data_8W3L # _model_server_result.job_id KzMLZb445sNzV_pcpyfsWw _model_server_result.datetime_utc '2025-08-21 02:56:21' _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 8w3l # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":604}' # _entry.id 8W3L # _exptl.entry_id 8W3L _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 1 _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 8W3L _cell.length_a 168.482 _cell.length_b 168.482 _cell.length_c 168.482 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8W3L _symmetry.cell_setting ? _symmetry.Int_Tables_number 213 _symmetry.space_group_name_Hall 'P 4bd 2ab 3' _symmetry.space_group_name_H-M 'P 41 3 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # 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' 5_663 z+1,x+1,y-2 0 0 1 1 0 0 0 1 0 168.482 168.482 -336.964 3 'crystal symmetry operation' 9_474 y-1,z+2,x-1 0 1 0 0 0 1 1 0 0 -168.482 336.964 -168.482 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # 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 41 F CYS 37 1_555 A SG CYS 404 F CYS 439 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf2 A SG CYS 73 F CYS 69 1_555 A SG CYS 177 F CYS 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? disulf ? disulf3 A SG CYS 114 F CYS 149 1_555 A SG CYS 423 F CYS 458 5_663 ? ? ? ? ? ? ? ? ? ? ? ? 2.092 ? disulf ? disulf4 A SG CYS 120 F CYS 155 1_555 A SG CYS 255 F CYS 290 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? disulf ? disulf5 A SG CYS 278 F CYS 313 1_555 A SG CYS 308 F CYS 343 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf6 A SG CYS 287 F CYS 322 1_555 A SG CYS 298 F CYS 333 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? disulf ? disulf7 A SG CYS 323 F CYS 358 1_555 A SG CYS 332 F CYS 367 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? disulf ? disulf8 A SG CYS 347 F CYS 382 1_555 A SG CYS 358 F CYS 393 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.074 ? disulf ? disulf9 A SG CYS 381 F CYS 416 1_555 A SG CYS 387 F CYS 422 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.116 ? covale ? covale1 A ND2 ASN 465 F ASN 500 1_555 E C1 NAG . F NAG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? # _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 246 n n C1 O1 NAG sing 247 n n C1 O5 NAG sing 248 n n C1 H1 NAG sing 249 n n C2 C3 NAG sing 250 n n C2 N2 NAG sing 251 n n C2 H2 NAG sing 252 n n C3 C4 NAG sing 253 n n C3 O3 NAG sing 254 n n C3 H3 NAG sing 255 n n C4 C5 NAG sing 256 n n C4 O4 NAG sing 257 n n C4 H4 NAG sing 258 n n C5 C6 NAG sing 259 n n C5 O5 NAG sing 260 n n C5 H5 NAG sing 261 n n C6 O6 NAG sing 262 n n C6 H61 NAG sing 263 n n C6 H62 NAG sing 264 n n C7 C8 NAG sing 265 n n C7 N2 NAG sing 266 n n C7 O7 NAG doub 267 n n C8 H81 NAG sing 268 n n C8 H82 NAG sing 269 n n C8 H83 NAG sing 270 n n N2 HN2 NAG sing 271 n n O1 HO1 NAG sing 272 n n O3 HO3 NAG sing 273 n n O4 HO4 NAG sing 274 n n O6 HO6 NAG sing 275 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 8W3L _atom_sites.fract_transf_matrix[1][1] 0.005935 _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] 0.005935 _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] 0.005935 _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 B 2 EDO F 1 601 540 EDO EDO . C 2 EDO F 1 602 541 EDO EDO . D 2 EDO F 1 603 542 EDO EDO . E 3 NAG F 1 604 543 NAG NAG . F 4 HOH F 1 701 27 HOH HOH . F 4 HOH F 2 702 41 HOH HOH . F 4 HOH F 3 703 21 HOH HOH . F 4 HOH F 4 704 73 