data_6C09 # _model_server_result.job_id ejkBX1mmqawjEu0Fg3fxSg _model_server_result.datetime_utc '2024-11-24 22:00:12' _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 6c09 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":301}' # _entry.id 6C09 # _exptl.entry_id 6C09 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 5 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 1 _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 6C09 _cell.length_a 173.17 _cell.length_b 173.17 _cell.length_c 82.47 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6C09 _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_and_software_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 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 105 A CYS 102 1_555 A SG CYS 170 A CYS 167 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? disulf ? disulf2 A SG CYS 210 A CYS 207 1_555 A SG CYS 265 A CYS 262 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? disulf ? disulf3 B SG CYS 28 B CYS 25 1_555 B SG CYS 83 B CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf4 C SG CYS 24 C CYS 23 1_555 C SG CYS 91 C CYS 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? disulf ? disulf5 C SG CYS 134 C CYS 150 1_555 C SG CYS 184 C CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf6 C SG CYS 159 C CYS 175 1_555 D SG CYS 174 D CYS 185 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.698 ? disulf ? disulf7 D SG CYS 24 D CYS 23 1_555 D SG CYS 93 D CYS 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? disulf ? disulf8 D SG CYS 148 D CYS 159 1_555 D SG CYS 213 D CYS 224 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? covale ? covale1 A ND2 ASN 23 A ASN 20 1_555 E C1 NAG . A NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? metalc ? metalc1 A OD1 ASP 244 A ASP 241 1_555 I K K . A K 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.796 ? metalc ? metalc2 D O SER 97 D SER 108 1_555 O K K . D K 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.042 ? metalc ? metalc3 D O ARG 102 D ARG 113 1_555 O K K . D K 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.986 ? # _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 337 n n C1 O1 NAG sing 338 n n C1 O5 NAG sing 339 n n C1 H1 NAG sing 340 n n C2 C3 NAG sing 341 n n C2 N2 NAG sing 342 n n C2 H2 NAG sing 343 n n C3 C4 NAG sing 344 n n C3 O3 NAG sing 345 n n C3 H3 NAG sing 346 n n C4 C5 NAG sing 347 n n C4 O4 NAG sing 348 n n C4 H4 NAG sing 349 n n C5 C6 NAG sing 350 n n C5 O5 NAG sing 351 n n C5 H5 NAG sing 352 n n C6 O6 NAG sing 353 n n C6 H61 NAG sing 354 n n C6 H62 NAG sing 355 n n C7 C8 NAG sing 356 n n C7 N2 NAG sing 357 n n C7 O7 NAG doub 358 n n C8 H81 NAG sing 359 n n C8 H82 NAG sing 360 n n C8 H83 NAG sing 361 n n N2 HN2 NAG sing 362 n n O1 HO1 NAG sing 363 n n O3 HO3 NAG sing 364 n n O4 HO4 NAG sing 365 n n O6 HO6 NAG sing 366 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 6C09 _atom_sites.fract_transf_matrix[1][1] 0.005775 _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] 0.006668 _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] 0.012126 _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 E 5 NAG A 1 301 301 NAG NAG . F 6 EKG A 1 302 2 EKG M16 . G 7 D10 A 1 303 101 D10 D10 . H 7 D10 A 1 304 201 D10 D10 . I 8 K A 1 305 91 K K . J 8 K A 1 306 101 K K . K 9 EDO C 1 301 1 EDO EDO . L 9 EDO C 1 302 3 EDO EDO . M 9 EDO C 1 303 5 EDO EDO . N 10 PEG C 1 304 712 PEG 1PE . O 8 K D 1 301 1 K K . P 11 HOH A 1 401 102 HOH HOH . P 11 HOH A 2 402 13 HOH HOH . P 11 HOH A 3 403 52 HOH HOH . Q 11 HOH B 1 201 25 HOH HOH . R 11 HOH C 1 401 19 HOH HOH . R 11 HOH C 2 402 1 HOH HOH . R 11 HOH C 3 403 24 HOH HOH . R 11 HOH C 4 404 23 HOH HOH . R 11 HOH C 5 405 17 HOH HOH . R 11 HOH C 6 406 9 HOH HOH . S 11 HOH D 1 401 6 HOH HOH . S 11 HOH D 2 402 42 HOH HOH . S 11 HOH D 3 403 51 HOH HOH . # 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 . . . E 5 91.642 -47.082 -36.245 1 131.08 ? C1 NAG 301 A 1 HETATM 2 C C2 NAG . . . E 5 91.15 -48.318 -37.006 1 133.08 ? C2 NAG 301 A 1 HETATM 3 C C3 NAG . . . E 5 90.217 -49.02 -36.021 1 136.68 ? C3 NAG 301 A 1 HETATM 4 C C4 NAG . . . E 5 90.999 -49.512 -34.803 1 138.37 ? C4 NAG 301 A 1 HETATM 5 C C5 NAG . . . E 5 91.77 -48.352 -34.163 1 138.73 ? C5 NAG 301 A 1 HETATM 6 C C6 NAG . . . E 5 92.831 -48.805 -33.18 1 140.2 ? C6 NAG 301 A 1 HETATM 7 C C7 NAG . . . E 5 91.054 -47.843 -39.442 1 130.35 ? C7 NAG 301 A 1 HETATM 8 C C8 NAG . . . E 5 90.195 -47.289 -40.54 1 129.87 ? C8 NAG 301 A 1 HETATM 9 N N2 NAG . . . E 5 90.455 -47.973 -38.238 1 131.89 ? N2 NAG 301 A 1 HETATM 10 O O3 NAG . . . E 5 89.522 -50.099 -36.646 1 136.96 ? O3 NAG 301 A 1 HETATM 11 O O4 NAG . . . E 5 90.135 -50.144 -33.854 1 136.73 ? O4 NAG 301 A 1 HETATM 12 O O5 NAG . . . E 5 92.45 -47.56 -35.164 1 135.49 ? O5 NAG 301 A 1 HETATM 13 O O6 NAG . . . E 5 93.938 -49.419 -33.834 1 140.57 ? O6 NAG 301 A 1 HETATM 14 O O7 NAG . . . E 5 92.234 -48.138 -39.628 1 129.22 ? O7 NAG 301 A 1 # _model_server_stats.io_time_ms 22 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 354 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #