data_4XSS # _model_server_result.job_id qhdmXEaEES5vEHoHsgs29w _model_server_result.datetime_utc '2024-12-18 01:55:30' _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 4xss # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":412}' # _entry.id 4XSS # _exptl.entry_id 4XSS _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 7 _entity.src_method syn _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 120 _cell.entry_id 4XSS _cell.length_a 219.16 _cell.length_b 219.16 _cell.length_c 121.22 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4XSS _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'H 3 2' # 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 octadecameric 18 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,D,E,F,G,H,I,J 1 1 A,B,C,D,E,F,G,H,I,J 2 1,2,3,4,5,6 # 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' 2_765 -y+2,x-y+1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 328.74 189.798127 0 3 'crystal symmetry operation' 3_675 -x+y+1,-x+2,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 379.596255 0 4 'crystal symmetry operation' 4_556 y,x,-z+1 -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 121.22 5 'crystal symmetry operation' 5_676 x-y+1,-y+2,-z+1 1 0 0 0 -1 0 0 0 -1 0 379.596255 121.22 6 'crystal symmetry operation' 6_766 -x+2,-x+y+1,-z+1 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 328.74 189.798127 121.22 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 7 G N N ? 7 H N N ? 7 I N N ? 7 J N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 4 oligosaccharide 5 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 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 4 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 4 4 1 FUC NAG C1 O1 . O6 HO6 . sing 4 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 5 ? 5 3 1 FUC NAG C1 O1 . O6 HO6 . 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 4 n D NAG 1 A 1 NAG E 1201 NAG 4 n D NAG 2 A 2 NAG E 1202 NAG 4 n D BMA 3 A 3 BMA E 1203 BMA 4 n D FUC 4 A 4 FUC E 1208 FUC 5 n E NAG 1 C 1 NAG E 1501 NAG 5 n E NAG 2 C 2 NAG E 1502 NAG 5 n E FUC 3 C 3 FUC E 1508 FUC # 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 6 B CYS 6 1_555 A SG CYS 48 B CYS 48 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf2 A SG CYS 18 B CYS 18 1_555 A SG CYS 61 B CYS 61 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf3 A SG CYS 47 B CYS 47 1_555 A SG CYS 52 B CYS 52 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? disulf ? disulf4 B SG CYS 8 E CYS 8 1_555 B SG CYS 26 E CYS 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf5 B SG CYS 126 E CYS 126 1_555 B SG CYS 155 E CYS 155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf6 B SG CYS 159 E CYS 159 1_555 B SG CYS 182 E CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf7 B SG CYS 169 E CYS 169 1_555 B SG CYS 188 E CYS 188 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf8 B SG CYS 192 E CYS 192 1_555 B SG CYS 201 E CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf9 B SG CYS 196 E CYS 196 1_555 B SG CYS 207 E CYS 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf10 B SG CYS 208 E CYS 208 1_555 B SG CYS 216 E CYS 216 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf11 B SG CYS 212 E CYS 212 1_555 B SG CYS 225 E CYS 225 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? disulf ? disulf12 B SG CYS 228 E CYS 228 1_555 B SG CYS 237 E CYS 237 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf13 B SG CYS 241 E CYS 241 1_555 B SG CYS 253 E CYS 253 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf14 B SG CYS 259 E CYS 259 1_555 B SG CYS 284 E CYS 284 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf15 B SG CYS 266 E CYS 266 1_555 B SG CYS 274 E CYS 274 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf16 B SG CYS 288 E CYS 