data_6ZB4 # _model_server_result.job_id xm07pUBoKXAVu8rhpcuikg _model_server_result.datetime_utc '2024-11-08 13:50:52' _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 6zb4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"EA","auth_seq_id":2109}' # _entry.id 6ZB4 # _exptl.entry_id 6ZB4 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 221.208 _entity.id 3 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 25 _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 6ZB4 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 6ZB4 _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 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,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA _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 ? 3 E N N ? 3 F N N ? 3 G N N ? 3 H N N ? 3 I N N ? 3 J N N ? 3 L N N ? 3 M N N ? 3 N N N ? 3 O N N ? 3 P N N ? 3 Q N N ? 3 R N N ? 3 S N N ? 3 T N N ? 3 U N N ? 3 W N N ? 3 X N N ? 3 Y N N ? 3 Z N N ? 3 AA N N ? 3 BA N N ? 3 CA N N ? 3 DA N N ? 3 EA N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order 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 2 n D NAG 1 D 1 NAG D 1312 NAG 2 n D NAG 2 D 2 NAG D 1313 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 291 C CYS 291 1_555 A SG CYS 301 C CYS 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf2 A SG CYS 336 C CYS 336 1_555 A SG CYS 361 C CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 A SG CYS 379 C CYS 379 1_555 A SG CYS 432 C CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf4 A SG CYS 391 C CYS 391 1_555 A SG CYS 525 C CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf5 A SG CYS 538 C CYS 538 1_555 A SG CYS 590 C CYS 590 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf6 A SG CYS 617 C CYS 617 1_555 A SG CYS 649 C CYS 649 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf7 A SG CYS 662 C CYS 662 1_555 A SG CYS 671 C CYS 671 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf8 A SG CYS 743 C CYS 740 1_555 A SG CYS 749 C CYS 746 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf9 A SG CYS 840 C CYS 837 1_555 A SG CYS 851 C CYS 848 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf10 A SG CYS 1032 C CYS 1029 1_555 A SG CYS 1043 C CYS 1040 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf11 B SG CYS 291 B CYS 291 1_555 B SG CYS 301 B CYS 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf12 B SG CYS 336 B CYS 336 1_555 B SG CYS 361 B CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf13 B SG CYS 379 B CYS 379 1_555 B SG CYS 432 B CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf14 B SG CYS 391 B CYS 391 1_555 B SG CYS 525 B CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf15 B SG CYS 480 B CYS 480 1_555 B SG CYS 488 B CYS 488 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf16 B SG CYS 538 B CYS 538 1_555 B SG CYS 590 B CYS 590 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf17 B SG CYS 617 B CYS 617 1_555 B SG CYS 649 B CYS 649 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf18 B SG CYS 662 B CYS 662 1_555 B SG CYS 671 B CYS 671 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf19 B SG CYS 743 B CYS 740 1_555 B SG CYS 749 B CYS 746 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf20 B SG CYS 840 B CYS 837 1_555 B SG CYS 851 B CYS 848 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf21 B SG CYS 1032 B CYS 1029 1_555 B SG CYS 1043 B CYS 1040 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf22 C SG CYS 291 A CYS 291 1_555 C SG CYS 301 A CYS 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf23 C SG CYS 336 A CYS 336 1_555 C SG CYS 361 A CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf24 C SG CYS 379 A CYS 379 1_555 C SG CYS 432 A CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf25 