data_1N86 # _model_server_result.job_id T8o8thqXinmuJ7B3utQYmg _model_server_result.datetime_utc '2024-11-06 04:38:14' _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 1n86 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"O","auth_seq_id":570}' # _entry.id 1N86 # _exptl.entry_id 1N86 _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-alpha-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 90 _cell.angle_gamma 90 _cell.entry_id 1N86 _cell.length_a 52.328 _cell.length_b 130.093 _cell.length_c 298.313 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1N86 _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 ? _pdbx_struct_assembly.oligomeric_details decameric _pdbx_struct_assembly.oligomeric_count 10 _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,J,K,L,M,N,O,P,Q,R,S _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 K N N ? 6 O N N ? 6 R N N ? 6 S N N # 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 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf2 A SG CYS 55 A CYS 165 1_555 B SG CYS 60 B CYS 193 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf3 B SG CYS 64 B CYS 197 1_555 C SG CYS 52 C CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf4 B SG CYS 68 B CYS 201 1_555 B SG CYS 153 B CYS 286 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf5 B SG CYS 78 B CYS 211 1_555 B SG CYS 107 B CYS 240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf6 B SG CYS 261 B CYS 394 1_555 B SG CYS 274 B CYS 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf7 C SG CYS 66 C CYS 153 1_555 C SG CYS 95 C CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf8 C SG CYS 239 C CYS 326 1_555 C SG CYS 252 C CYS 339 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf9 D SG CYS 51 D CYS 161 1_555 F SG CYS 48 F CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.963 ? disulf ? disulf10 D SG CYS 55 D CYS 165 1_555 E SG CYS 60 E CYS 193 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf11 E SG CYS 64 E CYS 197 1_555 F SG CYS 52 F CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf12 E SG CYS 68 E CYS 201 1_555 E SG CYS 153 E CYS 286 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? disulf ? disulf13 E SG CYS 78 E CYS 211 1_555 E SG CYS 107 E CYS 240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? disulf ? disulf14 E SG CYS 261 E CYS 394 1_555 E SG CYS 274 E CYS 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf15 F SG CYS 66 F CYS 153 1_555 F SG CYS 95 F CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf16 F SG CYS 239 F CYS 326 1_555 F SG CYS 252 F CYS 339 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? metalc ? metalc1 M CA CA . B CA 1 1_555 B OD2 ASP 248 B ASP 381 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? metalc ? metalc2 M CA CA . B CA 1 1_555 B OD1 ASP 248 B ASP 381 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.486 ? metalc ? metalc3 M CA CA . B CA 1 1_555 B OD1 ASP 250 B ASP 383 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.113 ? metalc ? metalc4 M CA CA . B CA 1 1_555 B O TRP 252 B TRP 385 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.254 ? metalc ? metalc5 N CA CA . C CA 3 1_555 C OD2 ASP 231 C ASP 318 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.391 ? metalc ? metalc6 N CA CA . C CA 3 1_555 C OD1 ASP 231 C ASP 318 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc7 N CA CA . C CA 3 1_555 C OD1 ASP 233 C ASP 320 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? metalc ? metalc8 N CA CA . C CA 3 1_555 C O PHE 235 C PHE 322 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.464 ? metalc ? metalc9 N CA CA . C CA 3 1_555 C O GLY 237 C GLY 324 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.446 ? metalc ? metalc10 P CA CA . E CA 2 1_555 E OD2 ASP 248 E ASP 381 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.466 ? metalc ? metalc11 P CA CA . E CA 2 1_555 E OD1 ASP 248 E ASP 381 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.834 ? metalc ? metalc12 P CA CA . E CA 2 1_555 E OD1 ASP 250 E ASP 383 