288 1_555 B SG CYS 301 E CYS 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf17 B SG CYS 304 E CYS 304 1_555 B SG CYS 308 E CYS 308 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? covale ? covale1 B ND2 ASN 16 E ASN 16 1_555 G C1 NAG . E NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale2 B ND2 ASN 25 E ASN 25 1_555 D C1 NAG . A NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale3 B ND2 ASN 111 E ASN 111 1_555 H C1 NAG . E NAG 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale4 B ND2 ASN 215 E ASN 215 1_555 I C1 NAG . E NAG 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale5 B ND2 ASN 255 E ASN 255 1_555 E C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale6 B ND2 ASN 295 E ASN 295 1_555 J C1 NAG . E NAG 412 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale7 D O4 NAG . A NAG 1 1_555 D C1 NAG . A NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale8 D O6 NAG . A NAG 1 1_555 D C1 FUC . A FUC 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.407 ? covale ? covale9 D O4 NAG . A NAG 2 1_555 D C1 BMA . A BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale10 E O4 NAG . C NAG 1 1_555 E C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale11 E O6 NAG . C NAG 1 1_555 E C1 FUC . C FUC 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.406 ? # _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 282 n n C1 O1 NAG sing 283 n n C1 O5 NAG sing 284 n n C1 H1 NAG sing 285 n n C2 C3 NAG sing 286 n n C2 N2 NAG sing 287 n n C2 H2 NAG sing 288 n n C3 C4 NAG sing 289 n n C3 O3 NAG sing 290 n n C3 H3 NAG sing 291 n n C4 C5 NAG sing 292 n n C4 O4 NAG sing 293 n n C4 H4 NAG sing 294 n n C5 C6 NAG sing 295 n n C5 O5 NAG sing 296 n n C5 H5 NAG sing 297 n n C6 O6 NAG sing 298 n n C6 H61 NAG sing 299 n n C6 H62 NAG sing 300 n n C7 C8 NAG sing 301 n n C7 N2 NAG sing 302 n n C7 O7 NAG doub 303 n n C8 H81 NAG sing 304 n n C8 H82 NAG sing 305 n n C8 H83 NAG sing 306 n n N2 HN2 NAG sing 307 n n O1 HO1 NAG sing 308 n n O3 HO3 NAG sing 309 n n O4 HO4 NAG sing 310 n n O6 HO6 NAG sing 311 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 4XSS _atom_sites.fract_transf_matrix[1][1] 0.004563 _atom_sites.fract_transf_matrix[1][2] 0.002634 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.005269 _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] 0.008249 _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 SO4 E 1 401 595 SO4 SO4 . G 7 NAG E 1 402 1101 NAG NAG . H 7 NAG E 1 407 1301 NAG NAG . I 7 NAG E 1 408 1401 NAG NAG . J 7 NAG E 1 412 1601 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 . . . J 7 95.841 147.785 51.356 1 204.3 ? C1 NAG 412 E 1 HETATM 2 C C2 NAG . . . J 7 94.829 148.933 51.25 1 204.44 ? C2 NAG 412 E 1 HETATM 3 C C3 NAG . . . J 7 93.485 148.203 51.363 1 207.57 ? C3 NAG 412 E 1 HETATM 4 C C4 NAG . . . J 7 93.302 147.199 50.225 1 208.98 ? C4 NAG 412 E 1 HETATM 5 C C5 NAG . . . J 7 94.421 146.155 50.237 1 208.48 ? C5 NAG 412 E 1 HETATM 6 C C6 NAG . . . J 7 94.462 145.296 48.989 1 209.34 ? C6 NAG 412 E 1 HETATM 7 C C7 NAG . . . J 7 94.413 151.14 52.355 1 201.08 ? C7 NAG 412 E 1 HETATM 8 C C8 NAG . . . J 7 94.796 152.011 53.515 1 197.98 ? C8 NAG 412 E 1 HETATM 9 N N2 NAG . . . J 7 94.981 149.906 52.328 1 202.46 ? N2 NAG 412 E 1 HETATM 10 O O3 NAG . . . J 7 92.391 149.117 51.385 1 206.99 ? O3 NAG 412 E 1 HETATM 11 O O4 NAG . . . J 7 92.039 146.546 50.352 1 209.89 ? O4 NAG 412 E 1 HETATM 12 O O5 NAG . . . J 7 95.707 146.793 50.33 1 206.95 ? O5 NAG 412 E 1 HETATM 13 O O6 NAG . . . J 7 95.203 145.914 47.939 1 208.53 ? O6 NAG 412 E 1 HETATM 14 O O7 NAG . . . J 7 93.623 151.523 51.494 1 201.89 ? O7 NAG 412 E 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 24 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 254 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 14 #