HOH HOH . F 4 HOH F 5 705 25 HOH HOH . F 4 HOH F 6 706 34 HOH HOH . F 4 HOH F 7 707 44 HOH HOH . F 4 HOH F 8 708 31 HOH HOH . F 4 HOH F 9 709 32 HOH HOH . F 4 HOH F 10 710 22 HOH HOH . F 4 HOH F 11 711 55 HOH HOH . F 4 HOH F 12 712 74 HOH HOH . F 4 HOH F 13 713 35 HOH HOH . F 4 HOH F 14 714 64 HOH HOH . F 4 HOH F 15 715 9 HOH HOH . F 4 HOH F 16 716 46 HOH HOH . F 4 HOH F 17 717 26 HOH HOH . F 4 HOH F 18 718 23 HOH HOH . F 4 HOH F 19 719 10 HOH HOH . F 4 HOH F 20 720 11 HOH HOH . F 4 HOH F 21 721 60 HOH HOH . F 4 HOH F 22 722 1 HOH HOH . F 4 HOH F 23 723 30 HOH HOH . F 4 HOH F 24 724 42 HOH HOH . F 4 HOH F 25 725 75 HOH HOH . F 4 HOH F 26 726 37 HOH HOH . F 4 HOH F 27 727 45 HOH HOH . F 4 HOH F 28 728 15 HOH HOH . F 4 HOH F 29 729 66 HOH HOH . F 4 HOH F 30 730 5 HOH HOH . F 4 HOH F 31 731 13 HOH HOH . F 4 HOH F 32 732 3 HOH HOH . F 4 HOH F 33 733 77 HOH HOH . F 4 HOH F 34 734 70 HOH HOH . F 4 HOH F 35 735 48 HOH HOH . F 4 HOH F 36 736 53 HOH HOH . F 4 HOH F 37 737 61 HOH HOH . F 4 HOH F 38 738 71 HOH HOH . F 4 HOH F 39 739 29 HOH HOH . F 4 HOH F 40 740 72 HOH HOH . F 4 HOH F 41 741 36 HOH HOH . F 4 HOH F 42 742 58 HOH HOH . F 4 HOH F 43 743 17 HOH HOH . F 4 HOH F 44 744 24 HOH HOH . F 4 HOH F 45 745 20 HOH HOH . F 4 HOH F 46 746 67 HOH HOH . F 4 HOH F 47 747 16 HOH HOH . F 4 HOH F 48 748 62 HOH HOH . F 4 HOH F 49 749 14 HOH HOH . F 4 HOH F 50 750 47 HOH HOH . F 4 HOH F 51 751 54 HOH HOH . F 4 HOH F 52 752 33 HOH HOH . F 4 HOH F 53 753 76 HOH HOH . F 4 HOH F 54 754 56 HOH HOH . F 4 HOH F 55 755 7 HOH HOH . F 4 HOH F 56 756 8 HOH HOH . F 4 HOH F 57 757 43 HOH HOH . F 4 HOH F 58 758 50 HOH HOH . F 4 HOH F 59 759 63 HOH HOH . F 4 HOH F 60 760 12 HOH HOH . F 4 HOH F 61 761 2 HOH HOH . F 4 HOH F 62 762 52 HOH HOH . F 4 HOH F 63 763 38 HOH HOH . F 4 HOH F 64 764 6 HOH HOH . F 4 HOH F 65 765 18 HOH HOH . F 4 HOH F 66 766 69 HOH HOH . F 4 HOH F 67 767 68 HOH HOH . F 4 HOH F 68 768 39 HOH HOH . F 4 HOH F 69 769 59 HOH HOH . F 4 HOH F 70 770 19 HOH HOH . F 4 HOH F 71 771 51 HOH HOH . F 4 HOH F 72 772 4 HOH HOH . F 4 HOH F 73 773 65 HOH HOH . F 4 HOH F 74 774 28 HOH HOH . F 4 HOH F 75 775 79 HOH HOH . F 4 HOH F 76 776 49 HOH HOH . F 4 HOH F 77 777 57 HOH HOH . F 4 HOH F 78 778 78 HOH HOH . F 4 HOH F 79 779 40 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 . . . E 3 194.899 360.293 44.983 1 121.82 ? C1 NAG 604 F 1 HETATM 2 C C2 NAG . . . E 3 193.461 359.764 44.838 1 127.1 ? C2 NAG 604 F 1 HETATM 3 C C3 NAG . . . E 3 192.983 359.184 46.179 1 129.15 ? C3 NAG 604 F 1 HETATM 4 C C4 NAG . . . E 3 193.972 358.151 46.716 1 126.95 ? C4 NAG 604 F 1 HETATM 5 C C5 NAG . . . E 3 195.373 358.751 46.793 1 128.28 ? C5 NAG 604 F 1 HETATM 6 C C6 NAG . . . E 3 196.432 357.769 47.244 1 126.98 ? C6 NAG 604 F 1 HETATM 7 C C7 NAG . . . E 3 191.493 360.713 43.621 1 114.15 ? C7 NAG 604 F 1 HETATM 8 C C8 NAG . . . E 3 190.746 361.982 43.306 1 99.11 ? C8 NAG 604 F 1 HETATM 9 N N2 NAG . . . E 3 192.579 360.847 44.405 1 126.81 ? N2 NAG 604 F 1 HETATM 10 O O3 NAG . . . E 3 191.71 358.57 46.013 1 132.05 ? O3 NAG 604 F 1 HETATM 11 O O4 NAG . . . E 3 193.588 357.685 48.006 1 121.9 ? O4 NAG 604 F 1 HETATM 12 O O5 NAG . . . E 3 195.762 359.244 45.501 1 125.23 ? O5 NAG 604 F 1 HETATM 13 O O6 NAG . . . E 3 196.95 358.105 48.526 1 118.41 ? O6 NAG 604 F 1 HETATM 14 O O7 NAG . . . E 3 191.126 359.625 43.189 1 111.56 ? O7 NAG 604 F 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 284 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #