data_2Z4E # _model_server_result.job_id Ss2xHf1bEuWV2zwzkWI8Gw _model_server_result.datetime_utc '2025-08-05 05:00:32' _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 2z4e # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"U","auth_seq_id":101}' # _entry.id 2Z4E # _exptl.entry_id 2Z4E _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 8 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 2 _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 2Z4E _cell.length_a 54.63 _cell.length_b 148.69 _cell.length_c 232.68 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2Z4E _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? decameric 10 author_defined_assembly 1 PISA pentameric 5 software_defined_assembly 2 PISA pentameric 5 software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U 1 1 A,B,C,G,I,K,L,M,N,O 2 1 D,E,F,H,J,P,Q,R,S,T,U 3 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 ? 8 P N N ? 8 U N N # _pdbx_entity_branch.entity_id 6 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 6 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order 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 6 n K NAG 1 G 1 NAG B 470 NAG 6 n K NAG 2 G 2 NAG B 471 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 51 A CYS 161 1_555 C SG CYS 48 C CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf2 A SG CYS 55 A CYS 165 1_555 B SG CYS 60 B CYS 193 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf3 B SG CYS 64 B CYS 197 1_555 C SG CYS 52 C CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf4 B SG CYS 68 B CYS 201 1_555 B SG CYS 153 B CYS 286 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf5 B SG CYS 78 B CYS 211 1_555 B SG CYS 107 B CYS 240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf6 B SG CYS 261 B CYS 394 1_555 B SG CYS 274 B CYS 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf7 C SG CYS 66 C CYS 153 1_555 C SG CYS 95 C CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf8 C SG CYS 239 C CYS 326 1_555 C SG CYS 252 C CYS 339 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf9 D SG CYS 51 D CYS 161 1_555 F SG CYS 48 F CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? disulf ? disulf10 D SG CYS 55 D CYS 165 1_555 E SG CYS 60 E CYS 193 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf11 E SG CYS 64 E CYS 197 1_555 F SG CYS 52 F CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf12 E SG CYS 68 E CYS 201 1_555 E SG CYS 153 E CYS 286 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf13 E SG CYS 78 E CYS 211 1_555 E SG CYS 107 E CYS 240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf14 E SG CYS 261 E CYS 394 1_555 E SG CYS 274 E CYS 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf15 F SG CYS 66 F CYS 153 1_555 F SG CYS 95 F CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf16 F SG CYS 239 F CYS 326 1_555 F SG CYS 252 F CYS 339 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? covale ? covale1 B ND2 ASN 231 B ASN 364 1_555 K C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale2 E ND2 ASN 231 E ASN 364 1_555 P C1 NAG . E NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale3 K O4 NAG . G NAG 1 1_555 K C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.388 ? metalc ? metalc1 B O GLY 130 B GLY 263 1_555 M CA CA . B CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.9 ? metalc ? metalc2 B OD1 ASP 248 B ASP 381 1_555 L CA CA . B CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.757 ? metalc ? metalc3 B OD2 ASP 248 B ASP 381 1_555 L CA CA . B CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.716 ? metalc ? metalc4 B OD1 ASP 250 B ASP 383 1_555 L CA CA . B CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.734 ? metalc ? metalc5 B O TRP 252 B TRP 385 1_555 L CA CA . B CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.758 ? metalc ? metalc6 C OD2 ASP 207 C ASP 294 1_555 O CA CA . C CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.657 ? metalc ? metalc7 C O ASP 211 C ASP 298 1_555 O CA CA . C CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.855 ? metalc ? metalc8 C OD2 ASP 214 C ASP 301 1_555 O CA CA . C CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.957 ? metalc ? metalc9 C OD2 ASP 231 C ASP 318 1_555 N CA CA . C CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.815 ? metalc ? metalc10 C OD2 ASP 233 C ASP 320 1_555 N CA CA . C CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.531 ? metalc ? metalc11 C O PHE 235 C PHE 322 1_555 N CA CA . C CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.602 ? metalc ? metalc12 C O GLY 237 C GLY 324 1_555 N CA CA . C CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.714 ? metalc ? metalc13 E OD2 ASP 128 E ASP 261 1_555 R CA CA . E CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.703 ? metalc ? metalc14 E O GLY 130 E GLY 263 1_555 R CA CA . E CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.651 ? metalc ? metalc15 E OD1 ASP 248 E ASP 381 1_555 Q CA CA . E CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.908 ? metalc ? metalc16 E OD2 ASP 248 E ASP 381 1_555 Q CA CA . E CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.718 ? metalc ? metalc17 E OD1 ASP 250 E ASP 383 1_555 Q CA CA . E CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.799 ? metalc ? metalc18 E O TRP 252 E TRP 385 1_555 Q CA CA . E CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.802 ? metalc ? metalc19 F OD2 ASP 207 F ASP 294 1_555 T CA CA . F CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.863 ? metalc ? metalc20 F O ASP 211 F ASP 298 1_555 T CA CA . F CA 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.913 ? metalc ? metalc21 F OD1 ASP 231 F ASP 318 1_555 S CA CA . F CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.798 ? metalc ? metalc22 F OD2 ASP 231 F ASP 318 1_555 S CA CA . F CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.686 ? metalc ? metalc23 F OD2 ASP 233 F ASP 320 1_555 S CA CA . F CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.526 ? metalc ? metalc24 F O PHE 235 F PHE 322 1_555 S CA CA . F CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc25 F O GLY 237 F GLY 324 1_555 S CA CA . F CA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.678 ? # _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 235 n n C1 O1 NAG sing 236 n n C1 O5 NAG sing 237 n n C1 H1 NAG sing 238 n n C2 C3 NAG sing 239 n n C2 N2 NAG sing 240 n n C2 H2 NAG sing 241 n n C3 C4 NAG sing 242 n n C3 O3 NAG sing 243 n n C3 H3 NAG sing 244 n n C4 C5 NAG sing 245 n n C4 O4 NAG sing 246 n n C4 H4 NAG sing 247 n n C5 C6 NAG sing 248 n n C5 O5 NAG sing 249 n n C5 H5 NAG sing 250 n n C6 O6 NAG sing 251 n n C6 H61 NAG sing 252 n n C6 H62 NAG sing 253 n n C7 C8 NAG sing 254 n n C7 N2 NAG sing 255 n n C7 O7 NAG doub 256 n n C8 H81 NAG sing 257 n n C8 H82 NAG sing 258 n n C8 H83 NAG sing 259 n n N2 HN2 NAG sing 260 n n O1 HO1 NAG sing 261 n n O3 HO3 NAG sing 262 n n O4 HO4 NAG sing 263 n n O6 HO6 NAG sing 264 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 2Z4E _atom_sites.fract_transf_matrix[1][1] 0.018305 _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] 0.006725 _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] 0.004298 _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 L 7 CA B 1 501 2 CA CA . M 7 CA B 1 502 3 CA CA . N 7 CA C 1 501 1 CA CA . O 7 CA C 1 502 4 CA CA . P 8 NAG E 1 501 470 NAG NAG . Q 7 CA E 1 502 2 CA CA . R 7 CA E 1 503 3 CA CA . S 7 CA F 1 501 1 CA CA . T 7 CA F 1 502 4 CA CA . U 8 NAG J 1 101 471 NAG NAG . # 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 . . . U 8 46.701 111.214 36.822 1 75.02 ? C1 NAG 101 J 1 HETATM 2 C C2 NAG . . . U 8 46.327 111.849 35.464 1 75.02 ? C2 NAG 101 J 1 HETATM 3 C C3 NAG . . . U 8 46.502 110.874 34.288 1 75.02 ? C3 NAG 101 J 1 HETATM 4 C C4 NAG . . . U 8 46.528 109.42 34.773 1 75.02 ? C4 NAG 101 J 1 HETATM 5 C C5 NAG . . . U 8 45.536 109.241 35.935 1 75.02 ? C5 NAG 101 J 1 HETATM 6 C C6 NAG . . . U 8 45.42 107.793 36.383 1 75.02 ? C6 NAG 101 J 1 HETATM 7 C C7 NAG . . . U 8 44.711 113.612 35.672 1 75.02 ? C7 NAG 101 J 1 HETATM 8 C C8 NAG . . . U 8 43.534 113.981 36.566 1 75.02 ? C8 NAG 101 J 1 HETATM 9 N N2 NAG . . . U 8 44.956 112.32 35.492 1 75.02 ? N2 NAG 101 J 1 HETATM 10 O O1 NAG . . . U 8 48.053 110.905 36.867 1 75.02 ? O1 NAG 101 J 1 HETATM 11 O O3 NAG . . . U 8 47.697 111.174 33.578 1 75.02 ? O3 NAG 101 J 1 HETATM 12 O O4 NAG . . . U 8 46.178 108.556 33.7 1 75.02 ? O4 NAG 101 J 1 HETATM 13 O O5 NAG . . . U 8 45.937 110.013 37.104 1 75.02 ? O5 NAG 101 J 1 HETATM 14 O O6 NAG . . . U 8 44.082 107.461 36.729 1 75.02 ? O6 NAG 101 J 1 HETATM 15 O O7 NAG . . . U 8 45.397 114.497 35.158 1 75.02 ? O7 NAG 101 J 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 23 _model_server_stats.query_time_ms 358 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 15 #