data_3SKU # _model_server_result.job_id kSya1CLUl9U5A_ncAw0tXQ _model_server_result.datetime_utc '2024-12-19 02:55:55' _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 3sku # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"R","auth_seq_id":350}' # _entry.id 3SKU # _exptl.entry_id 3SKU _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 5 _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 3SKU _cell.length_a 188.003 _cell.length_b 188.003 _cell.length_c 185.004 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3SKU _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 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 ? dimeric 2 author_defined_assembly 1 ? dimeric 2 author_defined_assembly 2 ? dimeric 2 author_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,E,G,J,K,Q 1 1 B,F,L,M,N,R 2 1 C,D,H,I,O,P 3 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 ? 5 N N N ? 5 O N N ? 5 P N N ? 5 Q N N ? 5 R N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 3 oligosaccharide 4 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 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 3 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . 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 G NAG 1 G 1 NAG A 1307 NAG 3 n G NAG 2 G 2 NAG A 1308 NAG 3 n G BMA 3 G 3 BMA A 1309 BMA 4 n H NAG 1 H 1 NAG E 401 NAG 4 n H NAG 2 H 2 NAG E 402 NAG 3 n I NAG 1 I 1 NAG E 501 NAG 3 n I NAG 2 I 2 NAG E 502 NAG 3 n I BMA 3 I 3 BMA E 503 BMA 4 n J NAG 1 J 1 NAG D 401 NAG 4 n J NAG 2 J 2 NAG D 402 NAG 3 n K NAG 1 K 1 NAG D 501 NAG 3 n K NAG 2 K 2 NAG D 502 NAG 3 n K BMA 3 K 3 BMA D 503 BMA 4 n L NAG 1 L 1 NAG F 401 NAG 4 n L NAG 2 L 2 NAG F 402 NAG 3 n M NAG 1 M 1 NAG F 501 NAG 3 n M NAG 2 M 2 NAG F 502 NAG 3 n M BMA 3 M 3 BMA F 503 BMA # 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 66 A CYS 66 1_555 A SG CYS 189 A CYS 189 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf2 A SG CYS 106 A CYS 106 1_555 A SG CYS 202 A CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? disulf ? disulf3 A SG CYS 118 A CYS 118 1_555 A SG CYS 127 A CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? disulf ? disulf4 B SG CYS 66 B CYS 66 1_555 B SG CYS 189 B CYS 189 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf5 B SG CYS 106 B CYS 106 1_555 B SG CYS 202 B CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf6 B SG CYS 118 B CYS 118 1_555 B SG CYS 127 B CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf7 C SG CYS 66 C CYS 66 1_555 C SG CYS 189 C CYS 189 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? disulf ? disulf8 C SG CYS 106 C CYS 106 1_555 C SG CYS 202 C CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? disulf ? disulf9 C SG CYS 118 C CYS 118 1_555 C SG CYS 127 C CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf10 D SG CYS 21 E CYS 51 1_555 D SG CYS 94 E CYS 124 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? disulf ? disulf11 D SG CYS 142 E CYS 172 1_555 D SG CYS 196 E CYS 226 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf12 E SG CYS 21 D CYS 51 1_555 E SG CYS 94 D CYS 124 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.009 ? disulf ? disulf13 E SG CYS 142 D CYS 172 1_555 E SG CYS 196 D CYS 226 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? disulf ? disulf14 F SG CYS 21 F CYS 51 1_555 F SG CYS 94 F CYS 124 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? disulf ? disulf15 F SG CYS 142 F CYS 172 1_555 F SG CYS 196 F CYS 226 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? covale ? covale1 A ND2 ASN 94 A ASN 94 1_555 G C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale2 B ND2 ASN 94 B ASN 94 1_555 N C1 NAG . B NAG 1307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.471 ? covale ? covale3 C ND2 ASN 94 C ASN 94 1_555 O C1 NAG . C NAG 1307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.46 ? covale ? covale4 D ND2 ASN 42 E ASN 72 1_555 P C1 NAG . E NAG 350 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale5 D ND2 ASN 109 E ASN 139 1_555 H C1 NAG . H NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale6 D ND2 ASN 172 E ASN 202 1_555 I C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale7 E ND2 ASN 42 D ASN 72 1_555 Q C1 NAG . D NAG 350 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale8 E ND2 ASN 109 D ASN 139 1_555 J C1 NAG . J NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.426 ? covale ? covale9 E ND2 ASN 172 D ASN 202 1_555 K C1 NAG . K NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.421 ? covale ? covale10 F ND2 ASN 42 F ASN 72 1_555 R C1 NAG . F NAG 350 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale11 F ND2 ASN 109 F ASN 139 1_555 L C1 NAG . L NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale12 F ND2 ASN 172 F ASN 202 1_555 M C1 NAG . M NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale13 G O4 NAG . G NAG 1 1_555 G C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.403 ? covale ? covale14 G O4 NAG . G NAG 2 1_555 G C1 BMA . G BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale15 H O4 NAG . H NAG 1 1_555 H C1 NAG . H NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale16 I O4 NAG . I NAG 1 1_555 I C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale17 I O4 NAG . I NAG 2 1_555 I C1 BMA . I BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.47 ? covale ? covale18 J O4 NAG . J NAG 1 1_555 J C1 NAG . J NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale19 K O4 NAG . K NAG 1 1_555 K C1 NAG . K NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale20 K O4 NAG . K NAG 2 1_555 K C1 BMA . K BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.464 ? covale ? covale21 L O4 NAG . L NAG 1 1_555 L C1 NAG . L NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale22 M O4 NAG . M NAG 1 1_555 M C1 NAG . M NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale23 M O4 NAG . M NAG 2 1_555 M C1 BMA . M BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? # _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 259 n n C1 O1 NAG sing 260 n n C1 O5 NAG sing 261 n n C1 H1 NAG sing 262 n n C2 C3 NAG sing 263 n n C2 N2 NAG sing 264 n n C2 H2 NAG sing 265 n n C3 C4 NAG sing 266 n n C3 O3 NAG sing 267 n n C3 H3 NAG sing 268 n n C4 C5 NAG sing 269 n n C4 O4 NAG sing 270 n n C4 H4 NAG sing 271 n n C5 C6 NAG sing 272 n n C5 O5 NAG sing 273 n n C5 H5 NAG sing 274 n n C6 O6 NAG sing 275 n n C6 H61 NAG sing 276 n n C6 H62 NAG sing 277 n n C7 C8 NAG sing 278 n n C7 N2 NAG sing 279 n n C7 O7 NAG doub 280 n n C8 H81 NAG sing 281 n n C8 H82 NAG sing 282 n n C8 H83 NAG sing 283 n n N2 HN2 NAG sing 284 n n O1 HO1 NAG sing 285 n n O3 HO3 NAG sing 286 n n O4 HO4 NAG sing 287 n n O6 HO6 NAG sing 288 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 3SKU _atom_sites.fract_transf_matrix[1][1] 0.005319 _atom_sites.fract_transf_matrix[1][2] 0.003071 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006142 _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] 0.005405 _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 N 5 NAG B 1 1307 1307 NAG NAG . O 5 NAG C 1 1307 1307 NAG NAG . P 5 NAG E 1 350 350 NAG NAG . Q 5 NAG D 1 350 350 NAG NAG . R 5 NAG F 1 350 350 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 5 -84.217 -61.849 -15.358 1 367.19 ? C1 NAG 350 F 1 HETATM 2 C C2 NAG . . . R 5 -84.739 -63.32 -15.342 1 367.19 ? C2 NAG 350 F 1 HETATM 3 C C3 NAG . . . R 5 -85.113 -63.833 -16.754 1 367.19 ? C3 NAG 350 F 1 HETATM 4 C C4 NAG . . . R 5 -85.825 -62.78 -17.613 1 367.19 ? C4 NAG 350 F 1 HETATM 5 C C5 NAG . . . R 5 -85.192 -61.396 -17.458 1 367.19 ? C5 NAG 350 F 1 HETATM 6 C C6 NAG . . . R 5 -86.003 -60.312 -18.15 1 367.19 ? C6 NAG 350 F 1 HETATM 7 C C7 NAG . . . R 5 -84.107 -65.51 -14.277 1 367.19 ? C7 NAG 350 F 1 HETATM 8 C C8 NAG . . . R 5 -83.012 -66.295 -13.607 1 367.19 ? C8 NAG 350 F 1 HETATM 9 N N2 NAG . . . R 5 -83.811 -64.252 -14.671 1 367.19 ? N2 NAG 350 F 1 HETATM 10 O O3 NAG . . . R 5 -85.924 -64.999 -16.706 1 367.19 ? O3 NAG 350 F 1 HETATM 11 O O4 NAG . . . R 5 -85.781 -63.189 -18.966 1 367.19 ? O4 NAG 350 F 1 HETATM 12 O O5 NAG . . . R 5 -85.132 -61.059 -16.094 1 367.19 ? O5 NAG 350 F 1 HETATM 13 O O6 NAG . . . R 5 -85.091 -59.39 -18.709 1 367.19 ? O6 NAG 350 F 1 HETATM 14 O O7 NAG . . . R 5 -85.2 -66.052 -14.429 1 367.19 ? O7 NAG 350 F 1 # _model_server_stats.io_time_ms 30 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 323 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #