data_5TOJ # _model_server_result.job_id BFSfQzqu_vNbcRm_ZNl4iw _model_server_result.datetime_utc '2024-11-16 22:42:27' _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 5toj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":800}' # _entry.id 5TOJ # _exptl.entry_id 5TOJ _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 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 120 _cell.entry_id 5TOJ _cell.length_a 173.189 _cell.length_b 173.189 _cell.length_c 153.301 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5TOJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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 _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 ? 3 G N N ? 3 H N N ? 3 I 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 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 A SG CYS 155 A CYS 155 1_555 A SG CYS 290 A CYS 290 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf4 A SG CYS 313 A CYS 313 1_555 A SG CYS 343 A CYS 343 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf5 A SG CYS 322 A CYS 322 1_555 A SG CYS 333 A CYS 333 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf6 A SG CYS 358 A CYS 358 1_555 A SG CYS 367 A CYS 367 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf7 A SG CYS 382 A CYS 382 1_555 A SG CYS 393 A CYS 393 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf8 A SG CYS 416 A CYS 416 1_555 A SG CYS 422 A CYS 422 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf9 B SG CYS 37 B CYS 37 1_555 B SG CYS 439 B CYS 439 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf10 B SG CYS 69 B CYS 69 1_555 B SG CYS 212 B CYS 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf11 B SG CYS 155 B CYS 155 1_555 B SG CYS 290 B CYS 290 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf12 B SG CYS 313 B CYS 313 1_555 B SG CYS 343 B CYS 343 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf13 B SG CYS 322 B CYS 322 1_555 B SG CYS 333 B CYS 333 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf14 B SG CYS 358 B CYS 358 1_555 B SG CYS 367 B CYS 367 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf15 B SG CYS 382 B CYS 382 1_555 B SG CYS 393 B CYS 393 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf16 B SG CYS 416 B CYS 416 1_555 B SG CYS 422 B CYS 422 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf17 C SG CYS 37 C CYS 37 1_555 C SG CYS 439 C CYS 439 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf18 C SG CYS 69 C CYS 69 1_555 C SG CYS 212 C CYS 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf19 C SG CYS 155 C CYS 155 1_555 C SG CYS 290 C CYS 290 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf20 C SG CYS 313 C CYS 313 1_555 C SG CYS 343 C CYS 343 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf21 C SG CYS 322 C CYS 322 1_555 C SG CYS 333 C CYS 333 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf22 C SG CYS 358 C CYS 358 1_555 C SG CYS 367 C CYS 367 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf23 C SG CYS 382 C CYS 382 1_555 C SG CYS 393 C CYS 393 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf24 C SG CYS 416 C CYS 416 1_555 C SG CYS 422 C CYS 422 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf25 D SG CYS 22 D CYS 22 1_555 D SG CYS 96 D CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf26 D SG CYS 50 D CYS 50 1_555 D SG CYS 107 D CYS 100 1_555 ? ? ? C ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf27 E SG CYS 22 E CYS 22 1_555 E SG CYS 96 E CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf28 E SG CYS 50 E CYS 50 1_555 E SG CYS 107 E CYS 100 1_555 ? ? ? C ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf29 F SG CYS 22 F CYS 22 1_555 F SG CYS 96 F CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf30 F SG CYS 50 F CYS 50 1_555 F SG CYS 107 F CYS 100 1_555 ? ? ? C ? ? ? ? ? ? ? ? 2.024 ? covale ? covale1 A ND2 ASN 500 A ASN 500 1_555 G C1 NAG . A NAG 800 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale2 B ND2 ASN 500 B ASN 500 1_555 H C1 NAG . B NAG 800 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale3 C ND2 ASN 500 C ASN 500 1_555 I C1 NAG . C NAG 800 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? # _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 5TOJ _atom_sites.fract_transf_matrix[1][1] 0.005774 _atom_sites.fract_transf_matrix[1][2] 0.003334 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006667 _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] 0.006523 _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 G 3 NAG A 1 800 800 NAG NAG . H 3 NAG B 1 800 800 NAG NAG . I 3 NAG C 1 800 800 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 . . . H 3 58.563 -60.736 183.982 1 109.94 ? C1 NAG 800 B 1 HETATM 2 C C2 NAG . . . H 3 58.67 -61.774 182.87 1 116.18 ? C2 NAG 800 B 1 HETATM 3 C C3 NAG . . . H 3 58.966 -63.147 183.466 1 119.82 ? C3 NAG 800 B 1 HETATM 4 C C4 NAG . . . H 3 60.224 -63.086 184.324 1 122.93 ? C4 NAG 800 B 1 HETATM 5 C C5 NAG . . . H 3 60.095 -61.989 185.38 1 123.16 ? C5 NAG 800 B 1 HETATM 6 C C6 NAG . . . H 3 61.37 -61.773 186.164 1 126.21 ? C6 NAG 800 B 1 HETATM 7 C C7 NAG . . . H 3 57.235 -60.97 181.047 1 117.85 ? C7 NAG 800 B 1 HETATM 8 C C8 NAG . . . H 3 55.942 -61.159 180.312 1 117.25 ? C8 NAG 800 B 1 HETATM 9 N N2 NAG . . . H 3 57.464 -61.814 182.058 1 118.43 ? N2 NAG 800 B 1 HETATM 10 O O3 NAG . . . H 3 59.123 -64.102 182.423 1 118.4 ? O3 NAG 800 B 1 HETATM 11 O O4 NAG . . . H 3 60.44 -64.335 184.972 1 122.81 ? O4 NAG 800 B 1 HETATM 12 O O5 NAG . . . H 3 59.778 -60.734 184.757 1 117.91 ? O5 NAG 800 B 1 HETATM 13 O O6 NAG . . . H 3 61.745 -60.402 186.192 1 126.82 ? O6 NAG 800 B 1 HETATM 14 O O7 NAG . . . H 3 58.033 -60.088 180.742 1 116.92 ? O7 NAG 800 B 1 # _model_server_stats.io_time_ms 32 _model_server_stats.parse_time_ms 44 _model_server_stats.create_model_time_ms 68 _model_server_stats.query_time_ms 528 _model_server_stats.encode_time_ms 16 _model_server_stats.element_count 14 #