data_8P2X # _model_server_result.job_id T-nRtybeEFSLUmBvJSub0A _model_server_result.datetime_utc '2025-04-03 16:43:42' _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 8p2x # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":902}' # _entry.id 8P2X # _exptl.entry_id 8P2X _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 221.208 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-alpha-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 90 _cell.entry_id 8P2X _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8P2X _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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 ? _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 ? 6 J N N ? 6 N 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 ? 3 4 3 MAN BMA C1 O1 . O6 HO6 . sing 4 ? 3 5 4 MAN MAN C1 O1 . O3 HO3 . sing 5 ? 3 6 4 MAN MAN C1 O1 . O6 HO6 . sing 6 ? 3 7 3 MAN BMA C1 O1 . O3 HO3 . sing 7 ? 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 E NAG 1 E 1 NAG A 915 NAG 3 n E NAG 2 E 2 NAG A 916 NAG 3 n E BMA 3 E 3 BMA A 917 BMA 3 n E MAN 4 E 4 MAN A 947 MAN 3 n E MAN 5 E 5 MAN A 949 MAN 3 n E MAN 6 E 6 MAN A 950 MAN 3 n E MAN 7 E 7 MAN A 948 MAN 4 n F NAG 1 F 1 NAG A 942 NAG 4 n F NAG 2 F 2 NAG A 943 NAG 3 n G NAG 1 G 1 NAG B 915 NAG 3 n G NAG 2 G 2 NAG B 916 NAG 3 n G BMA 3 G 3 BMA B 917 BMA 3 n G MAN 4 G 4 MAN B 947 MAN 3 n G MAN 5 G 5 MAN B 949 MAN 3 n G MAN 6 G 6 MAN B 950 MAN 3 n G MAN 7 G 7 MAN B 948 MAN 4 n H NAG 1 H 1 NAG B 942 NAG 4 n H NAG 2 H 2 NAG B 943 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 140 A CYS 133 1_555 A SG CYS 148 A CYS 141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 A SG CYS 351 A CYS 344 1_555 A SG CYS 368 A CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 A SG CYS 537 A CYS 530 1_555 A SG CYS 549 A CYS 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 B SG CYS 140 B CYS 133 1_555 B SG CYS 148 B CYS 141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf5 B SG CYS 351 B CYS 344 1_555 B SG CYS 368 B CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf6 B SG CYS 537 B CYS 530 1_555 B SG CYS 549 B CYS 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf7 C SG CYS 126 C CYS 126 1_555 C SG CYS 139 C CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf8 C SG CYS 309 C CYS 309 1_555 C SG CYS 358 C CYS 358 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf9 D SG CYS 126 D CYS 126 1_555 D SG CYS 139 D CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf10 D SG CYS 309 D CYS 309 1_555 D SG CYS 358 D CYS 358 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? covale ? covale1 A ND2 ASN 97 A ASN 90 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale2 A ND2 ASN 110 A ASN 103 1_555 K C1 NAG . A NAG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale3 A ND2 ASN 329 A ASN 322 1_555 L C1 NAG . A NAG 904 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale4 A ND2 ASN 697 A ASN 690 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale5 A OG1 THR 737 A THR 730 1_555 J C1 NDG . A NDG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.374 ? covale ? covale6 B ND2 ASN 97 B ASN 90 1_555 H C1 NAG . H NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale7 B ND2 ASN 110 B ASN 103 1_555 O C1 NAG . B NAG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale8 B ND2 ASN 329 B ASN 322 1_555 P C1 NAG . B NAG 904 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale9 B ND2 ASN 697 B ASN 690 1_555 G C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale10 B OG1 THR 737 B THR 730 1_555 N C1 NDG . B NDG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.374 ? covale ? covale11 C ND2 ASN 131 C ASN 131 1_555 Q C1 NAG . C NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale12 C ND2 ASN 357 C ASN 357 1_555 R C1 NAG . C NAG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale13 D ND2 ASN 131 D ASN 131 1_555 S C1 NAG . D NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale14 D ND2 ASN 357 D ASN 357 1_555 T C1 NAG . D NAG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale15 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale16 E O4 NAG . E NAG 2 1_555 E C1 BMA . E BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale17 E O6 BMA . E BMA 3 1_555 E C1 MAN . E MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale18 E O3 BMA . E BMA 3 1_555 E C1 MAN . E MAN 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale19 E O3 MAN . E MAN 4 1_555 E C1 MAN . E MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale20 E O6 MAN . E MAN 4 1_555 E C1 MAN . E MAN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale21 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale22 G O4 NAG . G NAG 1 1_555 G C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale23 G O4 NAG . G NAG 2 1_555 G C1 BMA . G BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale24 G O6 BMA . G BMA 3 1_555 G C1 MAN . G MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale25 G O3 BMA . G BMA 3 1_555 G C1 MAN . G MAN 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale26 G O3 MAN . G MAN 4 1_555 G C1 MAN . G MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale27 G O6 MAN . G MAN 4 1_555 G C1 MAN . G MAN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale28 H O4 NAG . H NAG 1 1_555 H C1 NAG . H NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? metalc ? metalc1 A NE2 HIS 381 A HIS 374 1_555 I ZN ZN . A ZN 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc2 A NE2 HIS 385 A HIS 378 1_555 I ZN ZN . A ZN 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc3 B NE2 HIS 381 B HIS 374 1_555 M ZN ZN . B ZN 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc4 B NE2 HIS 385 B HIS 378 1_555 M ZN ZN . B ZN 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? # _chem_comp.formula 'C8 H15 N O6' _chem_comp.formula_weight 221.208 _chem_comp.id NDG _chem_comp.mon_nstd_flag . _chem_comp.name 2-acetamido-2-deoxy-alpha-D-glucopyranose _chem_comp.type 'd-saccharide, alpha linking' _chem_comp.pdbx_synonyms N-acetyl-alpha-D-glucosamine;2-acetamido-2-deoxy-alpha-D-glucose;2-acetamido-2-deoxy-D-glucose;2-acetamido-2-deoxy-glucose;2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE # 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 NDG sing 313 n n C1 O5 NDG sing 314 n n C1 O1 NDG sing 315 n n C1 H1 NDG sing 316 n n C2 C3 NDG sing 317 n n C2 N2 NDG sing 318 n n C2 H2 NDG sing 319 n n C3 C4 NDG sing 320 n n C3 O3 NDG sing 321 n n C3 H3 NDG sing 322 n n C4 C5 NDG sing 323 n n C4 O4 NDG sing 324 n n C4 H4 NDG sing 325 n n C5 C6 NDG sing 326 n n C5 O5 NDG sing 327 n n C5 H5 NDG sing 328 n n C6 O6 NDG sing 329 n n C6 H61 NDG sing 330 n n C6 H62 NDG sing 331 n n C7 C8 NDG sing 332 n n C7 O7 NDG doub 333 n n C7 N2 NDG sing 334 n n C8 H81 NDG sing 335 n n C8 H82 NDG sing 336 n n C8 H83 NDG sing 337 n n O3 HO3 NDG sing 338 n n O4 HO4 NDG sing 339 n n O6 HO6 NDG sing 340 n n N2 HN2 NDG sing 341 n n O1 HO1 NDG sing 342 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 NDG DGlcpNAca 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 NDG N-acetyl-a-D-glucopyranosamine 'COMMON NAME' GMML 1 NDG a-D-GlcpNAc 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 NDG GlcNAc 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 8P2X _atom_sites.fract_transf_matrix[1][1] 1 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 1 _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] 1 _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 I 5 ZN A 1 901 914 ZN ZN . J 6 NDG A 1 902 940 NDG NDG . K 7 NAG A 1 903 945 NAG NAG . L 7 NAG A 1 904 946 NAG NAG . M 5 ZN B 1 901 914 ZN ZN . N 6 NDG B 1 902 940 NDG NDG . O 7 NAG B 1 903 945 NAG NAG . P 7 NAG B 1 904 946 NAG NAG . Q 7 NAG C 1 701 583 NAG NAG . R 7 NAG C 1 702 584 NAG NAG . S 7 NAG D 1 701 583 NAG NAG . T 7 NAG D 1 702 584 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 NDG . . . N 6 156.988 178.559 187.887 1 122.08 ? C1 NDG 902 B 1 HETATM 2 C C2 NDG . . . N 6 158.313 177.763 187.915 1 122.08 ? C2 NDG 902 B 1 HETATM 3 C C3 NDG . . . N 6 158.968 177.884 189.292 1 122.08 ? C3 NDG 902 B 1 HETATM 4 C C4 NDG . . . N 6 159.135 179.35 189.679 1 122.08 ? C4 NDG 902 B 1 HETATM 5 C C5 NDG . . . N 6 157.777 180.062 189.596 1 122.08 ? C5 NDG 902 B 1 HETATM 6 C C6 NDG . . . N 6 157.88 181.572 189.827 1 122.08 ? C6 NDG 902 B 1 HETATM 7 C C7 NDG . . . N 6 158.526 175.791 186.413 1 122.08 ? C7 NDG 902 B 1 HETATM 8 C C8 NDG . . . N 6 159.128 176.752 185.395 1 122.08 ? C8 NDG 902 B 1 HETATM 9 O O5 NDG . . . N 6 157.223 179.909 188.287 1 122.08 ? O5 NDG 902 B 1 HETATM 10 O O3 NDG . . . N 6 160.222 177.215 189.247 1 122.08 ? O3 NDG 902 B 1 HETATM 11 O O4 NDG . . . N 6 159.67 179.358 190.996 1 122.08 ? O4 NDG 902 B 1 HETATM 12 O O6 NDG . . . N 6 157.023 182.309 188.944 1 122.08 ? O6 NDG 902 B 1 HETATM 13 O O7 NDG . . . N 6 158.386 174.595 186.178 1 122.08 ? O7 NDG 902 B 1 HETATM 14 N N2 NDG . . . N 6 158.16 176.35 187.605 1 122.08 ? N2 NDG 902 B 1 # _model_server_stats.io_time_ms 33 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 88 _model_server_stats.query_time_ms 329 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 14 #