NAG 1 E 1 NAG B 1001 NAG 4 n E NAG 2 E 2 NAG B 1002 NAG 4 n E BMA 3 E 3 BMA B 1003 BMA 4 n E MAN 4 E 4 MAN B 1004 MAN 4 n E NAG 5 E 5 NAG B 1005 NAG 4 n E GAL 6 E 6 GAL B 1007 GAL 4 n E MAN 7 E 7 MAN B 1006 MAN 4 n E NAG 8 E 8 NAG B 1009 NAG 4 n E FUL 9 E 9 FUL B 1008 FUL # 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 46 A CYS 261 1_555 A SG CYS 106 A CYS 321 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 A SG CYS 152 A CYS 367 1_555 A SG CYS 210 A CYS 425 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf3 B SG CYS 46 B CYS 261 1_555 B SG CYS 106 B CYS 321 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf4 B SG CYS 152 B CYS 367 1_555 B SG CYS 210 B CYS 425 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf5 C SG CYS 27 C CYS 26 1_555 C SG CYS 69 C CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf6 C SG CYS 108 C CYS 107 1_555 C SG CYS 152 C CYS 151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? covale ? covale1 A ND2 ASN 82 A ASN 297 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale2 B ND2 ASN 82 B ASN 297 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale3 C ND2 ASN 143 C ASN 142 1_555 F C1 NAG . C NAG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale4 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale5 D O4 NAG . D NAG 2 1_555 D C1 BMA . D BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale6 D O6 BMA . D BMA 3 1_555 D C1 MAN . D MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale7 D O3 BMA . D BMA 3 1_555 D C1 MAN . D MAN 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale8 D O2 MAN . D MAN 4 1_555 D C1 NAG . D NAG 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale9 D O4 NAG . D NAG 5 1_555 D C1 GAL . D GAL 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale10 D O2 MAN . D MAN 7 1_555 D C1 NAG . D NAG 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale11 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale12 E O6 NAG . E NAG 1 1_555 E C1 FUL . E FUL 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale13 E O4 NAG . E NAG 2 1_555 E C1 BMA . E BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale14 E O6 BMA . E BMA 3 1_555 E C1 MAN . E MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.428 ? covale ? covale15 E O3 BMA . E BMA 3 1_555 E C1 MAN . E MAN 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale16 E O2 MAN . E MAN 4 1_555 E C1 NAG . E NAG 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale17 E O4 NAG . E NAG 5 1_555 E C1 GAL . E GAL 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale18 E O2 MAN . E MAN 7 1_555 E C1 NAG . E NAG 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? # _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 332 n n C1 O1 NAG sing 333 n n C1 O5 NAG sing 334 n n C1 H1 NAG sing 335 n n C2 C3 NAG sing 336 n n C2 N2 NAG sing 337 n n C2 H2 NAG sing 338 n n C3 C4 NAG sing 339 n n C3 O3 NAG sing 340 n n C3 H3 NAG sing 341 n n C4 C5 NAG sing 342 n n C4 O4 NAG sing 343 n n C4 H4 NAG sing 344 n n C5 C6 NAG sing 345 n n C5 O5 NAG sing 346 n n C5 H5 NAG sing 347 n n C6 O6 NAG sing 348 n n C6 H61 NAG sing 