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.593 ? metalc ? metalc13 P CA CA . E CA 2 1_555 E O TRP 252 E TRP 385 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.129 ? metalc ? metalc14 Q CA CA . F CA 4 1_555 F OD2 ASP 231 F ASP 318 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.556 ? metalc ? metalc15 Q CA CA . F CA 4 1_555 F OD1 ASP 231 F ASP 318 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.442 ? metalc ? metalc16 Q CA CA . F CA 4 1_555 F OD1 ASP 233 F ASP 320 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.463 ? metalc ? metalc17 Q CA CA . F CA 4 1_555 F O PHE 235 F PHE 322 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.42 ? metalc ? metalc18 Q CA CA . F CA 4 1_555 F O GLY 237 F GLY 324 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.552 ? # _chem_comp.formula 'C8 H15 N O6' _chem_comp.formula_weight 221.208 _chem_comp.id NDG _chem_comp.mon_nstd_flag . _chem_comp.name 2-acetamido-2-deoxy-alpha-D-glucopyranose _chem_comp.type 'd-saccharide, alpha linking' _chem_comp.pdbx_synonyms N-acetyl-alpha-D-glucosamine;2-acetamido-2-deoxy-alpha-D-glucose;2-acetamido-2-deoxy-D-glucose;2-acetamido-2-deoxy-glucose;2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE # 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 NDG sing 259 n n C1 O5 NDG sing 260 n n C1 O1 NDG sing 261 n n C1 H1 NDG sing 262 n n C2 C3 NDG sing 263 n n C2 N2 NDG sing 264 n n C2 H2 NDG sing 265 n n C3 C4 NDG sing 266 n n C3 O3 NDG sing 267 n n C3 H3 NDG sing 268 n n C4 C5 NDG sing 269 n n C4 O4 NDG sing 270 n n C4 H4 NDG sing 271 n n C5 C6 NDG sing 272 n n C5 O5 NDG sing 273 n n C5 H5 NDG sing 274 n n C6 O6 NDG sing 275 n n C6 H61 NDG sing 276 n n C6 H62 NDG sing 277 n n C7 C8 NDG sing 278 n n C7 O7 NDG doub 279 n n C7 N2 NDG sing 280 n n C8 H81 NDG sing 281 n n C8 H82 NDG sing 282 n n C8 H83 NDG sing 283 n n O3 HO3 NDG sing 284 n n O4 HO4 NDG sing 285 n n O6 HO6 NDG sing 286 n n N2 HN2 NDG sing 287 n n O1 HO1 NDG 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 NDG DGlcpNAca 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 NDG N-acetyl-a-D-glucopyranosamine 'COMMON NAME' GMML 1 NDG a-D-GlcpNAc 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 NDG GlcNAc 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 1N86 _atom_sites.fract_transf_matrix[1][1] 0.01911 _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] 0.007687 _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] 0.003352 _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 K 6 NDG B 1 470 470 NDG NAG . L 7 MAN B 1 472 472 MAN MAN . M 8 CA B 1 1 1 CA CA2 . N 8 CA C 1 3 3 CA CA2 . O 6 NDG E 1 570 470 NDG NAG . P 8 CA E 1 2 2 CA CA2 . Q 8 CA F 1 4 4 CA CA2 . R 6 NDG I 1 471 471 NDG NAG . S 6 NDG J 1 571 471 NDG 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 NDG . . . O 6 39.897 -1.663 188.978 1 153.69 ? C1 NDG 570 E 1 HETATM 2 C C2 NDG . . . O 6 40.308 -2.319 190.304 1 154.89 ? C2 NDG 570 E 1 HETATM 3 C C3 NDG . . . O 6 40.267 -1.276 191.43 1 152.26 ? C3 NDG 570 E 1 HETATM 4 C C4 NDG . . . O 6 41.09 -0.039 191.057 1 150.65 ? C4 NDG 570 E 1 HETATM 5 C C5 NDG . . . O 6 40.678 0.487 189.676 1 150.04 ? C5 NDG 570 E 1 HETATM 6 C C6 NDG . . . O 6 41.558 1.623 189.199 1 146.72 ? C6 NDG 570 E 1 HETATM 7 C C7 NDG . . . O 6 39.156 -4.369 189.718 1 156.48 ? C7 NDG 570 E 1 HETATM 8 C C8 NDG . . . O 6 37.822 -4.266 188.995 1 156.09 ? C8 NDG 570 E 1 HETATM 9 O O5 NDG . . . O 6 40.772 -0.564 188.689 1 150.93 ? O5 NDG 570 E 1 HETATM 10 O O3 NDG . . . O 6 40.78 -1.839 192.629 1 148.31 ? O3 NDG 570 E 1 HETATM 11 O O4 NDG . . . O 6 40.883 0.971 192.033 1 151.84 ? O4 NDG 570 E 1 HETATM 12 O O6 NDG . . . O 6 40.777 2.698 188.7 1 140.57 ? O6 NDG 570 E 1 HETATM 13 O O7 NDG . . . O 6 39.927 -5.296 189.458 1 154.09 ? O7 NDG 570 E 1 HETATM 14 N N2 NDG . . . O 6 39.427 -3.43 190.624 1 157.17 ? N2 NDG 570 E 1 HETATM 15 O O1 NDG . . . O 6 38.606 -1.168 189.081 1 150.72 ? O1 NDG 570 E 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 24 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 15 #