data_4FQK # _model_server_result.job_id BzWtKBfYA_GfVUMyoPXXUQ _model_server_result.datetime_utc '2024-10-16 18:52:38' _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 4fqk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Q","auth_seq_id":410}' # _entry.id 4FQK # _exptl.entry_id 4FQK _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 90 _cell.angle_gamma 120 _cell.entry_id 4FQK _cell.length_a 189.2 _cell.length_b 189.2 _cell.length_c 319.31 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4FQK _symmetry.cell_setting ? _symmetry.Int_Tables_number 146 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? dodecameric 12 author_defined_assembly 1 ? dodecameric 12 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,G,H,I,J,K,L,Q 1 1,2,3 C,D,E,F,M,N,O,P,R 2 1,4,5 # 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_455 -y-1,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 -189.2 0 0 3 'crystal symmetry operation' 3_445 -x+y-1,-x-1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -94.6 -163.852006 0 4 'crystal symmetry operation' 2_555 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 5 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 7 Q N N ? 7 R N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 5 oligosaccharide 6 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 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 6 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 6 3 2 BMA 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 5 n I NAG 1 G 1 NAG A 350 NAG 5 n I NAG 2 G 2 NAG A 351 NAG 5 n J NAG 1 I 1 NAG A 353 NAG 5 n J NAG 2 I 2 NAG A 354 NAG 5 n K NAG 1 J 1 NAG A 359 NAG 5 n K NAG 2 J 2 NAG A 360 NAG 6 n L NAG 1 K 1 NAG A 363 NAG 6 n L NAG 2 K 2 NAG A 364 NAG 6 n L BMA 3 K 3 BMA A 365 BMA 6 n M NAG 1 M 1 NAG C 350 NAG 6 n M NAG 2 M 2 NAG C 351 NAG 6 n M BMA 3 M 3 BMA C 352 BMA 5 n N NAG 1 N 1 NAG C 353 NAG 5 n N NAG 2 N 2 NAG C 354 NAG 5 n O NAG 1 O 1 NAG C 359 NAG 5 n O NAG 2 O 2 NAG C 360 NAG 5 n P NAG 1 P 1 NAG C 363 NAG 5 n P NAG 2 P 2 NAG C 364 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 4 A CYS 4 1_555 B SG CYS 137 B CYS 484 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf2 A SG CYS 54 A CYS 54 1_555 A SG CYS 57 A CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf3 A SG CYS 60 A CYS 60 1_555 A SG CYS 72 A CYS 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.149 ? disulf ? disulf4 A SG CYS 94 A CYS 94 1_555 A SG CYS 143 A CYS 143 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? disulf ? disulf5 A SG CYS 181 A CYS 178 1_555 A SG CYS 275 A CYS 272 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? disulf ? disulf6 A SG CYS 295 A CYS 292 1_555 A SG CYS 321 A CYS 318 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? disulf ? disulf7 B SG CYS 144 B CYS 491 1_555 B SG CYS 148 B CYS 495 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf8 C SG CYS 4 C CYS 4 1_555 D SG CYS 137 D CYS 484 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf9 C SG CYS 54 C CYS 54 1_555 C SG CYS 57 C CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf10 C SG CYS 60 C CYS 60 1_555 C SG CYS 72 C CYS 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.15 ? disulf ? disulf11 C SG CYS 94 C CYS 94 1_555 C SG CYS 143 C CYS 143 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? disulf ? disulf12 C SG CYS 181 C CYS 178 1_555 C SG CYS 275 C CYS 272 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? disulf ? disulf13 C SG CYS 295 C CYS 292 1_555 C SG CYS 321 C CYS 318 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? disulf ? disulf14 D SG CYS 144 D CYS 491 1_555 D SG CYS 148 D CYS 495 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf15 E SG CYS 22 E CYS 22 1_555 E SG CYS 96 E CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf16 E SG CYS 152 E CYS 140 1_555 E SG CYS 208 E CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf17 F SG CYS 22 F CYS 23 1_555 F SG CYS 89 F CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf18 F SG CYS 138 F CYS 134 1_555 F SG CYS 197 F CYS 193 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf19 G SG CYS 22 H