349 n n C6 H62 NAG sing 350 n n C7 C8 NAG sing 351 n n C7 N2 NAG sing 352 n n C7 O7 NAG doub 353 n n C8 H81 NAG sing 354 n n C8 H82 NAG sing 355 n n C8 H83 NAG sing 356 n n N2 HN2 NAG sing 357 n n O1 HO1 NAG sing 358 n n O3 HO3 NAG sing 359 n n O4 HO4 NAG sing 360 n n O6 HO6 NAG sing 361 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 3WJL _atom_sites.fract_transf_matrix[1][1] 0.006381 _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] 0.003843 _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] 0.017587 _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 5 NAG C 1 1001 1001 NAG NAG . G 6 HOH A 1 1101 2 HOH HOH . G 6 HOH A 2 1102 11 HOH HOH . G 6 HOH A 3 1103 12 HOH HOH . G 6 HOH A 4 1104 15 HOH HOH . G 6 HOH A 5 1105 17 HOH HOH . G 6 HOH A 6 1106 18 HOH HOH . G 6 HOH A 7 1107 19 HOH HOH . G 6 HOH A 8 1108 22 HOH HOH . G 6 HOH A 9 1109 23 HOH HOH . G 6 HOH A 10 1110 25 HOH HOH . G 6 HOH A 11 1111 26 HOH HOH . G 6 HOH A 12 1112 28 HOH HOH . G 6 HOH A 13 1113 29 HOH HOH . G 6 HOH A 14 1114 38 HOH HOH . G 6 HOH A 15 1115 42 HOH HOH . G 6 HOH A 16 1116 43 HOH HOH . G 6 HOH A 17 1117 44 HOH HOH . H 6 HOH B 1 1101 3 HOH HOH . H 6 HOH B 2 1102 4 HOH HOH . H 6 HOH B 3 1103 5 HOH HOH . H 6 HOH B 4 1104 6 HOH HOH . H 6 HOH B 5 1105 9 HOH HOH . H 6 HOH B 6 1106 13 HOH HOH . H 6 HOH B 7 1107 14 HOH HOH . H 6 HOH B 8 1108 16 HOH HOH . H 6 HOH B 9 1109 21 HOH HOH . H 6 HOH B 10 1110 24 HOH HOH . H 6 HOH B 11 1111 30 HOH HOH . H 6 HOH B 12 1112 31 HOH HOH . H 6 HOH B 13 1113 33 HOH HOH . H 6 HOH B 14 1114 34 HOH HOH . H 6 HOH B 15 1115 36 HOH HOH . H 6 HOH B 16 1116 37 HOH HOH . H 6 HOH B 17 1117 39 HOH HOH . H 6 HOH B 18 1118 40 HOH HOH . H 6 HOH B 19 1119 45 HOH HOH . H 6 HOH B 20 1120 46 HOH HOH . H 6 HOH B 21 1121 47 HOH HOH . I 6 HOH C 1 1101 7 HOH HOH . I 6 HOH C 2 1102 8 HOH HOH . I 6 HOH C 3 1103 20 HOH HOH . I 6 HOH C 4 1104 41 HOH HOH . # 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 . . . F 5 18.437 -38.529 22.092 1 78.82 ? C1 NAG 1001 C 1 HETATM 2 C C2 NAG . . . F 5 17.049 -39.065 21.725 1 84.23 ? C2 NAG 1001 C 1 HETATM 3 C C3 NAG . . . F 5 17.099 -40.491 21.161 1 82.81 ? C3 NAG 1001 C 1 HETATM 4 C C4 NAG . . . F 5 18.504 -41.112 21.13 1 82.81 ? C4 NAG 1001 C 1 HETATM 5 C C5 NAG . . . F 5 19.651 -40.14 20.808 1 82.08 ? C5 NAG 1001 C 1 HETATM 6 C C6 NAG . . . F 5 20.093 -40.316 19.361 1 82.5 ? C6 NAG 1001 C 1 HETATM 7 C C7 NAG . . . F 5 15.256 -38.043 23.045 1 87.32 ? C7 NAG 1001 C 1 HETATM 8 C C8 NAG . . . F 5 14.435 -38.129 24.299 1 90 ? C8 NAG 1001 C 1 HETATM 9 N N2 NAG . . . F 5 16.168 -39.003 22.881 1 87.06 ? N2 NAG 1001 C 1 HETATM 10 O O3 NAG . . . F 5 16.556 -40.506 19.858 1 78.96 ? O3 NAG 1001 C 1 HETATM 11 O O4 NAG . . . F 5 18.761 -41.729 22.373 1 86.25 ? O4 NAG 1001 C 1 HETATM 12 O O5 NAG . . . F 5 19.318 -38.774 21.012 1 80.04 ? O5 NAG 1001 C 1 HETATM 13 O O6 NAG . . . F 5 21.478 -40.082 19.239 1 85.22 ? O6 NAG 1001 C 1 HETATM 14 O O7 NAG . . . F 5 15.07 -37.127 22.242 1 83.66 ? O7 NAG 1001 C 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 348 _model_server_stats.encode_time_ms 14 _model_server_stats.element_count 14 #