data_6DC5 # _model_server_result.job_id w6ZPAn5TXJnHsu5IV0ZX5Q _model_server_result.datetime_utc '2024-10-17 17:40:36' _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 6dc5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":601}' # _entry.id 6DC5 # _exptl.entry_id 6DC5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 3 _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 6DC5 _cell.length_a 132.45 _cell.length_b 152.18 _cell.length_c 202.93 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6DC5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 2 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 ? trimeric 3 author_defined_assembly 1 ? trimeric 3 author_defined_assembly 2 ? trimeric 3 author_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,D,E,J,K,P,Q 1 1 B,F,G,L,M,R,S 2 1 C,H,I,N,O,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 ? 4 J N N ? 4 L N N ? 4 N 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 37 A CYS 37 1_555 A SG CYS 439 A CYS 439 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf2 A SG CYS 69 A CYS 69 1_555 A SG CYS 212 A CYS 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf3 A SG CYS 155 A CYS 155 1_555 A SG CYS 290 A CYS 290 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 A SG CYS 313 A CYS 313 1_555 A SG CYS 343 A CYS 343 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf5 A SG CYS 322 A CYS 322 1_555 A SG CYS 333 A CYS 333 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf6 A SG CYS 358 A CYS 358 1_555 A SG CYS 367 A CYS 367 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf7 A SG CYS 382 A CYS 382 1_555 A SG CYS 393 A CYS 393 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf8 A SG CYS 416 A CYS 416 1_555 A SG CYS 422 A CYS 422 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? disulf ? disulf9 B SG CYS 37 D CYS 37 1_555 B SG CYS 439 D CYS 439 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf10 B SG CYS 69 D CYS 69 1_555 B SG CYS 212 D CYS 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf11 B SG CYS 155 D CYS 155 1_555 B SG CYS 290 D CYS 290 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf12 B SG CYS 313 D CYS 313 1_555 B SG CYS 343 D CYS 343 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf13 B SG CYS 322 D CYS 322 1_555 B SG CYS 333 D CYS 333 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf14 B SG CYS 358 D CYS 358 1_555 B SG CYS 367 D CYS 367 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf15 B SG CYS 382 D CYS 382 1_555 B SG CYS 393 D CYS 393 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf16 B SG CYS 416 D CYS 416 1_555 B SG CYS 422 D CYS 422 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf17 C SG CYS 37 G CYS 37 1_555 C SG CYS 439 G CYS 439 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf18 C SG CYS 69 G CYS 69 1_555 C SG CYS 212 G CYS 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf19 C SG CYS 155 G CYS 155 1_555 C SG CYS 290 G CYS 290 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf20 C SG CYS 313 G CYS 313 1_555 C SG CYS 343 G CYS 343 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf21 C SG CYS 322 G CYS 322 1_555 C SG CYS 333 G CYS 333 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf22 C SG CYS 358 G CYS 358 1_555 C SG CYS 367 G CYS 367 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf23 C SG CYS 382 G CYS 382 1_555 C SG CYS 393 G CYS 393 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf24 C SG CYS 416 G CYS 416 1_555 C SG CYS 422 G CYS 422 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf25 D SG CYS 22 B CYS 22 1_555 D SG CYS 96 B CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf26 D SG CYS 151 B CYS 140 1_555 D SG CYS 207 B CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf27 E SG CYS 23 C CYS 23 1_555 E SG CYS 89 C CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf28 E SG CYS 135 C CYS 134 1_555 E SG CYS 195 C CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf29 F SG CYS 22 E CYS 22 1_555 F SG CYS 96 E CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf30 F SG CYS 151 E CYS 140 1_555 F SG CYS 207 E CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf31 G SG CYS 23 F CYS 23 1_555 G SG CYS 89 F CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf32 G SG CYS 135 F CYS 134 1_555 G SG CYS 195 F CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf33 H SG CYS 22 H CYS 22 1_555 H SG CYS 96 H CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf34 H SG CYS 151 H CYS 140 1_555 H SG CYS 207 H CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf35 H SG CYS 227 H CYS 216 1_555 I SG CYS 215 I CYS 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf36 I SG CYS 23 I CYS 23 1_555 I SG CYS 89 I CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf37 I SG CYS 135 I CYS 134 1_555 I SG CYS 195 I CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? covale ? covale1 A ND2 ASN 70 A ASN 70 1_555 J C1 NAG . A NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale2 B ND2 ASN 70 D ASN 70 1_555 L C1 NAG . D NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale3 C ND2 ASN 70 G ASN 70 1_555 N C1 NAG . G NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? # _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 6DC5 _atom_sites.fract_transf_matrix[1][1] 0.00755 _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] 0.006571 _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] 0.004928 _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 J 4 NAG A 1 601 570 NAG NAG . K 5 CD A 1 602 2 CD CD . L 4 NAG D 1 601 570 NAG NAG . M 5 CD D 1 602 3 CD CD . N 4 NAG G 1 601 570 NAG NAG . O 5 CD G 1 602 1 CD CD . P 6 PEG C 1 301 3 PEG PEG . Q 6 PEG C 1 302 6 PEG PEG . R 6 PEG F 1 301 1 PEG PEG . S 6 PEG F 1 302 4 PEG PEG . T 6 PEG I 1 301 2 PEG PEG . U 6 PEG I 1 302 5 PEG PEG . # 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 . . . J 4 -67.414 45.806 -27.953 1 43.63 ? C1 NAG 601 A 1 HETATM 2 C C2 NAG . . . J 4 -67.135 47.32 -27.958 1 55.94 ? C2 NAG 601 A 1 HETATM 3 C C3 NAG . . . J 4 -68.412 48.097 -27.635 1 52 ? C3 NAG 601 A 1 HETATM 4 C C4 NAG . . . J 4 -69.542 47.677 -28.566 1 56.72 ? C4 NAG 601 A 1 HETATM 5 C C5 NAG . . . J 4 -69.725 46.16 -28.526 1 52.43 ? C5 NAG 601 A 1 HETATM 6 C C6 NAG . . . J 4 -70.756 45.658 -29.511 1 56.54 ? C6 NAG 601 A 1 HETATM 7 C C7 NAG . . . J 4 -65.039 48.445 -27.328 1 63.34 ? C7 NAG 601 A 1 HETATM 8 C C8 NAG . . . J 4 -64.042 48.679 -26.231 1 61.56 ? C8 NAG 601 A 1 HETATM 9 N N2 NAG . . . J 4 -66.076 47.658 -27.018 1 58.85 ? N2 NAG 601 A 1 HETATM 10 O O3 NAG . . . J 4 -68.172 49.495 -27.758 1 54.32 ? O3 NAG 601 A 1 HETATM 11 O O4 NAG . . . J 4 -70.755 48.315 -28.178 1 54.61 ? O4 NAG 601 A 1 HETATM 12 O O5 NAG . . . J 4 -68.49 45.509 -28.86 1 49.94 ? O5 NAG 601 A 1 HETATM 13 O O6 NAG . . . J 4 -70.363 44.419 -30.088 1 56.66 ? O6 NAG 601 A 1 HETATM 14 O O7 NAG . . . J 4 -64.91 48.945 -28.443 1 64.22 ? O7 NAG 601 A 1 # _model_server_stats.io_time_ms 46 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 28 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 14 #