CYS 22 1_555 G SG CYS 96 H CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf20 G SG CYS 152 H CYS 140 1_555 G SG CYS 208 H CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf21 H SG CYS 22 L CYS 23 1_555 H SG CYS 89 L CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf22 H SG CYS 138 L CYS 134 1_555 H SG CYS 197 L CYS 193 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? covale ? covale1 A ND2 ASN 145 A ASN 145 1_555 I C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.471 ? covale ? covale2 A ND2 ASN 197 A ASN 194 1_555 L C1 NAG . K NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale3 A ND2 ASN 233 A ASN 230 1_555 Q C1 NAG . A NAG 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale4 A ND2 ASN 304 A ASN 301 1_555 J C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale5 A ND2 ASN 333 A ASN 330 1_555 K C1 NAG . J NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale6 C ND2 ASN 145 C ASN 145 1_555 M C1 NAG . M NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.475 ? covale ? covale7 C ND2 ASN 197 C ASN 194 1_555 P C1 NAG . P NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.428 ? covale ? covale8 C ND2 ASN 233 C ASN 230 1_555 R C1 NAG . C NAG 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale9 C ND2 ASN 304 C ASN 301 1_555 N C1 NAG . N NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.423 ? covale ? covale10 C ND2 ASN 333 C ASN 330 1_555 O C1 NAG . O NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale11 I O4 NAG . G NAG 1 1_555 I C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale12 J O4 NAG . I NAG 1 1_555 J C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale13 K O4 NAG . J NAG 1 1_555 K C1 NAG . J NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale14 L O4 NAG . K NAG 1 1_555 L C1 NAG . K NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.388 ? covale ? covale15 L O4 NAG . K NAG 2 1_555 L C1 BMA . K BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.407 ? covale ? covale16 M O4 NAG . M NAG 1 1_555 M C1 NAG . M NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale17 M O4 NAG . M NAG 2 1_555 M C1 BMA . M BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale18 N O4 NAG . N NAG 1 1_555 N C1 NAG . N NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale19 O O4 NAG . O NAG 1 1_555 O C1 NAG . O NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale20 P O4 NAG . P NAG 1 1_555 P C1 NAG . P NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.387 ? # _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 4FQK _atom_sites.fract_transf_matrix[1][1] 0.005285 _atom_sites.fract_transf_matrix[1][2] 0.003052 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006103 _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] 0.003132 _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 Q 7 NAG A 1 410 366 NAG NAG . R 7 NAG C 1 410 366 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 . . . Q 7 -67.824 -39.291 129.239 1 100 ? C1 NAG 410 A 1 HETATM 2 C C2 NAG . . . Q 7 -66.986 -40.198 128.344 1 100 ? C2 NAG 410 A 1 HETATM 3 C C3 NAG . . . Q 7 -65.743 -40.695 129.065 1 100 ? C3 NAG 410 A 1 HETATM 4 C C4 NAG . . . Q 7 -64.977 -39.529 129.662 1 100 ? C4 NAG 410 A 1 HETATM 5 C C5 NAG . . . Q 7 -65.895 -38.656 130.506 1 100 ? C5 NAG 410 A 1 HETATM 6 C C6 NAG . . . Q 7 -65.114 -37.436 130.984 1 100 ? C6 NAG 410 A 1 HETATM 7 C C7 NAG . . . Q 7 -68.121 -41.459 126.622 1 100 ? C7 NAG 410 A 1 HETATM 8 C C8 NAG . . . Q 7 -69.331 -42.298 126.324 1 100 ? C8 NAG 410 A 1 HETATM 9 N N2 NAG . . . Q 7 -67.774 -41.329 127.898 1 100 ? N2 NAG 410 A 1 HETATM 10 O O3 NAG . . . Q 7 -64.915 -41.371 128.146 1 100 ? O3 NAG 410 A 1 HETATM 11 O O4 NAG . . . Q 7 -63.915 -40.006 130.461 1 100 ? O4 NAG 410 A 1 HETATM 12 O O5 NAG . . . Q 7 -67.034 -38.246 129.773 1 100 ? O5 NAG 410 A 1 HETATM 13 O O6 NAG . . . Q 7 -65.915 -36.65 131.835 1 100 ? O6 NAG 410 A 1 HETATM 14 O O7 NAG . . . Q 7 -67.494 -40.921 125.711 1 100 ? O7 NAG 410 A 1 # _model_server_stats.io_time_ms 56 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 273 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 14 #