C SG CYS 391 A CYS 391 1_555 C SG CYS 525 A CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf26 C SG CYS 538 A CYS 538 1_555 C SG CYS 590 A CYS 590 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf27 C SG CYS 617 A CYS 617 1_555 C SG CYS 649 A CYS 649 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf28 C SG CYS 662 A CYS 662 1_555 C SG CYS 671 A CYS 671 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf29 C SG CYS 743 A CYS 740 1_555 C SG CYS 749 A CYS 746 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf30 C SG CYS 840 A CYS 837 1_555 C SG CYS 851 A CYS 848 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf31 C SG CYS 1032 A CYS 1029 1_555 C SG CYS 1043 A CYS 1040 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? covale ? covale1 A ND2 ASN 234 C ASN 234 1_555 J C1 NAG . C NAG 1406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.467 ? covale ? covale2 A ND2 ASN 616 C ASN 616 1_555 G C1 NAG . C NAG 1403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale3 A ND2 ASN 717 C ASN 714 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.543 ? covale ? covale4 C ND2 ASN 343 A ASN 343 1_555 Z C1 NAG . A NAG 2104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.477 ? covale ? covale5 C ND2 ASN 717 A ASN 714 1_555 X C1 NAG . A NAG 2102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale6 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? # _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_ _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 6ZB4 _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 E 3 NAG C 1 1401 1401 NAG NAG . F 3 NAG C 1 1402 1501 NAG NAG . G 3 NAG C 1 1403 1701 NAG NAG . H 3 NAG C 1 1404 1801 NAG NAG . I 3 NAG C 1 1405 1901 NAG NAG . J 3 NAG C 1 1406 2001 NAG NAG . K 4 EIC C 1 1407 1601 EIC EIC . L 3 NAG B 1 1301 1312 NAG NAG . M 3 NAG B 1 1302 1313 NAG NAG . N 3 NAG B 1 1303 1401 NAG NAG . O 3 NAG B 1 1304 1501 NAG NAG . P 3 NAG B 1 1305 1701 NAG NAG . Q 3 NAG B 1 1306 1801 NAG NAG . R 3 NAG B 1 1307 1901 NAG NAG . S 3 NAG B 1 1308 2001 NAG NAG . T 3 NAG B 1 1309 2101 NAG NAG . U 3 NAG B 1 1310 2201 NAG NAG . V 4 EIC B 1 1311 1602 EIC EIC . W 3 NAG A 1 2101 2101 NAG NAG . X 3 NAG A 1 2102 1312 NAG NAG . Y 3 NAG A 1 2103 1313 NAG NAG . Z 3 NAG A 1 2104 1401 NAG NAG . AA 3 NAG A 1 2105 1501 NAG NAG . BA 3 NAG A 1 2106 1701 NAG NAG . CA 3 NAG A 1 2107 1801 NAG NAG . DA 3 NAG A 1 2108 1901 NAG NAG . EA 3 NAG A 1 2109 2001 NAG NAG . FA 4 EIC A 1 2110 1603 EIC EIC . # 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 . . . EA 3 126.253 96.351 47.291 1 80.1 ? C1 NAG 2109 A 1 HETATM 2 C C2 NAG . . . EA 3 125.789 97.194 46.112 1 80.1 ? C2 NAG 2109 A 1 HETATM 3 C C3 NAG . . . EA 3 124.554 97.967 46.395 1 80.1 ? C3 NAG 2109 A 1 HETATM 4 C C4 NAG . . . EA 3 123.486 97.14 47.03 1 80.1 ? C4 NAG 2109 A 1 HETATM 5 C C5 NAG . . . EA 3 124.005 96.374 48.249 1 80.1 ? C5 NAG 2109 A 1 HETATM 6 C C6 NAG . . . EA 3 122.895 95.499 48.805 1 80.1 ? C6 NAG 2109 A 1 HETATM 7 C C7 NAG . . . EA 3 126.806 98.991 44.568 1 80.1 ? C7 NAG 2109 A 1 HETATM 8 C C8 NAG . . . EA 3 127.934 99.959 44.234 1 80.1 ? C8 NAG 2109 A 1 HETATM 9 N N2 NAG . . . EA 3 126.893 98.153 45.773 1 80.1 ? N2 NAG 2109 A 1 HETATM 10 O O3 NAG . . . EA 3 124.038 98.498 45.154 1 80.1 ? O3 NAG 2109 A 1 HETATM 11 O O4 NAG . . . EA 3 122.425 98.006 47.431 1 80.1 ? O4 NAG 2109 A 1 HETATM 12 O O5 NAG . . . EA 3 125.15 95.535 47.896 1 80.1 ? O5 NAG 2109 A 1 HETATM 13 O O6 NAG . . . EA 3 122.84 95.65 50.222 1 80.1 ? O6 NAG 2109 A 1 HETATM 14 O O7 NAG . . . EA 3 125.861 98.912 43.857 1 80.1 ? O7 NAG 2109 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 50 _model_server_stats.query_time_ms 317 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #