data_7XB1 # _model_server_result.job_id 0wGcnQ7GxE0e1iJvhw9DWA _model_server_result.datetime_utc '2025-06-30 07:37:13' _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 7xb1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":704}' # _entry.id 7XB1 # _exptl.entry_id 7XB1 _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 3 _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 7XB1 _cell.length_a 101.05 _cell.length_b 101.05 _cell.length_c 222.207 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7XB1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall 'P 4abw 2nw' _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_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 _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 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 ? 7 G N N ? 7 H N N ? 7 I N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 3 oligosaccharide 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 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 4 3 2 BMA NAG C1 O1 . O4 HO4 . sing 4 ? 4 4 1 FUC NAG C1 O1 . O6 HO6 . sing 5 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 6 ? 5 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 3 n C NAG 1 C 1 NAG A 805 NAG 3 n C NAG 2 C 2 NAG A 806 NAG 4 n D NAG 1 D 1 NAG A 810 NAG 4 n D NAG 2 D 2 NAG A 812 NAG 4 n D BMA 3 D 3 BMA A 813 BMA 4 n D FUC 4 D 4 FUC A 811 FUC 5 n E NAG 1 E 1 NAG B 601 NAG 5 n E NAG 2 E 2 NAG B 602 NAG 5 n E BMA 3 E 3 BMA B 604 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 115 A CYS 133 1_555 A SG CYS 123 A CYS 141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf2 A SG CYS 326 A CYS 344 1_555 A SG CYS 343 A CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 A SG CYS 512 A CYS 530 1_555 A SG CYS 524 A CYS 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf4 B SG CYS 4 B CYS 336 1_555 B SG CYS 29 B CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 B SG CYS 47 B CYS 379 1_555 B SG CYS 100 B CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf6 B SG CYS 59 B CYS 391 1_555 B SG CYS 193 B CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf7 B SG CYS 148 B CYS 480 1_555 B SG CYS 156 B CYS 488 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? covale ? covale1 A ND2 ASN 35 A ASN 53 1_555 G C1 NAG . A NAG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale2 A ND2 ASN 72 A ASN 90 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale3 A ND2 ASN 85 A ASN 103 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale4 A ND2 ASN 304 A ASN 322 1_555 H C1 NAG . A NAG 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale5 A ND2 ASN 414 A ASN 432 1_555 I C1 NAG . A NAG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale6 B ND2 ASN 11 B ASN 343 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale7 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.461 ? covale ? covale8 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale9 D O6 NAG . D NAG 1 1_555 D C1 FUC . D FUC 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale10 D O4 NAG . D NAG 2 1_555 D C1 BMA . D BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale11 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale12 E O4 NAG . E NAG 2 1_555 E C1 BMA . E BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? metalc ? metalc1 A NE2 HIS 356 A HIS 374 1_555 F ZN ZN . A ZN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? metalc ? metalc2 A NE2 HIS 360 A HIS 378 1_555 F ZN ZN . A ZN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.097 ? metalc ? metalc3 A OE2 GLU 384 A GLU 402 1_555 F ZN ZN . A ZN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.996 ? # _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 284 n n C1 O1 NAG sing 285 n n C1 O5 NAG sing 286 n n C1 H1 NAG sing 287 n n C2 C3 NAG sing 288 n n C2 N2 NAG sing 289 n n C2 H2 NAG sing 290 n n C3 C4 NAG sing 291 n n C3 O3 NAG sing 292 n n C3 H3 NAG sing 293 n n C4 C5 NAG sing 294 n n C4 O4 NAG sing 295 n n C4 H4 NAG sing 296 n n C5 C6 NAG sing 297 n n C5 O5 NAG sing 298 n n C5 H5 NAG sing 299 n n C6 O6 NAG sing 300 n n C6 H61 NAG sing 301 n n C6 H62 NAG sing 302 n n C7 C8 NAG sing 303 n n C7 N2 NAG sing 304 n n C7 O7 NAG doub 305 n n C8 H81 NAG sing 306 n n C8 H82 NAG sing 307 n n C8 H83 NAG sing 308 n n N2 HN2 NAG sing 309 n n O1 HO1 NAG sing 310 n n O3 HO3 NAG sing 311 n n O4 HO4 NAG sing 312 n n O6 HO6 NAG sing 313 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 7XB1 _atom_sites.fract_transf_matrix[1][1] 0.009896 _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] 0.009896 _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] 0.0045 _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 ZN A 1 701 701 ZN ZN . G 7 NAG A 1 702 804 NAG NAG . H 7 NAG A 1 703 807 NAG NAG . I 7 NAG A 1 704 808 NAG NAG . J 8 HOH A 1 801 16 HOH HOH . J 8 HOH A 2 802 53 HOH HOH . J 8 HOH A 3 803 60 HOH HOH . J 8 HOH A 4 804 32 HOH HOH . J 8 HOH A 5 805 12 HOH HOH . J 8 HOH A 6 806 29 HOH HOH . J 8 HOH A 7 807 74 HOH HOH . J 8 HOH A 8 808 26 HOH HOH . J 8 HOH A 9 809 67 HOH HOH . J 8 HOH A 10 810 30 HOH HOH . J 8 HOH A 11 811 68 HOH HOH . J 8 HOH A 12 812 7 HOH HOH . J 8 HOH A 13 813 28 HOH HOH . J 8 HOH A 14 814 71 HOH HOH . J 8 HOH A 15 815 73 HOH HOH . J 8 HOH A 16 816 48 HOH HOH . J 8 HOH A 17 817 54 HOH HOH . J 8 HOH A 18 818 47 HOH HOH . J 8 HOH A 19 819 62 HOH HOH . J 8 HOH A 20 820 50 HOH HOH . J 8 HOH A 21 821 23 HOH HOH . J 8 HOH A 22 822 1 HOH HOH . J 8 HOH A 23 823 9 HOH HOH . J 8 HOH A 24 824 13 HOH HOH . J 8 HOH A 25 825 56 HOH HOH . J 8 HOH A 26 826 36 HOH HOH . J 8 HOH A 27 827 44 HOH HOH . J 8 HOH A 28 828 39 HOH HOH . J 8 HOH A 29 829 38 HOH HOH . J 8 HOH A 30 830 24 HOH HOH . J 8 HOH A 31 831 70 HOH HOH . J 8 HOH A 32 832 27 HOH HOH . J 8 HOH A 33 833 15 HOH HOH . J 8 HOH A 34 834 43 HOH HOH . J 8 HOH A 35 835 6 HOH HOH . J 8 HOH A 36 836 22 HOH HOH . J 8 HOH A 37 837 20 HOH HOH . J 8 HOH A 38 838 33 HOH HOH . J 8 HOH A 39 839 35 HOH HOH . J 8 HOH A 40 840 25 HOH HOH . J 8 HOH A 41 841 64 HOH HOH . K 8 HOH B 1 601 58 HOH HOH . K 8 HOH B 2 602 61 HOH HOH . K 8 HOH B 3 603 37 HOH HOH . K 8 HOH B 4 604 65 HOH HOH . K 8 HOH B 5 605 63 HOH HOH . K 8 HOH B 6 606 31 HOH HOH . K 8 HOH B 7 607 4 HOH HOH . K 8 HOH B 8 608 41 HOH HOH . K 8 HOH B 9 609 49 HOH HOH . # 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 . . . I 7 2.765 -3.728 -33.086 1 99.81 ? C1 NAG 704 A 1 HETATM 2 C C2 NAG . . . I 7 2.511 -3.302 -34.528 1 96.18 ? C2 NAG 704 A 1 HETATM 3 C C3 NAG . . . I 7 3.152 -4.297 -35.488 1 105.72 ? C3 NAG 704 A 1 HETATM 4 C C4 NAG . . . I 7 4.631 -4.466 -35.162 1 113.26 ? C4 NAG 704 A 1 HETATM 5 C C5 NAG . . . I 7 4.816 -4.817 -33.687 1 119.02 ? C5 NAG 704 A 1 HETATM 6 C C6 NAG . . . I 7 6.267 -4.856 -33.268 1 110.62 ? C6 NAG 704 A 1 HETATM 7 C C7 NAG . . . I 7 0.428 -2.02 -34.679 1 81.18 ? C7 NAG 704 A 1 HETATM 8 C C8 NAG . . . I 7 -1.037 -2.069 -34.973 1 72.76 ? C8 NAG 704 A 1 HETATM 9 N N2 NAG . . . I 7 1.087 -3.178 -34.789 1 84.69 ? N2 NAG 704 A 1 HETATM 10 O O3 NAG . . . I 7 2.997 -3.836 -36.825 1 101.71 ? O3 NAG 704 A 1 HETATM 11 O O4 NAG . . . I 7 5.191 -5.5 -35.963 1 96.97 ? O4 NAG 704 A 1 HETATM 12 O O5 NAG . . . I 7 4.173 -3.835 -32.858 1 112.4 ? O5 NAG 704 A 1 HETATM 13 O O6 NAG . . . I 7 6.397 -4.919 -31.854 1 99.28 ? O6 NAG 704 A 1 HETATM 14 O O7 NAG . . . I 7 0.993 -0.98 -34.356 1 85.03 ? O7 NAG 704 A 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 24 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 252 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 14 #