data_3W38 # _model_server_result.job_id 5-sdS3Z-8RPh17_KviesXg _model_server_result.datetime_utc '2025-04-01 11:08:45' _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 3w38 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1004}' # _entry.id 3W38 # _exptl.entry_id 3W38 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 3 _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 3W38 _cell.length_a 83.534 _cell.length_b 95.463 _cell.length_c 107.651 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3W38 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 2 _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 ? 2 2 1 FUC NAG C1 O1 . O3 HO3 . sing 2 ? 2 3 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 2 n B NAG 1 B 1 NAG B 1 NAG 2 n B FUC 2 B 2 FUC B 2 FUC 2 n B NAG 3 B 3 NAG B 3 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 599 A CYS 599 1_555 A SG CYS 610 A CYS 610 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? covale ? covale1 A ND2 ASN 404 A ASN 404 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale2 A ND2 ASN 728 A ASN 728 1_555 C C1 NAG . A NAG 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.459 ? covale ? covale3 B O3 NAG . B NAG 1 1_555 B C1 FUC . B FUC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale4 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.428 ? # _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 260 n n C1 O1 NAG sing 261 n n C1 O5 NAG sing 262 n n C1 H1 NAG sing 263 n n C2 C3 NAG sing 264 n n C2 N2 NAG sing 265 n n C2 H2 NAG sing 266 n n C3 C4 NAG sing 267 n n C3 O3 NAG sing 268 n n C3 H3 NAG sing 269 n n C4 C5 NAG sing 270 n n C4 O4 NAG sing 271 n n C4 H4 NAG sing 272 n n C5 C6 NAG sing 273 n n C5 O5 NAG sing 274 n n C5 H5 NAG sing 275 n n C6 O6 NAG sing 276 n n C6 H61 NAG sing 277 n n C6 H62 NAG sing 278 n n C7 C8 NAG sing 279 n n C7 N2 NAG sing 280 n n C7 O7 NAG doub 281 n n C8 H81 NAG sing 282 n n C8 H82 NAG sing 283 n n C8 H83 NAG sing 284 n n N2 HN2 NAG sing 285 n n O1 HO1 NAG sing 286 n n O3 HO3 NAG sing 287 n n O4 HO4 NAG sing 288 n n O6 HO6 NAG sing 289 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 3W38 _atom_sites.fract_transf_matrix[1][1] 0.011971 _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] 0.010475 _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] 0.009289 _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 C 3 NAG A 1 1004 1 NAG NAG . D 4 SO4 A 1 1005 1 SO4 SO4 . E 4 SO4 A 1 1006 2 SO4 SO4 . F 5 HOH A 1 1101 1 HOH HOH . F 5 HOH A 2 1102 2 HOH HOH . F 5 HOH A 3 1103 3 HOH HOH . F 5 HOH A 4 1104 5 HOH HOH . F 5 HOH A 5 1105 6 HOH HOH . F 5 HOH A 6 1106 7 HOH HOH . F 5 HOH A 7 1107 9 HOH HOH . F 5 HOH A 8 1108 10 HOH HOH . F 5 HOH A 9 1109 13 HOH HOH . F 5 HOH A 10 1110 14 HOH HOH . F 5 HOH A 11 1111 15 HOH HOH . F 5 HOH A 12 1112 18 HOH HOH . F 5 HOH A 13 1113 19 HOH HOH . F 5 HOH A 14 1114 20 HOH HOH . F 5 HOH A 15 1115 24 HOH HOH . F 5 HOH A 16 1116 28 HOH HOH . F 5 HOH A 17 1117 30 HOH HOH . F 5 HOH A 18 1118 31 HOH HOH . F 5 HOH A 19 1119 32 HOH HOH . F 5 HOH A 20 1120 35 HOH HOH . F 5 HOH A 21 1121 36 HOH HOH . F 5 HOH A 22 1122 41 HOH HOH . F 5 HOH A 23 1123 42 HOH HOH . F 5 HOH A 24 1124 43 HOH HOH . F 5 HOH A 25 1125 44 HOH HOH . F 5 HOH A 26 1126 45 HOH HOH . F 5 HOH A 27 1127 46 HOH HOH . F 5 HOH A 28 1128 49 HOH HOH . F 5 HOH A 29 1129 50 HOH HOH . F 5 HOH A 30 1130 51 HOH HOH . F 5 HOH A 31 1131 52 HOH HOH . F 5 HOH A 32 1132 54 HOH HOH . F 5 HOH A 33 1133 55 HOH HOH . F 5 HOH A 34 1134 56 HOH HOH . F 5 HOH A 35 1135 60 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 . . . C 3 0.422 -22.887 -60.713 1 56.51 ? C1 NAG 1004 A 1 HETATM 2 C C2 NAG . . . C 3 -0.844 -22.233 -61.245 1 60.81 ? C2 NAG 1004 A 1 HETATM 3 C C3 NAG . . . C 3 -0.986 -22.419 -62.769 1 64.14 ? C3 NAG 1004 A 1 HETATM 4 C C4 NAG . . . C 3 0.233 -21.712 -63.379 1 61.57 ? C4 NAG 1004 A 1 HETATM 5 C C5 NAG . . . C 3 1.437 -22.527 -62.886 1 59.91 ? C5 NAG 1004 A 1 HETATM 6 C C6 NAG . . . C 3 2.793 -22.154 -63.506 1 57.33 ? C6 NAG 1004 A 1 HETATM 7 C C7 NAG . . . C 3 -2.392 -23.932 -60.185 1 63.57 ? C7 NAG 1004 A 1 HETATM 8 C C8 NAG . . . C 3 -1.714 -25.233 -60.591 1 65.33 ? C8 NAG 1004 A 1 HETATM 9 N N2 NAG . . . C 3 -1.993 -22.684 -60.489 1 61.5 ? N2 NAG 1004 A 1 HETATM 10 O O3 NAG . . . C 3 -2.269 -22.028 -63.266 1 61.78 ? O3 NAG 1004 A 1 HETATM 11 O O4 NAG . . . C 3 0.14 -21.598 -64.788 1 62.41 ? O4 NAG 1004 A 1 HETATM 12 O O5 NAG . . . C 3 1.501 -22.376 -61.482 1 58.74 ? O5 NAG 1004 A 1 HETATM 13 O O6 NAG . . . C 3 3.182 -20.884 -63.07 1 52.99 ? O6 NAG 1004 A 1 HETATM 14 O O7 NAG . . . C 3 -3.412 -24.014 -59.517 1 63.14 ? O7 NAG 1004 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 24 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 451 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 14 #