data_4WSS # _model_server_result.job_id R6btDKRF29GFsxD7Y25ZHQ _model_server_result.datetime_utc '2025-01-11 17:58:45' _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 4wss # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":602}' # _entry.id 4WSS # _exptl.entry_id 4WSS _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 7 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 112.2 _cell.angle_gamma 90 _cell.entry_id 4WSS _cell.length_a 254.967 _cell.length_b 134.779 _cell.length_c 122.622 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4WSS _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 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 PISA trimeric 3 author_and_software_defined_assembly 1 PISA trimeric 3 author_and_software_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,G,H,L,M,N,O 1 1 D,E,F,I,J,K,P,Q,R 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 ? 4 L N N ? 4 M N N ? 4 N N N ? 4 O N N ? 4 P N N ? 4 Q N N ? 4 R N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 2 oligosaccharide 3 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 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 3 2 1 GAL NAG C1 O1 . O4 HO4 . sing 3 ? 3 3 2 SIA GAL C2 O2 . 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 2 n G NAG 1 G 1 NAG A 2000 NAG 2 n G NAG 2 G 2 NAG A 2001 NAG 3 n H NAG 1 H 1 NAG C 605 NAG 3 n H GAL 2 H 2 GAL C 604 GAL 3 n H SIA 3 H 3 SIA C 603 SIA 3 n I NAG 1 I 1 NAG E 605 NAG 3 n I GAL 2 I 2 GAL E 604 GAL 3 n I SIA 3 I 3 SIA E 603 SIA 2 n J NAG 1 J 1 NAG F 601 NAG 2 n J NAG 2 J 2 NAG F 602 NAG 3 n K NAG 1 K 1 NAG F 605 NAG 3 n K GAL 2 K 2 GAL F 604 GAL 3 n K SIA 3 K 3 SIA F 603 SIA # 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 8 A CYS 4 1_555 A SG CYS 469 A CYS 465 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf2 A SG CYS 46 A CYS 42 1_555 A SG CYS 280 A CYS 276 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.087 ? disulf ? disulf3 A SG CYS 59 A CYS 55 1_555 A SG CYS 71 A CYS 67 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.997 ? disulf ? disulf4 A SG CYS 94 A CYS 90 1_555 A SG CYS 139 A CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? disulf ? disulf5 A SG CYS 284 A CYS 280 1_555 A SG CYS 308 A CYS 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf6 A SG CYS 476 A CYS 472 1_555 A SG CYS 480 A CYS 476 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? disulf ? disulf7 B SG CYS 8 B CYS 4 1_555 B SG CYS 469 B CYS 465 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf8 B SG CYS 46 B CYS 42 1_555 B SG CYS 280 B CYS 276 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.081 ? disulf ? disulf9 B SG CYS 59 B CYS 55 1_555 B SG CYS 71 B CYS 67 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf10 B SG CYS 94 B CYS 90 1_555 B SG CYS 139 B CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? disulf ? disulf11 B SG CYS 284 B CYS 280 1_555 B SG CYS 308 B CYS 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf12 B SG CYS 476 B CYS 472 1_555 B SG CYS 480 B CYS 476 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? disulf ? disulf13 C SG CYS 8 C CYS 4 1_555 C SG CYS 469 C CYS 465 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf14 C SG CYS 46 C CYS 42 1_555 C SG CYS 280 C CYS 276 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.116 ? disulf ? disulf15 C SG CYS 59 C CYS 55 1_555 C SG CYS 71 C CYS 67 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf16 C SG CYS 94 C CYS 90 1_555 C SG CYS 139 C CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.09 ? disulf ? disulf17 C SG CYS 284 C CYS 280 1_555 C SG CYS 308 C CYS 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf18 C SG CYS 476 C CYS 472 1_555 C SG CYS 480 C CYS 476 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? disulf ? disulf19 D SG CYS 8 E CYS 4 1_555 D SG CYS 469 E CYS 465 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf20 D SG CYS 46 E CYS 42 1_555 D SG CYS 280 E CYS 276 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.087 ? disulf ? disulf21 D SG CYS 59 E CYS 55 1_555 D SG CYS 71 E CYS 67 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? disulf ? disulf22 D SG CYS 94 E CYS 90 1_555 D SG CYS 139 E CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? disulf ? disulf23 D SG CYS 284 E CYS 280 1_555 D SG CYS 308 E CYS 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf24 D SG CYS 476 E CYS 472 1_555 D SG CYS 480 E CYS 476 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? disulf ? disulf25 E SG CYS 8 D CYS 4 1_555 E SG CYS 469 D CYS 465 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? disulf ? disulf26 E SG CYS 46 D CYS 42 1_555 E SG CYS 280 D CYS 276 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.102 ? disulf ? disulf27 E SG CYS 59 D CYS 