data_4JUL # _model_server_result.job_id 14258bfDU3AxjIQWQM9gyw _model_server_result.datetime_utc '2024-10-19 19:22:00' _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 4jul # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"R","auth_seq_id":401}' # _entry.id 4JUL # _exptl.entry_id 4JUL _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 8 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 83.94 _cell.angle_beta 85.46 _cell.angle_gamma 60.68 _cell.entry_id 4JUL _cell.length_a 71.584 _cell.length_b 71.557 _cell.length_c 247.054 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4JUL _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA hexameric 6 author_and_software_defined_assembly 1 PISA hexameric 6 author_and_software_defined_assembly 2 # 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,M,N,Q,R,S,T 1 1 G,H,I,J,K,L,O,P,U,V,W,X 2 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 Q N N ? 4 R N N ? 4 S N N ? 4 T N N ? 4 U N N ? 4 V N N ? 4 W N N ? 4 X N N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 3 _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 3 n M NAG 1 G 1 NAG A 402 NAG 3 n M NAG 2 G 2 NAG A 403 NAG 3 n N NAG 1 N 1 NAG E 402 NAG 3 n N NAG 2 N 2 NAG E 403 NAG 3 n O NAG 1 O 1 NAG H 402 NAG 3 n O NAG 2 O 2 NAG H 403 NAG 3 n P NAG 1 P 1 NAG L 402 NAG 3 n P NAG 2 P 2 NAG D 201 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 10 A CYS 14 1_555 B SG CYS 137 B CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf2 A SG CYS 48 A CYS 52 1_555 A SG CYS 280 A CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? disulf ? disulf3 A SG CYS 61 A CYS 64 1_555 A SG CYS 73 A CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf4 A SG CYS 96 A CYS 97 1_555 A SG CYS 141 A CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? disulf ? disulf5 A SG CYS 284 A CYS 281 1_555 A SG CYS 308 A CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf6 B SG CYS 144 B CYS 144 1_555 B SG CYS 148 B CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.998 ? disulf ? disulf7 C SG CYS 10 C CYS 14 1_555 D SG CYS 137 D CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.104 ? disulf ? disulf8 C SG CYS 48 C CYS 52 1_555 C SG CYS 280 C CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? disulf ? disulf9 C SG CYS 61 C CYS 64 1_555 C SG CYS 73 C CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? disulf ? disulf10 C SG CYS 96 C CYS 97 1_555 C SG CYS 141 C CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf11 C SG CYS 284 C CYS 281 1_555 C SG CYS 308 C CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf12 D SG CYS 144 D CYS 144 1_555 D SG CYS 148 D CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf13 E SG CYS 10 E CYS 14 1_555 F SG CYS 137 F CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.088 ? disulf ? disulf14 E SG CYS 48 E CYS 52 1_555 E SG CYS 280 E CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf15 E SG CYS 61 E CYS 64 1_555 E SG CYS 73 E CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? disulf ? disulf16 E SG CYS 96 E CYS 97 1_555 E SG CYS 141 E CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? disulf ? disulf17 E SG CYS 284 E CYS 281 1_555 E SG CYS 308 E CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? disulf ? disulf18 F SG CYS 144 F CYS 144 1_555 F SG CYS 148 F CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf19 G SG CYS 10 H CYS 14 1_555 H SG CYS 137 I CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.098 ? disulf ? disulf20 G SG CYS 48 H CYS 52 1_555 G SG CYS 280 H CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? disulf ? disulf21 G SG CYS 61 H CYS 64 1_555 G SG CYS 73 H CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? disulf ? disulf22 G SG CYS 96 H CYS 97 1_555 G SG CYS 141 H CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? disulf ? disulf23 G SG CYS 284 H CYS 281 1_555 G SG CYS 308 H CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? disulf ? disulf24 H SG CYS 144 I CYS 144 1_555 H SG CYS 148 I CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? disulf ? disulf25 I SG CYS 10 J CYS 14 1_555 J SG CYS 137 K CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf26 I SG CYS 48 J CYS 52 1_555 I SG CYS 280 J CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? disulf ? disulf27 I SG CYS 61 J CYS 64 1_555 I SG CYS 73 J CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? disulf ? disulf28 I SG CYS 96 J CYS 97 1_555 I SG CYS 141 J CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf29 I SG CYS 284 J CYS 281 1_555 I SG CYS 308 J CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf30 J SG CYS 144 K CYS 144 1_555 J SG CYS 148 K CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? disulf ? disulf31 K SG CYS 10 L CYS 14 1_555 L SG CYS 137 M CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf32 K SG CYS 48 L CYS 52 1_555 K SG CYS 280 L CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? disulf ? disulf33 K SG CYS 61 L CYS 64 1_555 K SG CYS 73 L CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? disulf ? disulf34 K SG CYS 96 L CYS 97 1_555 K SG CYS 141 L CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf35 K SG CYS 284 L CYS 281 1_555 K SG CYS 308 L CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? disulf ? disulf36 L SG CYS 144 M CYS 144 1_555 L SG CYS 148 M CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? covale ? covale1 A ND2 ASN 29 A ASN 34 1_555 Q C1 NAG . A NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.656 ? covale ? covale2 A ND2 ASN 171 A ASN 169 1_555 M C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? covale ? covale3 C ND2 ASN 29 C ASN 34 1_555 R C1 NAG . C NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.633 ? covale ? covale4 C ND2 ASN 171 C ASN 169 1_555 S C1 NAG . C NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.603 ? covale ? covale5 E ND2 ASN 29 E ASN 34 1_555 T C1 NAG . E NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.789 ? covale ? covale6 E ND2 ASN 171 E ASN 169 1_555 N C1 NAG . N NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale7 G ND2 ASN 29 H ASN 34 1_555 U C1 NAG . H NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.791 ? covale ? covale8 G ND2 ASN 171 H ASN 169 1_555 O C1 NAG . O NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.283 ? covale ? covale9 I ND2 ASN 29 J ASN 34 1_555 V C1 NAG . J NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.788 ? covale ? covale10 I ND2 ASN 171 J ASN 169 1_555 W C1 NAG . J NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.523 ? covale ? covale11 K ND2 ASN 29 L ASN 34 1_555 X C1 NAG . L NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.591 ? covale ? covale12 K ND2 ASN 171 L ASN 169 1_555 P C1 NAG . P NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.646 ? covale ? covale13 M O4 NAG . G NAG 1 1_555 M C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.427 ? covale ? covale14 N O4 NAG . N NAG 1 1_555 N C1 NAG . N NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.624 ? covale ? covale15 O O4 NAG . O NAG 1 1_555 O C1 NAG . O NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.513 ? covale ? covale16 P O4 NAG . P NAG 1 1_555 P C1 NAG . P NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.691 ? # _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 4JUL _atom_sites.fract_transf_matrix[1][1] 0.01397 _atom_sites.fract_transf_matrix[1][2] -0.007846 _atom_sites.fract_transf_matrix[1][3] -0.000508 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016028 _atom_sites.fract_transf_matrix[2][3] -0.001236 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.004072 _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 Q 4 NAG A 1 401 401 NAG NAG . R 4 NAG C 1 401 401 NAG NAG . S 4 NAG C 1 402 402 NAG NAG . T 4 NAG E 1 401 401 NAG NAG . U 4 NAG H 1 401 401 NAG NAG . V 4 NAG J 1 401 401 NAG NAG . W 4 NAG J 1 402 402 NAG NAG . X 4 NAG L 1 402 401 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 . . . R 4 0.745 -6.649 -2.49 1 84.75 ? C1 NAG 401 C 1 HETATM 2 C C2 NAG . . . R 4 -0.34 -5.625 -2.122 1 88.26 ? C2 NAG 401 C 1 HETATM 3 C C3 NAG . . . R 4 -1.218 -6.186 -0.986 1 98.87 ? C3 NAG 401 C 1 HETATM 4 C C4 NAG . . . R 4 -1.709 -7.602 -1.324 1 94.14 ? C4 NAG 401 C 1 HETATM 5 C C5 NAG . . . R 4 -0.481 -8.499 -1.56 1 93.6 ? C5 NAG 401 C 1 HETATM 6 C C6 NAG . . . R 4 -0.809 -9.983 -1.77 1 94.63 ? C6 NAG 401 C 1 HETATM 7 C C7 NAG . . . R 4 0.041 -3.297 -2.576 1 85.64 ? C7 NAG 401 C 1 HETATM 8 C C8 NAG . . . R 4 0.665 -1.971 -2.256 1 83.57 ? C8 NAG 401 C 1 HETATM 9 N N2 NAG . . . R 4 0.284 -4.344 -1.77 1 84.76 ? N2 NAG 401 C 1 HETATM 10 O O3 NAG . . . R 4 -2.328 -5.313 -0.835 1 98.04 ? O3 NAG 401 C 1 HETATM 11 O O4 NAG . . . R 4 -2.607 -8.172 -0.385 1 86.33 ? O4 NAG 401 C 1 HETATM 12 O O5 NAG . . . R 4 0.239 -7.969 -2.669 1 88.58 ? O5 NAG 401 C 1 HETATM 13 O O6 NAG . . . R 4 -2.072 -10.154 -2.377 1 89.47 ? O6 NAG 401 C 1 HETATM 14 O O7 NAG . . . R 4 -0.667 -3.372 -3.571 1 82.43 ? O7 NAG 401 C 1 # _model_server_stats.io_time_ms 77 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 170 _model_server_stats.query_time_ms 334 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 14 #