data_7DD7 # _model_server_result.job_id VR8mrnCJvTCFFGE7zn77ZA _model_server_result.datetime_utc '2024-11-09 02:18:22' _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 7dd7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"U","auth_seq_id":1107}' # _entry.id 7DD7 # _exptl.entry_id 7DD7 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 221.208 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 6 _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 7DD7 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7DD7 _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _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,U,V,W,X _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 ? 5 J N N ? 5 K N N ? 5 L N N ? 5 T N N ? 5 U N N ? 5 V 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 C NAG 1 C 1 NAG A 1487 NAG 2 n C NAG 2 C 2 NAG A 1488 NAG 2 n D NAG 1 D 1 NAG A 1540 NAG 2 n D NAG 2 D 2 NAG A 1541 NAG 2 n E NAG 1 E 1 NAG B 1487 NAG 2 n E NAG 2 E 2 NAG B 1488 NAG 2 n F NAG 1 F 1 NAG B 1540 NAG 2 n F NAG 2 F 2 NAG B 1541 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 60 A CYS 60 1_555 A SG CYS 101 A CYS 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.731 ? disulf ? disulf2 A SG CYS 236 A CYS 236 1_555 A SG CYS 560 A CYS 560 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 A SG CYS 358 A CYS 358 1_555 A SG CYS 394 A CYS 394 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf4 A SG CYS 436 A CYS 436 1_555 A SG CYS 448 A CYS 448 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.238 ? disulf ? disulf5 A SG CYS 541 A CYS 541 1_555 A SG CYS 561 A CYS 561 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf6 A SG CYS 545 A CYS 545 1_555 A SG CYS 564 A CYS 564 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf7 A SG CYS 567 A CYS 567 1_555 A SG CYS 581 A CYS 581 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf8 A SG CYS 584 A CYS 584 1_555 A SG CYS 597 A CYS 597 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.131 ? disulf ? disulf9 B SG CYS 60 B CYS 60 1_555 B SG CYS 101 B CYS 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf10 B SG CYS 236 B CYS 236 1_555 B SG CYS 560 B CYS 560 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf11 B SG CYS 358 B CYS 358 1_555 B SG CYS 394 B CYS 394 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf12 B SG CYS 436 B CYS 436 1_555 B SG CYS 448 B CYS 448 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf13 B SG CYS 541 B CYS 541 1_555 B SG CYS 561 B CYS 561 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.66 ? disulf ? disulf14 B SG CYS 567 B CYS 567 1_555 B SG CYS 581 B CYS 581 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf15 B SG CYS 584 B CYS 584 1_555 B SG CYS 597 B CYS 597 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.994 ? covale ? covale1 A ND2 ASN 287 A ASN 287 1_555 J C1 NAG . A NAG 1104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale2 A ND2 ASN 399 A ASN 399 1_555 K C1 NAG . A NAG 1105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale3 A ND2 ASN 467 A ASN 467 1_555 L C1 NAG . A NAG 1106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale4 A ND2 ASN 487 A ASN 487 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale5 A ND2 ASN 540 A ASN 540 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale6 B ND2 ASN 287 B ASN 287 1_555 T C1 NAG . B NAG 1106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale7 B ND2 ASN 399 B ASN 399 1_555 U C1 NAG . B NAG 1107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale8 B ND2 ASN 467 B ASN 467 1_555 V C1 NAG . B NAG 1108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale9 B ND2 ASN 487 B ASN 487 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale10 B ND2 ASN 540 B ASN 540 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale11 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale12 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale13 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale14 F O4 NAG . F NAG 1 1_555 F C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.431 ? metalc ? metalc1 A OG1 THR 100 A THR 100 1_555 I CA CA . A CA 1103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.474 ? metalc ? metalc2 A OG SER 302 A SER 302 1_555 H CA CA . A CA 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.315 ? metalc ? metalc3 A O GLY 556 A GLY 556 1_555 Q CA CA . B CA 1103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.111 ? metalc ? metalc4 B OG1 THR 100 B THR 100 1_555 S CA CA . B CA 1105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.667 ? metalc ? metalc5 B O ALA 144 B ALA 144 1_555 S CA CA . B CA 1105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.321 ? metalc ? metalc6 B OD1 ASP 234 B ASP 234 1_555 Q CA CA . B CA 1103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.697 ? metalc ? metalc7 B OG SER 302 B SER 302 1_555 R CA CA . B CA 1104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.386 ? # _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 7DD7 _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 G 3 CL A 1 1101 1000 CL CL . H 4 CA A 1 1102 1102 CA CA . I 4 CA A 1 1103 1103 CA CA . J 5 NAG A 1 1104 1287 NAG NAG . K 5 NAG A 1 1105 1399 NAG NAG . L 5 NAG A 1 1106 1467 NAG NAG . M 6 TRP A 1 1107 1700 TRP TRP . N 7 H43 A 1 1108 1801 H43 EVC . O 4 CA B 1 1101 1101 CA CA . P 3 CL B 1 1102 1000 CL CL . Q 4 CA B 1 1103 1101 CA CA . R 4 CA B 1 1104 1102 CA CA . S 4 CA B 1 1105 1103 CA CA . T 5 NAG B 1 1106 1287 NAG NAG . U 5 NAG B 1 1107 1399 NAG NAG . V 5 NAG B 1 1108 1467 NAG NAG . W 6 TRP B 1 1109 1700 TRP TRP . X 7 H43 B 1 1110 1801 H43 EVC . # 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 . . . U 5 106.287 142.24 235.827 1 120.9 ? C1 NAG 1107 B 1 HETATM 2 C C2 NAG . . . U 5 106.38 141.773 234.371 1 120.9 ? C2 NAG 1107 B 1 HETATM 3 C C3 NAG . . . U 5 105.737 140.453 234.185 1 120.9 ? C3 NAG 1107 B 1 HETATM 4 C C4 NAG . . . U 5 105.414 139.75 235.462 1 120.9 ? C4 NAG 1107 B 1 HETATM 5 C C5 NAG . . . U 5 106.452 139.925 236.592 1 120.9 ? C5 NAG 1107 B 1 HETATM 6 C C6 NAG . . . U 5 107.573 138.964 236.375 1 120.9 ? C6 NAG 1107 B 1 HETATM 7 C C7 NAG . . . U 5 105.872 142.699 232.054 1 120.9 ? C7 NAG 1107 B 1 HETATM 8 C C8 NAG . . . U 5 105.177 143.72 231.158 1 120.9 ? C8 NAG 1107 B 1 HETATM 9 N N2 NAG . . . U 5 105.703 142.767 233.496 1 120.9 ? N2 NAG 1107 B 1 HETATM 10 O O3 NAG . . . U 5 106.624 139.613 233.381 1 120.9 ? O3 NAG 1107 B 1 HETATM 11 O O4 NAG . . . U 5 104.135 140.201 235.929 1 120.9 ? O4 NAG 1107 B 1 HETATM 12 O O5 NAG . . . U 5 107.001 141.292 236.712 1 120.9 ? O5 NAG 1107 B 1 HETATM 13 O O6 NAG . . . U 5 107.498 137.973 237.361 1 120.9 ? O6 NAG 1107 B 1 HETATM 14 O O7 NAG . . . U 5 106.551 141.855 231.573 1 120.9 ? O7 NAG 1107 B 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 300 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 14 #