data_5W6G # _model_server_result.job_id e7PIFNUYN4mAIwEtgm3TFg _model_server_result.datetime_utc '2024-11-23 21:20:49' _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 5w6g # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":406}' # _entry.id 5W6G # _exptl.entry_id 5W6G _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-beta-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 5W6G _cell.length_a 177.31 _cell.length_b 177.31 _cell.length_c 177.31 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5W6G _symmetry.cell_setting ? _symmetry.Int_Tables_number 198 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 3' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dodecameric _pdbx_struct_assembly.oligomeric_count 12 _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,T _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 8_544 -z,x-1/2,-y-1/2 0 0 -1 1 0 0 0 -1 0 0 -88.655 -88.655 3 'crystal symmetry operation' 11_545 y+1/2,-z-1/2,-x 0 1 0 0 0 -1 -1 0 0 88.655 -88.655 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 6 F N N ? 6 G N N ? 6 H N N ? 6 I N N # _pdbx_entity_branch.entity_id 5 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 5 _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 5 n E NAG 1 C 1 NAG A 9091 NAG 5 n E NAG 2 C 2 NAG A 8091 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 12 A CYS 8 1_555 B SG CYS 137 B CYS 637 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf2 A SG CYS 50 A CYS 46 1_555 A SG CYS 282 A CYS 278 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? disulf ? disulf3 A SG CYS 63 A CYS 59 1_555 A SG CYS 75 A CYS 71 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf4 A SG CYS 98 A CYS 94 1_555 A SG CYS 143 A CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.107 ? disulf ? disulf5 A SG CYS 286 A CYS 282 1_555 A SG CYS 310 A CYS 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf6 B SG CYS 144 B CYS 644 1_555 B SG CYS 148 B CYS 648 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf7 C SG CYS 22 H CYS 22 1_555 C SG CYS 97 H CYS 97 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? disulf ? disulf8 C SG CYS 152 H CYS 152 1_555 C SG CYS 208 H CYS 208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf9 D SG CYS 22 L CYS 22 1_555 D SG CYS 90 L CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? disulf ? disulf10 D SG CYS 140 L CYS 140 1_555 D SG CYS 199 L CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? covale ? covale1 A ND2 ASN 31 A ASN 27 1_555 I C1 NAG . A NAG 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale2 A ND2 ASN 62 A ASN 58 1_555 F C1 NAG . A NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? covale ? covale3 A ND2 ASN 95 A ASN 91 1_555 E C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale4 A ND2 ASN 133 A ASN 129 1_555 G C1 NAG . A NAG 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale5 A ND2 ASN 294 A ASN 290 1_555 H C1 NAG . A NAG 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale6 E O4 NAG . C NAG 1 1_555 E C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.424 ? # _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 250 n n C1 O1 NAG sing 251 n n C1 O5 NAG sing 252 n n C1 H1 NAG sing 253 n n C2 C3 NAG sing 254 n n C2 N2 NAG sing 255 n n C2 H2 NAG sing 256 n n C3 C4 NAG sing 257 n n C3 O3 NAG sing 258 n n C3 H3 NAG sing 259 n n C4 C5 NAG sing 260 n n C4 O4 NAG sing 261 n n C4 H4 NAG sing 262 n n C5 C6 NAG sing 263 n n C5 O5 NAG sing 264 n n C5 H5 NAG sing 265 n n C6 O6 NAG sing 266 n n C6 H61 NAG sing 267 n n C6 H62 NAG sing 268 n n C7 C8 NAG sing 269 n n C7 N2 NAG sing 270 n n C7 O7 NAG doub 271 n n C8 H81 NAG sing 272 n n C8 H82 NAG sing 273 n n C8 H83 NAG sing 274 n n N2 HN2 NAG sing 275 n n O1 HO1 NAG sing 276 n n O3 HO3 NAG sing 277 n n O4 HO4 NAG sing 278 n n O6 HO6 NAG sing 279 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 5W6G _atom_sites.fract_transf_matrix[1][1] 0.00564 _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] 0.00564 _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] 0.00564 _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 F 6 NAG A 1 403 9058 NAG NAG . G 6 NAG A 1 404 9129 NAG NAG . H 6 NAG A 1 405 9290 NAG NAG . I 6 NAG A 1 406 9291 NAG NAG . J 7 SO4 A 1 407 1 SO4 SO4 . K 7 SO4 A 1 408 2 SO4 SO4 . L 7 SO4 A 1 409 3 SO4 SO4 . M 7 SO4 A 1 410 4 SO4 SO4 . N 7 SO4 A 1 411 5 SO4 SO4 . O 7 SO4 A 1 412 6 SO4 SO4 . P 8 GOL A 1 413 1 GOL GOL . Q 8 GOL A 1 414 2 GOL GOL . R 9 HOH A 1 501 11 HOH HOH . R 9 HOH A 2 502 5 HOH HOH . R 9 HOH A 3 503 9 HOH HOH . R 9 HOH A 4 504 8 HOH HOH . R 9 HOH A 5 505 18 HOH HOH . R 9 HOH A 6 506 27 HOH HOH . R 9 HOH A 7 507 10 HOH HOH . S 9 HOH H 1 301 12 HOH HOH . S 9 HOH H 2 302 7 HOH HOH . T 9 HOH L 1 301 13 HOH HOH . T 9 HOH L 2 302 2 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 . . . I 6 7.031 -45.869 -27.905 1 130.54 ? C1 NAG 406 A 1 HETATM 2 C C2 NAG . . . I 6 6.423 -45 -29.01 1 133.26 ? C2 NAG 406 A 1 HETATM 3 C C3 NAG . . . I 6 5.682 -43.84 -28.337 1 134.28 ? C3 NAG 406 A 1 HETATM 4 C C4 NAG . . . I 6 4.617 -44.354 -27.367 1 135.03 ? C4 NAG 406 A 1 HETATM 5 C C5 NAG . . . I 6 5.202 -45.377 -26.388 1 134.61 ? C5 NAG 406 A 1 HETATM 6 C C6 NAG . . . I 6 4.142 -46.12 -25.594 1 133.89 ? C6 NAG 406 A 1 HETATM 7 C C7 NAG . . . I 6 7.609 -44.948 -31.181 1 134.33 ? C7 NAG 406 A 1 HETATM 8 C C8 NAG . . . I 6 8.64 -44.227 -31.997 1 133.84 ? C8 NAG 406 A 1 HETATM 9 N N2 NAG . . . I 6 7.433 -44.494 -29.928 1 134.2 ? N2 NAG 406 A 1 HETATM 10 O O3 NAG . . . I 6 5.089 -42.99 -29.318 1 133.25 ? O3 NAG 406 A 1 HETATM 11 O O4 NAG . . . I 6 4.05 -43.255 -26.656 1 134.3 ? O4 NAG 406 A 1 HETATM 12 O O5 NAG . . . I 6 5.963 -46.378 -27.098 1 133.07 ? O5 NAG 406 A 1 HETATM 13 O O6 NAG . . . I 6 4.693 -47.17 -24.803 1 132.72 ? O6 NAG 406 A 1 HETATM 14 O O7 NAG . . . I 6 6.969 -45.895 -31.632 1 134.31 ? O7 NAG 406 A 1 # _model_server_stats.io_time_ms 50 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 271 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 14 #