data_1KJ2 # _model_server_result.job_id G7ybL_X5jUiwifj39vnQDw _model_server_result.datetime_utc '2024-11-08 16:02:48' _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 1kj2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":301}' # _entry.id 1KJ2 # _exptl.entry_id 1KJ2 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 7 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 108.23 _cell.angle_gamma 90 _cell.entry_id 1KJ2 _cell.length_a 89.2 _cell.length_b 77.92 _cell.length_c 132.96 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1KJ2 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 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 ? pentameric 5 author_defined_assembly 1 ? pentameric 5 author_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,K,L,N,O,P,Q,R 1 1 F,G,H,I,J,M,S,T,U,V,W 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 ? 7 L N N ? 7 M N N # _pdbx_entity_branch.entity_id 6 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 6 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 6 3 2 MAN NAG C1 O1 . O4 HO4 . sing 3 ? 6 4 3 MAN MAN C1 O1 . O6 HO6 . sing 4 ? 6 5 4 NAG MAN C1 O1 . O2 HO2 . sing 5 ? 6 6 5 GAL NAG C1 O1 . O4 HO4 . sing 6 ? 6 7 6 SIA GAL C2 O2 . O3 HO3 . sing 7 ? 6 8 3 MAN MAN C1 O1 . O3 HO3 . 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 6 n K NAG 1 C 1 NAG ? 201 NAG 6 n K NAG 2 C 2 NAG ? 202 NAG 6 n K MAN 3 C 3 MAN ? 203 MAN 6 n K MAN 4 C 4 MAN ? 204 MAN 6 n K NAG 5 C 5 NAG ? 205 NAG 6 n K GAL 6 C 6 GAL ? 206 GAL 6 n K SIA 7 C 7 SIA ? 207 SIA 6 n K MAN 8 C 8 MAN ? 208 MAN # 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 101 H CYS 101 1_555 A SG CYS 164 H CYS 164 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? disulf ? disulf2 A SG CYS 203 H CYS 203 1_555 A SG CYS 259 H CYS 259 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf3 C SG CYS 25 L CYS 25 1_555 C SG CYS 80 L CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 D SG CYS 22 A CYS 22 1_555 D SG CYS 89 A CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 E SG CYS 23 B CYS 23 1_555 E SG CYS 91 B CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf6 F SG CYS 101 I CYS 101 1_555 F SG CYS 164 I CYS 164 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf7 F SG CYS 203 I CYS 203 1_555 F SG CYS 259 I CYS 259 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf8 H SG CYS 25 M CYS 25 1_555 H SG CYS 80 M CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf9 I SG CYS 22 D CYS 22 1_555 I SG CYS 89 D CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf10 J SG CYS 23 E CYS 23 1_555 J SG CYS 91 E CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? covale ? covale1 D ND2 ASN 21 A ASN 21 1_555 K C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale2 E ND2 ASN 82 B ASN 81 1_555 L C1 NAG . B NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale3 J ND2 ASN 82 E ASN 81 1_555 M C1 NAG . E NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale4 K O4 NAG . C NAG 1 1_555 K C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.39 ? covale ? covale5 K O4 NAG . C NAG 2 1_555 K C1 MAN . C MAN 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.388 ? covale ? covale6 K O6 MAN . C MAN 3 1_555 K C1 MAN . C MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.417 ? covale ? covale7 K O3 MAN . C MAN 3 1_555 K C1 MAN . C MAN 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.397 ? covale ? covale8 K O2 MAN . C MAN 4 1_555 K C1 NAG . C NAG 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.39 ? covale ? covale9 K O4 NAG . C NAG 5 1_555 K C1 GAL . C GAL 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.402 ? covale ? covale10 K O3 GAL . C GAL 6 1_555 K C2 SIA . C SIA 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.4 ? # _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 285 n n C1 O1 NAG sing 286 n n C1 O5 NAG sing 287 n n C1 H1 NAG sing 288 n n C2 C3 NAG sing 289 n n C2 N2 NAG sing 290 n n C2 H2 NAG sing 291 n n C3 C4 NAG sing 292 n n C3 O3 NAG sing 293 n n C3 H3 NAG sing 294 n n C4 C5 NAG sing 295 n n C4 O4 NAG sing 296 n n C4 H4 NAG sing 297 n n C5 C6 NAG sing 298 n n C5 O5 NAG sing 299 n n C5 H5 NAG sing 300 n n C6 O6 NAG sing 301 n n C6 H61 NAG sing 302 n n C6 H62 NAG sing 303 n n C7 C8 NAG sing 304 n n C7 N2 NAG sing 305 n n C7 O7 NAG doub 306 n n C8 H81 NAG sing 307 n n C8 H82 NAG sing 308 n n C8 H83 NAG sing 309 n n N2 HN2 NAG sing 310 n n O1 HO1 NAG sing 311 n n O3 HO3 NAG sing 312 n n O4 HO4 NAG sing 313 n n O6 HO6 NAG sing 314 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 1KJ2 _atom_sites.fract_transf_matrix[1][1] 0.011211 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003692 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012834 _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] 0.007919 _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 L 7 NAG B 1 301 301 NAG NAG . M 7 NAG E 1 401 401 NAG NAG . N 8 HOH H 1 278 2 HOH HOH . N 8 HOH H 2 279 3 HOH HOH . N 8 HOH H 3 280 5 HOH HOH . N 8 HOH H 4 281 6 HOH HOH . N 8 HOH H 5 282 15 HOH HOH . N 8 HOH H 6 283 17 HOH HOH . N 8 HOH H 7 284 18 HOH HOH . N 8 HOH H 8 285 19 HOH HOH . N 8 HOH H 9 286 22 HOH HOH . N 8 HOH H 10 287 35 HOH HOH . N 8 HOH H 11 288 36 HOH HOH . N 8 HOH H 12 289 39 HOH HOH . N 8 HOH H 13 290 42 HOH HOH . N 8 HOH H 14 291 46 HOH HOH . N 8 HOH H 15 292 49 HOH HOH . N 8 HOH H 16 293 50 HOH HOH . N 8 HOH H 17 294 56 HOH HOH . N 8 HOH H 18 295 61 HOH HOH . N 8 HOH H 19 296 72 HOH HOH . N 8 HOH H 20 297 74 HOH HOH . N 8 HOH H 21 298 88 HOH HOH . N 8 HOH H 22 299 91 HOH HOH . O 8 HOH P 1 9 8 HOH HOH . O 8 HOH P 2 10 9 HOH HOH . P 8 HOH L 1 100 7 HOH HOH . P 8 HOH L 2 101 16 HOH HOH . P 8 HOH L 3 102 20 HOH HOH . P 8 HOH L 4 103 27 HOH HOH . P 8 HOH L 5 104 28 HOH HOH . P 8 HOH L 6 105 30 HOH HOH . P 8 HOH L 7 106 37 HOH HOH . P 8 HOH L 8 107 52 HOH HOH . P 8 HOH L 9 108 55 HOH HOH . P 8 HOH L 10 109 66 HOH HOH . P 8 HOH L 11 110 75 HOH HOH . P 8 HOH L 12 111 80 HOH HOH . Q 8 HOH A 1 209 11 HOH HOH . Q 8 HOH A 2 210 41 HOH HOH . Q 8 HOH A 3 211 63 HOH HOH . Q 8 HOH A 4 212 68 HOH HOH . Q 8 HOH A 5 213 76 HOH HOH . R 8 HOH B 1 302 12 HOH HOH . R 8 HOH B 2 303 13 HOH HOH . R 8 HOH B 3 304 25 HOH HOH . R 8 HOH B 4 305 32 HOH HOH . R 8 HOH B 5 306 40 HOH HOH . R 8 HOH B 6 307 58 HOH HOH . R 8 HOH B 7 308 62 HOH HOH . R 8 HOH B 8 309 69 HOH HOH . R 8 HOH B 9 310 71 HOH HOH . R 8 HOH B 10 311 79 HOH HOH . S 8 HOH I 1 278 1 HOH HOH . S 8 HOH I 2 279 4 HOH HOH . S 8 HOH I 3 280 10 HOH HOH . S 8 HOH I 4 281 23 HOH HOH . S 8 HOH I 5 282 26 HOH HOH . S 8 HOH I 6 283 31 HOH HOH . S 8 HOH I 7 284 44 HOH HOH . S 8 HOH I 8 285 47 HOH HOH . S 8 HOH I 9 286 48 HOH HOH . S 8 HOH I 10 287 53 HOH HOH . S 8 HOH I 11 288 54 HOH HOH . S 8 HOH I 12 289 57 HOH HOH . S 8 HOH I 13 290 59 HOH HOH . S 8 HOH I 14 291 60 HOH HOH . S 8 HOH I 15 292 64 HOH HOH . S 8 HOH I 16 293 73 HOH HOH . S 8 HOH I 17 294 77 HOH HOH . S 8 HOH I 18 295 81 HOH HOH . T 8 HOH Q 1 24 24 HOH HOH . T 8 HOH Q 2 33 33 HOH HOH . T 8 HOH Q 3 85 85 HOH HOH . U 8 HOH M 1 100 14 HOH HOH . U 8 HOH M 2 101 21 HOH HOH . U 8 HOH M 3 102 38 HOH HOH . U 8 HOH M 4 103 43 HOH HOH . U 8 HOH M 5 104 45 HOH HOH . U 8 HOH M 6 105 82 HOH HOH . V 8 HOH D 1 117 34 HOH HOH . V 8 HOH D 2 118 51 HOH HOH . V 8 HOH D 3 119 67 HOH HOH . V 8 HOH D 4 120 78 HOH HOH . V 8 HOH D 5 121 84 HOH HOH . V 8 HOH D 6 122 89 HOH HOH . W 8 HOH E 1 402 29 HOH HOH . W 8 HOH E 2 403 65 HOH HOH . W 8 HOH E 3 404 70 HOH HOH . W 8 HOH E 4 405 83 HOH HOH . W 8 HOH E 5 406 86 HOH HOH . W 8 HOH E 6 407 87 HOH HOH . W 8 HOH E 7 408 90 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 . . . L 7 13.023 -9.712 110.122 1 68.17 ? C1 NAG 301 B 1 HETATM 2 C C2 NAG . . . L 7 11.728 -9.473 109.331 1 70.1 ? C2 NAG 301 B 1 HETATM 3 C C3 NAG . . . L 7 10.529 -10.149 110.003 1 70.95 ? C3 NAG 301 B 1 HETATM 4 C C4 NAG . . . L 7 10.845 -11.633 110.211 1 71.85 ? C4 NAG 301 B 1 HETATM 5 C C5 NAG . . . L 7 12.132 -11.756 111.029 1 70.94 ? C5 NAG 301 B 1 HETATM 6 C C6 NAG . . . L 7 12.528 -13.198 111.279 1 70.09 ? C6 NAG 301 B 1 HETATM 7 C C7 NAG . . . L 7 11.323 -7.534 107.979 1 71.79 ? C7 NAG 301 B 1 HETATM 8 C C8 NAG . . . L 7 9.924 -7.071 107.582 1 70.45 ? C8 NAG 301 B 1 HETATM 9 N N2 NAG . . . L 7 11.479 -8.055 109.193 1 70.93 ? N2 NAG 301 B 1 HETATM 10 O O3 NAG . . . L 7 9.382 -10.009 109.174 1 72.31 ? O3 NAG 301 B 1 HETATM 11 O O4 NAG . . . L 7 9.771 -12.287 110.879 1 72.04 ? O4 NAG 301 B 1 HETATM 12 O O5 NAG . . . L 7 13.23 -11.12 110.327 1 70.62 ? O5 NAG 301 B 1 HETATM 13 O O6 NAG . . . L 7 13.578 -13.276 112.23 1 69.63 ? O6 NAG 301 B 1 HETATM 14 O O7 NAG . . . L 7 12.257 -7.422 107.18 1 71.56 ? O7 NAG 301 B 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 283 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 14 #