55 1_555 E SG CYS 71 D CYS 67 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf28 E SG CYS 94 D CYS 90 1_555 E SG CYS 139 D CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.088 ? disulf ? disulf29 E SG CYS 284 D CYS 280 1_555 E SG CYS 308 D CYS 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf30 E SG CYS 476 D CYS 472 1_555 E SG CYS 480 D CYS 476 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.011 ? disulf ? disulf31 F SG CYS 8 F CYS 4 1_555 F SG CYS 469 F CYS 465 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf32 F SG CYS 46 F CYS 42 1_555 F SG CYS 280 F CYS 276 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.074 ? disulf ? disulf33 F SG CYS 59 F CYS 55 1_555 F SG CYS 71 F CYS 67 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf34 F SG CYS 94 F CYS 90 1_555 F SG CYS 139 F CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.074 ? disulf ? disulf35 F SG CYS 284 F CYS 280 1_555 F SG CYS 308 F CYS 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf36 F SG CYS 476 F CYS 472 1_555 F SG CYS 480 F CYS 476 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? covale ? covale1 A ND2 ASN 299 A ASN 295 1_555 G C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.458 ? covale ? covale2 B ND2 ASN 27 B ASN 23 1_555 L C1 NAG . B NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.465 ? covale ? covale3 B ND2 ASN 299 B ASN 295 1_555 M C1 NAG . B NAG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.472 ? covale ? covale4 C ND2 ASN 27 C ASN 23 1_555 N C1 NAG . C NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale5 C ND2 ASN 299 C ASN 295 1_555 O C1 NAG . C NAG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale6 D ND2 ASN 27 E ASN 23 1_555 Q C1 NAG . E NAG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale7 D ND2 ASN 299 E ASN 295 1_555 P C1 NAG . E NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.465 ? covale ? covale8 E ND2 ASN 27 D ASN 23 1_555 R C1 NAG . D NAG 900 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale9 F ND2 ASN 299 F ASN 295 1_555 J C1 NAG . J NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.477 ? covale ? covale10 G O4 NAG . G NAG 1 1_555 G C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale11 H O4 NAG . H NAG 1 1_555 H C1 GAL . H GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale12 H O3 GAL . H GAL 2 1_555 H C2 SIA . H SIA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? covale ? covale13 I O4 NAG . I NAG 1 1_555 I C1 GAL . I GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale14 I O3 GAL . I GAL 2 1_555 I C2 SIA . I SIA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale15 J O4 NAG . J NAG 1 1_555 J C1 NAG . J NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale16 K O4 NAG . K NAG 1 1_555 K C1 GAL . K GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.465 ? covale ? covale17 K O3 GAL . K GAL 2 1_555 K C2 SIA . K SIA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? # _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 4WSS _atom_sites.fract_transf_matrix[1][1] 0.003922 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001601 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00742 _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] 0.008808 _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 4 NAG B 1 601 601 NAG NAG . M 4 NAG B 1 602 602 NAG NAG . N 4 NAG C 1 601 601 NAG NAG . O 4 NAG C 1 602 602 NAG NAG . P 4 NAG E 1 601 601 NAG NAG . Q 4 NAG E 1 602 602 NAG NAG . R 4 NAG D 1 900 900 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 . . . M 4 -45.54 -24.507 42.58 1 73.19 ? C1 NAG 602 B 1 HETATM 2 C C2 NAG . . . M 4 -46.657 -23.541 43.078 1 77.89 ? C2 NAG 602 B 1 HETATM 3 C C3 NAG . . . M 4 -47.367 -24.042 44.365 1 78.21 ? C3 NAG 602 B 1 HETATM 4 C C4 NAG . . . M 4 -47.542 -25.589 44.495 1 78.68 ? C4 NAG 602 B 1 HETATM 5 C C5 NAG . . . M 4 -46.373 -26.359 43.867 1 75.17 ? C5 NAG 602 B 1 HETATM 6 C C6 NAG . . . M 4 -46.692 -27.854 43.801 1 70.91 ? C6 NAG 602 B 1 HETATM 7 C C7 NAG . . . M 4 -46.64 -21.036 42.638 1 73.58 ? C7 NAG 602 B 1 HETATM 8 C C8 NAG . . . M 4 -46.086 -19.703 43.076 1 71.17 ? C8 NAG 602 B 1 HETATM 9 N N2 NAG . . . M 4 -46.232 -22.141 43.308 1 75.67 ? N2 NAG 602 B 1 HETATM 10 O O3 NAG . . . M 4 -48.623 -23.367 44.421 1 81.06 ? O3 NAG 602 B 1 HETATM 11 O O4 NAG . . . M 4 -47.724 -26.079 45.837 1 76.39 ? O4 NAG 602 B 1 HETATM 12 O O5 NAG . . . M 4 -46.057 -25.842 42.577 1 72.52 ? O5 NAG 602 B 1 HETATM 13 O O6 NAG . . . M 4 -45.533 -28.579 43.463 1 68.47 ? O6 NAG 602 B 1 HETATM 14 O O7 NAG . . . M 4 -47.429 -21.024 41.691 1 78.06 ? O7 NAG 602 B 1 # _model_server_stats.io_time_ms 57 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 76 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 14 #